Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/h/htsjdk/htsjdk_2.24.1+dfsg-1_all.buildinfo
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Get source package info: htsjdk=2.24.1+dfsg-1
Source URL: http://snapshot.notset.fr/mr/package/htsjdk/2.24.1+dfsg-1/srcfiles?fileinfo=1
Initialize APT cache
Get binary package info: adduser=3.118
Binary URL: http://snapshot.notset.fr/mr/binary/adduser/3.118/binfiles?fileinfo=1
Get binary package info: ant=1.10.11-1
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Get binary package info: ant-optional=1.10.11-1
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Get binary package info: antlr=2.7.7+dfsg-12
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Get binary package info: autoconf=2.71-2
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Get binary package info: automake=1:1.16.5-1.1
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Get binary package info: autopoint=0.21-4
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Get binary package info: autotools-dev=20180224.1+nmu1
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Get binary package info: base-files=12
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Get binary package info: base-passwd=3.5.52
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Get binary package info: bash=5.1-3.1
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Get binary package info: binutils=2.37-10
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Get binary package info: binutils-common=2.37-10
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Get binary package info: binutils-x86-64-linux-gnu=2.37-10
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Get binary package info: bnd=5.0.1-3
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Get binary package info: bsdextrautils=2.37.2-4
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Get binary package info: bsdutils=1:2.37.2-4
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Get binary package info: build-essential=12.9
Binary URL: http://snapshot.notset.fr/mr/binary/build-essential/12.9/binfiles?fileinfo=1
Get binary package info: bzip2=1.0.8-4
Binary URL: http://snapshot.notset.fr/mr/binary/bzip2/1.0.8-4/binfiles?fileinfo=1
Get binary package info: ca-certificates=20211016
Binary URL: http://snapshot.notset.fr/mr/binary/ca-certificates/20211016/binfiles?fileinfo=1
Get binary package info: ca-certificates-java=20190909
Binary URL: http://snapshot.notset.fr/mr/binary/ca-certificates-java/20190909/binfiles?fileinfo=1
Get binary package info: coreutils=8.32-4.1
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Get binary package info: cpp=4:11.2.0-2
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Get binary package info: cpp-11=11.2.0-12
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Get binary package info: dash=0.5.11+git20210903+057cd650a4ed-3
Binary URL: http://snapshot.notset.fr/mr/binary/dash/0.5.11+git20210903+057cd650a4ed-3/binfiles?fileinfo=1
Get binary package info: dctrl-tools=2.24-3+b1
Binary URL: http://snapshot.notset.fr/mr/binary/dctrl-tools/2.24-3+b1/binfiles?fileinfo=1
Get binary package info: debconf=1.5.79
Binary URL: http://snapshot.notset.fr/mr/binary/debconf/1.5.79/binfiles?fileinfo=1
Get binary package info: debhelper=13.5.2
Binary URL: http://snapshot.notset.fr/mr/binary/debhelper/13.5.2/binfiles?fileinfo=1
Get binary package info: debianutils=5.5-1
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Get binary package info: default-jdk=2:1.11-72
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Get binary package info: default-jdk-headless=2:1.11-72
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Get binary package info: default-jre=2:1.11-72
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Get binary package info: default-jre-headless=2:1.11-72
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Get binary package info: devscripts=2.21.5
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Get binary package info: dh-autoreconf=20
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Get binary package info: dh-strip-nondeterminism=1.12.1-1
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Get binary package info: diffutils=1:3.7-5
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Get binary package info: dirmngr=2.2.27-2
Binary URL: http://snapshot.notset.fr/mr/binary/dirmngr/2.2.27-2/binfiles?fileinfo=1
Get binary package info: dpkg=1.20.9
Binary URL: http://snapshot.notset.fr/mr/binary/dpkg/1.20.9/binfiles?fileinfo=1
Get binary package info: dpkg-dev=1.20.9
Binary URL: http://snapshot.notset.fr/mr/binary/dpkg-dev/1.20.9/binfiles?fileinfo=1
Get binary package info: dwz=0.14-1
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Get binary package info: fakeroot=1.26-1
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Get binary package info: file=1:5.41-2
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Get binary package info: findutils=4.8.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/findutils/4.8.0-1/binfiles?fileinfo=1
Get binary package info: fontconfig-config=2.13.1-4.2
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Get binary package info: fonts-dejavu-core=2.37-2
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Get binary package info: g++=4:11.2.0-2
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Get binary package info: g++-11=11.2.0-12
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Get binary package info: gcc=4:11.2.0-2
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Get binary package info: gcc-11=11.2.0-12
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Get binary package info: gcc-11-base=11.2.0-12
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Get binary package info: gettext=0.21-4
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Get binary package info: gettext-base=0.21-4
Binary URL: http://snapshot.notset.fr/mr/binary/gettext-base/0.21-4/binfiles?fileinfo=1
Get binary package info: gnupg=2.2.27-2
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Get binary package info: gnupg-l10n=2.2.27-2
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Get binary package info: gnupg-utils=2.2.27-2
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Get binary package info: gpg=2.2.27-2
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Get binary package info: gpg-agent=2.2.27-2
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Get binary package info: gpg-wks-client=2.2.27-2
Binary URL: http://snapshot.notset.fr/mr/binary/gpg-wks-client/2.2.27-2/binfiles?fileinfo=1
Get binary package info: gpg-wks-server=2.2.27-2
Binary URL: http://snapshot.notset.fr/mr/binary/gpg-wks-server/2.2.27-2/binfiles?fileinfo=1
Get binary package info: gpgconf=2.2.27-2
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Get binary package info: gpgsm=2.2.27-2
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Get binary package info: gpgv=2.2.27-2
Binary URL: http://snapshot.notset.fr/mr/binary/gpgv/2.2.27-2/binfiles?fileinfo=1
Get binary package info: gradle=4.4.1-13
Binary URL: http://snapshot.notset.fr/mr/binary/gradle/4.4.1-13/binfiles?fileinfo=1
Get binary package info: gradle-debian-helper=2.1
Binary URL: http://snapshot.notset.fr/mr/binary/gradle-debian-helper/2.1/binfiles?fileinfo=1
Get binary package info: grep=3.7-1
Binary URL: http://snapshot.notset.fr/mr/binary/grep/3.7-1/binfiles?fileinfo=1
Get binary package info: groff-base=1.22.4-7
Binary URL: http://snapshot.notset.fr/mr/binary/groff-base/1.22.4-7/binfiles?fileinfo=1
Get binary package info: groovy=2.4.21-1
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Get binary package info: gzip=1.10-4
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Get binary package info: hostname=3.23
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Get binary package info: init-system-helpers=1.60
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Get binary package info: intltool-debian=0.35.0+20060710.5
Binary URL: http://snapshot.notset.fr/mr/binary/intltool-debian/0.35.0+20060710.5/binfiles?fileinfo=1
Get binary package info: ivy=2.5.0-2
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Get binary package info: java-common=0.72
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Get binary package info: java-wrappers=0.3
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Get binary package info: javahelper=0.78
Binary URL: http://snapshot.notset.fr/mr/binary/javahelper/0.78/binfiles?fileinfo=1
Get binary package info: junit4=4.13.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/junit4/4.13.2-1/binfiles?fileinfo=1
Get binary package info: libacl1=2.3.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libacl1/2.3.1-1/binfiles?fileinfo=1
Get binary package info: libactivation-java=1.2.0-2
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Get binary package info: libantlr-java=2.7.7+dfsg-12
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Get binary package info: libaopalliance-java=20070526-6
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Get binary package info: libapache-pom-java=18-1
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Get binary package info: libarchive-zip-perl=1.68-1
Binary URL: http://snapshot.notset.fr/mr/binary/libarchive-zip-perl/1.68-1/binfiles?fileinfo=1
Get binary package info: libargs4j-java=2.33-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libargs4j-java/2.33-1.1/binfiles?fileinfo=1
Get binary package info: libasan6=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libasan6/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libasm-java=9.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libasm-java/9.2-1/binfiles?fileinfo=1
Get binary package info: libasound2=1.2.5.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libasound2/1.2.5.1-1/binfiles?fileinfo=1
Get binary package info: libasound2-data=1.2.5.1-1
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Get binary package info: libassuan0=2.5.5-1
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Get binary package info: libatinject-jsr330-api-java=1.0+ds1-5
Binary URL: http://snapshot.notset.fr/mr/binary/libatinject-jsr330-api-java/1.0+ds1-5/binfiles?fileinfo=1
Get binary package info: libatomic1=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libatomic1/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libattr1=1:2.5.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libattr1/1:2.5.1-1/binfiles?fileinfo=1
Get binary package info: libaudit-common=1:3.0.6-1
Binary URL: http://snapshot.notset.fr/mr/binary/libaudit-common/1:3.0.6-1/binfiles?fileinfo=1
Get binary package info: libaudit1=1:3.0.6-1+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libaudit1/1:3.0.6-1+b1/binfiles?fileinfo=1
Get binary package info: libavahi-client3=0.8-5
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Get binary package info: libavahi-common-data=0.8-5
Binary URL: http://snapshot.notset.fr/mr/binary/libavahi-common-data/0.8-5/binfiles?fileinfo=1
Get binary package info: libavahi-common3=0.8-5
Binary URL: http://snapshot.notset.fr/mr/binary/libavahi-common3/0.8-5/binfiles?fileinfo=1
Get binary package info: libb-hooks-op-check-perl=0.22-1+b3
Binary URL: http://snapshot.notset.fr/mr/binary/libb-hooks-op-check-perl/0.22-1+b3/binfiles?fileinfo=1
Get binary package info: libbcel-java=6.5.0-1
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Get binary package info: libbcpg-java=1.68-5
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Get binary package info: libbcprov-java=1.68-5
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Get binary package info: libbinutils=2.37-10
Binary URL: http://snapshot.notset.fr/mr/binary/libbinutils/2.37-10/binfiles?fileinfo=1
Get binary package info: libblkid1=2.37.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/libblkid1/2.37.2-4/binfiles?fileinfo=1
Get binary package info: libbrotli1=1.0.9-2+b3
Binary URL: http://snapshot.notset.fr/mr/binary/libbrotli1/1.0.9-2+b3/binfiles?fileinfo=1
Get binary package info: libbsd0=0.11.3-1
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Get binary package info: libbsf-java=1:2.4.0-8
Binary URL: http://snapshot.notset.fr/mr/binary/libbsf-java/1:2.4.0-8/binfiles?fileinfo=1
Get binary package info: libbsh-java=2.0b4-20
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Get binary package info: libbz2-1.0=1.0.8-4
Binary URL: http://snapshot.notset.fr/mr/binary/libbz2-1.0/1.0.8-4/binfiles?fileinfo=1
Get binary package info: libc-bin=2.32-4
Binary URL: http://snapshot.notset.fr/mr/binary/libc-bin/2.32-4/binfiles?fileinfo=1
Get binary package info: libc-dev-bin=2.32-4
Binary URL: http://snapshot.notset.fr/mr/binary/libc-dev-bin/2.32-4/binfiles?fileinfo=1
Get binary package info: libc6=2.32-4
Binary URL: http://snapshot.notset.fr/mr/binary/libc6/2.32-4/binfiles?fileinfo=1
Get binary package info: libc6-dev=2.32-4
Binary URL: http://snapshot.notset.fr/mr/binary/libc6-dev/2.32-4/binfiles?fileinfo=1
Get binary package info: libcap-ng0=0.7.9-2.2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libcap-ng0/0.7.9-2.2+b1/binfiles?fileinfo=1
Get binary package info: libcap2=1:2.44-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcap2/1:2.44-1/binfiles?fileinfo=1
Get binary package info: libcc1-0=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libcc1-0/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libcdi-api-java=1.2-3
Binary URL: http://snapshot.notset.fr/mr/binary/libcdi-api-java/1.2-3/binfiles?fileinfo=1
Get binary package info: libclass-method-modifiers-perl=2.13-1
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Get binary package info: libcodemodel-java=2.6+jaxb2.3.0.1-10
Binary URL: http://snapshot.notset.fr/mr/binary/libcodemodel-java/2.6+jaxb2.3.0.1-10/binfiles?fileinfo=1
Get binary package info: libcom-err2=1.46.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcom-err2/1.46.4-1/binfiles?fileinfo=1
Get binary package info: libcommons-cli-java=1.4-2
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-cli-java/1.4-2/binfiles?fileinfo=1
Get binary package info: libcommons-codec-java=1.15-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-codec-java/1.15-1/binfiles?fileinfo=1
Get binary package info: libcommons-collections3-java=3.2.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-collections3-java/3.2.2-2/binfiles?fileinfo=1
Get binary package info: libcommons-compress-java=1.21-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-compress-java/1.21-1/binfiles?fileinfo=1
Get binary package info: libcommons-io-java=2.11.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-io-java/2.11.0-2/binfiles?fileinfo=1
Get binary package info: libcommons-jexl2-java=2.1.1-5
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-jexl2-java/2.1.1-5/binfiles?fileinfo=1
Get binary package info: libcommons-lang-java=2.6-9
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-lang-java/2.6-9/binfiles?fileinfo=1
Get binary package info: libcommons-lang3-java=3.11-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-lang3-java/3.11-1/binfiles?fileinfo=1
Get binary package info: libcommons-logging-java=1.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-logging-java/1.2-2/binfiles?fileinfo=1
Get binary package info: libcommons-parent-java=43-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcommons-parent-java/43-1/binfiles?fileinfo=1
Get binary package info: libcrypt-dev=1:4.4.26-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcrypt-dev/1:4.4.26-1/binfiles?fileinfo=1
Get binary package info: libcrypt1=1:4.4.26-1
Binary URL: http://snapshot.notset.fr/mr/binary/libcrypt1/1:4.4.26-1/binfiles?fileinfo=1
Get binary package info: libctf-nobfd0=2.37-10
Binary URL: http://snapshot.notset.fr/mr/binary/libctf-nobfd0/2.37-10/binfiles?fileinfo=1
Get binary package info: libctf0=2.37-10
Binary URL: http://snapshot.notset.fr/mr/binary/libctf0/2.37-10/binfiles?fileinfo=1
Get binary package info: libcups2=2.3.3op2-7
Binary URL: http://snapshot.notset.fr/mr/binary/libcups2/2.3.3op2-7/binfiles?fileinfo=1
Get binary package info: libdb5.3=5.3.28+dfsg1-0.8
Binary URL: http://snapshot.notset.fr/mr/binary/libdb5.3/5.3.28+dfsg1-0.8/binfiles?fileinfo=1
Get binary package info: libdbus-1-3=1.12.20-3
Binary URL: http://snapshot.notset.fr/mr/binary/libdbus-1-3/1.12.20-3/binfiles?fileinfo=1
Get binary package info: libdd-plist-java=1.20-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libdd-plist-java/1.20-1.1/binfiles?fileinfo=1
Get binary package info: libdebconfclient0=0.261
Binary URL: http://snapshot.notset.fr/mr/binary/libdebconfclient0/0.261/binfiles?fileinfo=1
Get binary package info: libdebhelper-perl=13.5.2
Binary URL: http://snapshot.notset.fr/mr/binary/libdebhelper-perl/13.5.2/binfiles?fileinfo=1
Get binary package info: libdevel-callchecker-perl=0.008-1+b2
Binary URL: http://snapshot.notset.fr/mr/binary/libdevel-callchecker-perl/0.008-1+b2/binfiles?fileinfo=1
Get binary package info: libdom4j-java=2.1.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdom4j-java/2.1.3-1/binfiles?fileinfo=1
Get binary package info: libdpkg-perl=1.20.9
Binary URL: http://snapshot.notset.fr/mr/binary/libdpkg-perl/1.20.9/binfiles?fileinfo=1
Get binary package info: libdrm-amdgpu1=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm-amdgpu1/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdrm-common=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm-common/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdrm-intel1=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm-intel1/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdrm-nouveau2=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm-nouveau2/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdrm-radeon1=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm-radeon1/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdrm2=2.4.108-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdrm2/2.4.108-1/binfiles?fileinfo=1
Get binary package info: libdtd-parser-java=1.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libdtd-parser-java/1.2-1/binfiles?fileinfo=1
Get binary package info: libdynaloader-functions-perl=0.003-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libdynaloader-functions-perl/0.003-1.1/binfiles?fileinfo=1
Get binary package info: libeclipse-jdt-annotation-java=2.2.600+eclipse4.21-1
Binary URL: http://snapshot.notset.fr/mr/binary/libeclipse-jdt-annotation-java/2.2.600+eclipse4.21-1/binfiles?fileinfo=1
Get binary package info: libedit2=3.1-20210910-1
Binary URL: http://snapshot.notset.fr/mr/binary/libedit2/3.1-20210910-1/binfiles?fileinfo=1
Get binary package info: libel-api-java=3.0.0-3
Binary URL: http://snapshot.notset.fr/mr/binary/libel-api-java/3.0.0-3/binfiles?fileinfo=1
Get binary package info: libelf1=0.186-1
Binary URL: http://snapshot.notset.fr/mr/binary/libelf1/0.186-1/binfiles?fileinfo=1
Get binary package info: libencode-locale-perl=1.05-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libencode-locale-perl/1.05-1.1/binfiles?fileinfo=1
Get binary package info: libexpat1=2.4.1-3
Binary URL: http://snapshot.notset.fr/mr/binary/libexpat1/2.4.1-3/binfiles?fileinfo=1
Get binary package info: libfakeroot=1.26-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfakeroot/1.26-1/binfiles?fileinfo=1
Get binary package info: libfastinfoset-java=1.2.12-3
Binary URL: http://snapshot.notset.fr/mr/binary/libfastinfoset-java/1.2.12-3/binfiles?fileinfo=1
Get binary package info: libfelix-framework-java=4.6.1-2.1
Binary URL: http://snapshot.notset.fr/mr/binary/libfelix-framework-java/4.6.1-2.1/binfiles?fileinfo=1
Get binary package info: libfelix-gogo-runtime-java=0.16.2-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libfelix-gogo-runtime-java/0.16.2-1.1/binfiles?fileinfo=1
Get binary package info: libfelix-resolver-java=1.16.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfelix-resolver-java/1.16.0-1/binfiles?fileinfo=1
Get binary package info: libffi8=3.4.2-3
Binary URL: http://snapshot.notset.fr/mr/binary/libffi8/3.4.2-3/binfiles?fileinfo=1
Get binary package info: libfile-dirlist-perl=0.05-2
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-dirlist-perl/0.05-2/binfiles?fileinfo=1
Get binary package info: libfile-homedir-perl=1.006-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-homedir-perl/1.006-1/binfiles?fileinfo=1
Get binary package info: libfile-listing-perl=6.14-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-listing-perl/6.14-1/binfiles?fileinfo=1
Get binary package info: libfile-stripnondeterminism-perl=1.12.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-stripnondeterminism-perl/1.12.1-1/binfiles?fileinfo=1
Get binary package info: libfile-touch-perl=0.12-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-touch-perl/0.12-1/binfiles?fileinfo=1
Get binary package info: libfile-which-perl=1.23-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfile-which-perl/1.23-1/binfiles?fileinfo=1
Get binary package info: libfindbugs-java=3.1.0~preview2-3
Binary URL: http://snapshot.notset.fr/mr/binary/libfindbugs-java/3.1.0~preview2-3/binfiles?fileinfo=1
Get binary package info: libfontconfig1=2.13.1-4.2
Binary URL: http://snapshot.notset.fr/mr/binary/libfontconfig1/2.13.1-4.2/binfiles?fileinfo=1
Get binary package info: libfreetype6=2.11.0+dfsg-1
Binary URL: http://snapshot.notset.fr/mr/binary/libfreetype6/2.11.0+dfsg-1/binfiles?fileinfo=1
Get binary package info: libgcc-11-dev=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libgcc-11-dev/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libgcc-s1=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libgcc-s1/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libgcrypt20=1.9.4-3+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libgcrypt20/1.9.4-3+b1/binfiles?fileinfo=1
Get binary package info: libgdbm-compat4=1.22-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgdbm-compat4/1.22-1/binfiles?fileinfo=1
Get binary package info: libgdbm6=1.22-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgdbm6/1.22-1/binfiles?fileinfo=1
Get binary package info: libgeronimo-annotation-1.3-spec-java=1.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgeronimo-annotation-1.3-spec-java/1.3-1/binfiles?fileinfo=1
Get binary package info: libgeronimo-interceptor-3.0-spec-java=1.0.1-4
Binary URL: http://snapshot.notset.fr/mr/binary/libgeronimo-interceptor-3.0-spec-java/1.0.1-4/binfiles?fileinfo=1
Get binary package info: libgif7=5.1.9-2
Binary URL: http://snapshot.notset.fr/mr/binary/libgif7/5.1.9-2/binfiles?fileinfo=1
Get binary package info: libgl1=1.3.4-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libgl1/1.3.4-2+b1/binfiles?fileinfo=1
Get binary package info: libgl1-mesa-dri=21.2.5-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgl1-mesa-dri/21.2.5-1/binfiles?fileinfo=1
Get binary package info: libglapi-mesa=21.2.5-1
Binary URL: http://snapshot.notset.fr/mr/binary/libglapi-mesa/21.2.5-1/binfiles?fileinfo=1
Get binary package info: libglib2.0-0=2.70.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libglib2.0-0/2.70.1-1/binfiles?fileinfo=1
Get binary package info: libglvnd0=1.3.4-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libglvnd0/1.3.4-2+b1/binfiles?fileinfo=1
Get binary package info: libglx-mesa0=21.2.5-1
Binary URL: http://snapshot.notset.fr/mr/binary/libglx-mesa0/21.2.5-1/binfiles?fileinfo=1
Get binary package info: libglx0=1.3.4-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libglx0/1.3.4-2+b1/binfiles?fileinfo=1
Get binary package info: libgmp10=2:6.2.1+dfsg-3
Binary URL: http://snapshot.notset.fr/mr/binary/libgmp10/2:6.2.1+dfsg-3/binfiles?fileinfo=1
Get binary package info: libgnutls30=3.7.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libgnutls30/3.7.2-2/binfiles?fileinfo=1
Get binary package info: libgomp1=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libgomp1/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libgoogle-gson-java=2.8.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgoogle-gson-java/2.8.8-1/binfiles?fileinfo=1
Get binary package info: libgpg-error0=1.42-3
Binary URL: http://snapshot.notset.fr/mr/binary/libgpg-error0/1.42-3/binfiles?fileinfo=1
Get binary package info: libgradle-core-java=4.4.1-13
Binary URL: http://snapshot.notset.fr/mr/binary/libgradle-core-java/4.4.1-13/binfiles?fileinfo=1
Get binary package info: libgradle-plugins-java=4.4.1-13
Binary URL: http://snapshot.notset.fr/mr/binary/libgradle-plugins-java/4.4.1-13/binfiles?fileinfo=1
Get binary package info: libgraphite2-3=1.3.14-1
Binary URL: http://snapshot.notset.fr/mr/binary/libgraphite2-3/1.3.14-1/binfiles?fileinfo=1
Get binary package info: libgssapi-krb5-2=1.18.3-7
Binary URL: http://snapshot.notset.fr/mr/binary/libgssapi-krb5-2/1.18.3-7/binfiles?fileinfo=1
Get binary package info: libguava-java=29.0-6
Binary URL: http://snapshot.notset.fr/mr/binary/libguava-java/29.0-6/binfiles?fileinfo=1
Get binary package info: libguice-java=4.2.3-2
Binary URL: http://snapshot.notset.fr/mr/binary/libguice-java/4.2.3-2/binfiles?fileinfo=1
Get binary package info: libhamcrest-java=1.3-9
Binary URL: http://snapshot.notset.fr/mr/binary/libhamcrest-java/1.3-9/binfiles?fileinfo=1
Get binary package info: libharfbuzz0b=2.7.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libharfbuzz0b/2.7.4-1/binfiles?fileinfo=1
Get binary package info: libhawtjni-runtime-java=1.17-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhawtjni-runtime-java/1.17-1/binfiles?fileinfo=1
Get binary package info: libhogweed6=3.7.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhogweed6/3.7.3-1/binfiles?fileinfo=1
Get binary package info: libhtml-parser-perl=3.76-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhtml-parser-perl/3.76-1/binfiles?fileinfo=1
Get binary package info: libhtml-tagset-perl=3.20-4
Binary URL: http://snapshot.notset.fr/mr/binary/libhtml-tagset-perl/3.20-4/binfiles?fileinfo=1
Get binary package info: libhtml-tree-perl=5.07-2
Binary URL: http://snapshot.notset.fr/mr/binary/libhtml-tree-perl/5.07-2/binfiles?fileinfo=1
Get binary package info: libhttp-cookies-perl=6.10-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhttp-cookies-perl/6.10-1/binfiles?fileinfo=1
Get binary package info: libhttp-date-perl=6.05-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhttp-date-perl/6.05-1/binfiles?fileinfo=1
Get binary package info: libhttp-message-perl=6.35-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhttp-message-perl/6.35-1/binfiles?fileinfo=1
Get binary package info: libhttp-negotiate-perl=6.01-1
Binary URL: http://snapshot.notset.fr/mr/binary/libhttp-negotiate-perl/6.01-1/binfiles?fileinfo=1
Get binary package info: libhttpclient-java=4.5.13-3
Binary URL: http://snapshot.notset.fr/mr/binary/libhttpclient-java/4.5.13-3/binfiles?fileinfo=1
Get binary package info: libhttpcore-java=4.4.14-2
Binary URL: http://snapshot.notset.fr/mr/binary/libhttpcore-java/4.4.14-2/binfiles?fileinfo=1
Get binary package info: libicu67=67.1-7
Binary URL: http://snapshot.notset.fr/mr/binary/libicu67/67.1-7/binfiles?fileinfo=1
Get binary package info: libidn2-0=2.3.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libidn2-0/2.3.2-2/binfiles?fileinfo=1
Get binary package info: libimport-into-perl=1.002005-1
Binary URL: http://snapshot.notset.fr/mr/binary/libimport-into-perl/1.002005-1/binfiles?fileinfo=1
Get binary package info: libio-html-perl=1.004-2
Binary URL: http://snapshot.notset.fr/mr/binary/libio-html-perl/1.004-2/binfiles?fileinfo=1
Get binary package info: libio-pty-perl=1:1.15-2
Binary URL: http://snapshot.notset.fr/mr/binary/libio-pty-perl/1:1.15-2/binfiles?fileinfo=1
Get binary package info: libio-socket-ssl-perl=2.072-1
Binary URL: http://snapshot.notset.fr/mr/binary/libio-socket-ssl-perl/2.072-1/binfiles?fileinfo=1
Get binary package info: libipc-run-perl=20200505.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libipc-run-perl/20200505.0-1/binfiles?fileinfo=1
Get binary package info: libisl23=0.24-2
Binary URL: http://snapshot.notset.fr/mr/binary/libisl23/0.24-2/binfiles?fileinfo=1
Get binary package info: libistack-commons-java=3.0.6-5
Binary URL: http://snapshot.notset.fr/mr/binary/libistack-commons-java/3.0.6-5/binfiles?fileinfo=1
Get binary package info: libitm1=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libitm1/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libjansi-java=1.18-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjansi-java/1.18-1/binfiles?fileinfo=1
Get binary package info: libjansi-native-java=1.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjansi-native-java/1.8-1/binfiles?fileinfo=1
Get binary package info: libjarjar-java=1.4+svn142-10
Binary URL: http://snapshot.notset.fr/mr/binary/libjarjar-java/1.4+svn142-10/binfiles?fileinfo=1
Get binary package info: libjatl-java=0.2.3-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libjatl-java/0.2.3-1.1/binfiles?fileinfo=1
Get binary package info: libjavaewah-java=1.1.7-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjavaewah-java/1.1.7-1/binfiles?fileinfo=1
Get binary package info: libjaxb-api-java=2.3.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjaxb-api-java/2.3.1-1/binfiles?fileinfo=1
Get binary package info: libjaxb-java=2.3.0.1-10
Binary URL: http://snapshot.notset.fr/mr/binary/libjaxb-java/2.3.0.1-10/binfiles?fileinfo=1
Get binary package info: libjaxen-java=1.1.6-4
Binary URL: http://snapshot.notset.fr/mr/binary/libjaxen-java/1.1.6-4/binfiles?fileinfo=1
Get binary package info: libjcifs-java=1.3.19-2
Binary URL: http://snapshot.notset.fr/mr/binary/libjcifs-java/1.3.19-2/binfiles?fileinfo=1
Get binary package info: libjcip-annotations-java=20060626-6
Binary URL: http://snapshot.notset.fr/mr/binary/libjcip-annotations-java/20060626-6/binfiles?fileinfo=1
Get binary package info: libjcommander-java=1.71-3
Binary URL: http://snapshot.notset.fr/mr/binary/libjcommander-java/1.71-3/binfiles?fileinfo=1
Get binary package info: libjetty9-java=9.4.44-3
Binary URL: http://snapshot.notset.fr/mr/binary/libjetty9-java/9.4.44-3/binfiles?fileinfo=1
Get binary package info: libjformatstring-java=0.10~20131207-2.1
Binary URL: http://snapshot.notset.fr/mr/binary/libjformatstring-java/0.10~20131207-2.1/binfiles?fileinfo=1
Get binary package info: libjgit-java=4.11.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjgit-java/4.11.9-1/binfiles?fileinfo=1
Get binary package info: libjimfs-java=1.1-6
Binary URL: http://snapshot.notset.fr/mr/binary/libjimfs-java/1.1-6/binfiles?fileinfo=1
Get binary package info: libjline2-java=2.14.6-4
Binary URL: http://snapshot.notset.fr/mr/binary/libjline2-java/2.14.6-4/binfiles?fileinfo=1
Get binary package info: libjna-java=5.9.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjna-java/5.9.0-1/binfiles?fileinfo=1
Get binary package info: libjna-jni=5.9.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjna-jni/5.9.0-1/binfiles?fileinfo=1
Get binary package info: libjpeg62-turbo=1:2.1.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libjpeg62-turbo/1:2.1.1-2/binfiles?fileinfo=1
Get binary package info: libjs-jquery=3.5.1+dfsg+~3.5.5-8
Binary URL: http://snapshot.notset.fr/mr/binary/libjs-jquery/3.5.1+dfsg+~3.5.5-8/binfiles?fileinfo=1
Get binary package info: libjsch-java=0.1.55-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjsch-java/0.1.55-1/binfiles?fileinfo=1
Get binary package info: libjson-simple-java=2.3.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjson-simple-java/2.3.0-1/binfiles?fileinfo=1
Get binary package info: libjsoup-java=1.14.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libjsoup-java/1.14.3-1/binfiles?fileinfo=1
Get binary package info: libjsp-api-java=2.3.4-3
Binary URL: http://snapshot.notset.fr/mr/binary/libjsp-api-java/2.3.4-3/binfiles?fileinfo=1
Get binary package info: libjsr305-java=0.1~+svn49-11
Binary URL: http://snapshot.notset.fr/mr/binary/libjsr305-java/0.1~+svn49-11/binfiles?fileinfo=1
Get binary package info: libjzlib-java=1.1.3-2
Binary URL: http://snapshot.notset.fr/mr/binary/libjzlib-java/1.1.3-2/binfiles?fileinfo=1
Get binary package info: libk5crypto3=1.18.3-7
Binary URL: http://snapshot.notset.fr/mr/binary/libk5crypto3/1.18.3-7/binfiles?fileinfo=1
Get binary package info: libkeyutils1=1.6.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libkeyutils1/1.6.1-2/binfiles?fileinfo=1
Get binary package info: libkrb5-3=1.18.3-7
Binary URL: http://snapshot.notset.fr/mr/binary/libkrb5-3/1.18.3-7/binfiles?fileinfo=1
Get binary package info: libkrb5support0=1.18.3-7
Binary URL: http://snapshot.notset.fr/mr/binary/libkrb5support0/1.18.3-7/binfiles?fileinfo=1
Get binary package info: libkryo-java=2.20-7
Binary URL: http://snapshot.notset.fr/mr/binary/libkryo-java/2.20-7/binfiles?fileinfo=1
Get binary package info: libksba8=1.6.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libksba8/1.6.0-2/binfiles?fileinfo=1
Get binary package info: liblcms2-2=2.12~rc1-2
Binary URL: http://snapshot.notset.fr/mr/binary/liblcms2-2/2.12~rc1-2/binfiles?fileinfo=1
Get binary package info: libldap-2.4-2=2.4.59+dfsg-1
Binary URL: http://snapshot.notset.fr/mr/binary/libldap-2.4-2/2.4.59+dfsg-1/binfiles?fileinfo=1
Get binary package info: libllvm12=1:12.0.1-16
Binary URL: http://snapshot.notset.fr/mr/binary/libllvm12/1:12.0.1-16/binfiles?fileinfo=1
Get binary package info: liblogback-java=1:1.2.3-6
Binary URL: http://snapshot.notset.fr/mr/binary/liblogback-java/1:1.2.3-6/binfiles?fileinfo=1
Get binary package info: liblsan0=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/liblsan0/11.2.0-12/binfiles?fileinfo=1
Get binary package info: liblwp-mediatypes-perl=6.04-1
Binary URL: http://snapshot.notset.fr/mr/binary/liblwp-mediatypes-perl/6.04-1/binfiles?fileinfo=1
Get binary package info: liblwp-protocol-https-perl=6.10-1
Binary URL: http://snapshot.notset.fr/mr/binary/liblwp-protocol-https-perl/6.10-1/binfiles?fileinfo=1
Get binary package info: liblz4-1=1.9.3-2
Binary URL: http://snapshot.notset.fr/mr/binary/liblz4-1/1.9.3-2/binfiles?fileinfo=1
Get binary package info: liblzma5=5.2.5-2
Binary URL: http://snapshot.notset.fr/mr/binary/liblzma5/5.2.5-2/binfiles?fileinfo=1
Get binary package info: libmagic-mgc=1:5.41-2
Binary URL: http://snapshot.notset.fr/mr/binary/libmagic-mgc/1:5.41-2/binfiles?fileinfo=1
Get binary package info: libmagic1=1:5.41-2
Binary URL: http://snapshot.notset.fr/mr/binary/libmagic1/1:5.41-2/binfiles?fileinfo=1
Get binary package info: libmaven-file-management-java=3.0.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven-file-management-java/3.0.0-1/binfiles?fileinfo=1
Get binary package info: libmaven-parent-java=31-2
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven-parent-java/31-2/binfiles?fileinfo=1
Get binary package info: libmaven-resolver-java=1.4.2-3
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven-resolver-java/1.4.2-3/binfiles?fileinfo=1
Get binary package info: libmaven-shared-io-java=3.0.0-3
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven-shared-io-java/3.0.0-3/binfiles?fileinfo=1
Get binary package info: libmaven-shared-utils-java=3.3.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven-shared-utils-java/3.3.0-1/binfiles?fileinfo=1
Get binary package info: libmaven3-core-java=3.6.3-5
Binary URL: http://snapshot.notset.fr/mr/binary/libmaven3-core-java/3.6.3-5/binfiles?fileinfo=1
Get binary package info: libmd0=1.0.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libmd0/1.0.4-1/binfiles?fileinfo=1
Get binary package info: libminlog-java=1.3.0-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libminlog-java/1.3.0-1.1/binfiles?fileinfo=1
Get binary package info: libmodule-runtime-perl=0.016-1
Binary URL: http://snapshot.notset.fr/mr/binary/libmodule-runtime-perl/0.016-1/binfiles?fileinfo=1
Get binary package info: libmoo-perl=2.005004-2
Binary URL: http://snapshot.notset.fr/mr/binary/libmoo-perl/2.005004-2/binfiles?fileinfo=1
Get binary package info: libmount1=2.37.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/libmount1/2.37.2-4/binfiles?fileinfo=1
Get binary package info: libmpc3=1.2.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libmpc3/1.2.1-1/binfiles?fileinfo=1
Get binary package info: libmpdec3=2.5.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libmpdec3/2.5.1-2/binfiles?fileinfo=1
Get binary package info: libmpfr6=4.1.0-3
Binary URL: http://snapshot.notset.fr/mr/binary/libmpfr6/4.1.0-3/binfiles?fileinfo=1
Get binary package info: libnative-platform-java=0.14-5
Binary URL: http://snapshot.notset.fr/mr/binary/libnative-platform-java/0.14-5/binfiles?fileinfo=1
Get binary package info: libnative-platform-jni=0.14-5
Binary URL: http://snapshot.notset.fr/mr/binary/libnative-platform-jni/0.14-5/binfiles?fileinfo=1
Get binary package info: libncurses6=6.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libncurses6/6.3-1/binfiles?fileinfo=1
Get binary package info: libncursesw6=6.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libncursesw6/6.3-1/binfiles?fileinfo=1
Get binary package info: libnekohtml-java=1.9.22-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libnekohtml-java/1.9.22-1.1/binfiles?fileinfo=1
Get binary package info: libnet-http-perl=6.21-1
Binary URL: http://snapshot.notset.fr/mr/binary/libnet-http-perl/6.21-1/binfiles?fileinfo=1
Get binary package info: libnet-ssleay-perl=1.90-1
Binary URL: http://snapshot.notset.fr/mr/binary/libnet-ssleay-perl/1.90-1/binfiles?fileinfo=1
Get binary package info: libnettle8=3.7.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libnettle8/3.7.3-1/binfiles?fileinfo=1
Get binary package info: libngs-java=2.11.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libngs-java/2.11.2-1/binfiles?fileinfo=1
Get binary package info: libngs-sdk-dev=2.11.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libngs-sdk-dev/2.11.2-1/binfiles?fileinfo=1
Get binary package info: libngs-sdk2=2.11.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libngs-sdk2/2.11.2-1/binfiles?fileinfo=1
Get binary package info: libnpth0=1.6-3
Binary URL: http://snapshot.notset.fr/mr/binary/libnpth0/1.6-3/binfiles?fileinfo=1
Get binary package info: libnsl-dev=1.3.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libnsl-dev/1.3.0-2/binfiles?fileinfo=1
Get binary package info: libnsl2=1.3.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libnsl2/1.3.0-2/binfiles?fileinfo=1
Get binary package info: libnspr4=2:4.32-3
Binary URL: http://snapshot.notset.fr/mr/binary/libnspr4/2:4.32-3/binfiles?fileinfo=1
Get binary package info: libnss3=2:3.72-2
Binary URL: http://snapshot.notset.fr/mr/binary/libnss3/2:3.72-2/binfiles?fileinfo=1
Get binary package info: libobjenesis-java=3.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/libobjenesis-java/3.2-1/binfiles?fileinfo=1
Get binary package info: libosgi-annotation-java=8.0.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libosgi-annotation-java/8.0.1-1/binfiles?fileinfo=1
Get binary package info: libosgi-compendium-java=7.0.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libosgi-compendium-java/7.0.0-1/binfiles?fileinfo=1
Get binary package info: libosgi-core-java=7.0.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libosgi-core-java/7.0.0-2/binfiles?fileinfo=1
Get binary package info: libp11-kit0=0.24.0-5
Binary URL: http://snapshot.notset.fr/mr/binary/libp11-kit0/0.24.0-5/binfiles?fileinfo=1
Get binary package info: libpam-modules=1.4.0-10
Binary URL: http://snapshot.notset.fr/mr/binary/libpam-modules/1.4.0-10/binfiles?fileinfo=1
Get binary package info: libpam-modules-bin=1.4.0-10
Binary URL: http://snapshot.notset.fr/mr/binary/libpam-modules-bin/1.4.0-10/binfiles?fileinfo=1
Get binary package info: libpam-runtime=1.4.0-10
Binary URL: http://snapshot.notset.fr/mr/binary/libpam-runtime/1.4.0-10/binfiles?fileinfo=1
Get binary package info: libpam0g=1.4.0-10
Binary URL: http://snapshot.notset.fr/mr/binary/libpam0g/1.4.0-10/binfiles?fileinfo=1
Get binary package info: libparams-classify-perl=0.015-1+b3
Binary URL: http://snapshot.notset.fr/mr/binary/libparams-classify-perl/0.015-1+b3/binfiles?fileinfo=1
Get binary package info: libpciaccess0=0.16-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpciaccess0/0.16-1/binfiles?fileinfo=1
Get binary package info: libpcre2-8-0=10.39-3
Binary URL: http://snapshot.notset.fr/mr/binary/libpcre2-8-0/10.39-3/binfiles?fileinfo=1
Get binary package info: libpcre3=2:8.39-13
Binary URL: http://snapshot.notset.fr/mr/binary/libpcre3/2:8.39-13/binfiles?fileinfo=1
Get binary package info: libpcsclite1=1.9.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpcsclite1/1.9.4-1/binfiles?fileinfo=1
Get binary package info: libperl5.32=5.32.1-6
Binary URL: http://snapshot.notset.fr/mr/binary/libperl5.32/5.32.1-6/binfiles?fileinfo=1
Get binary package info: libpipeline1=1.5.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpipeline1/1.5.4-1/binfiles?fileinfo=1
Get binary package info: libplexus-archiver-java=3.6.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-archiver-java/3.6.0-2/binfiles?fileinfo=1
Get binary package info: libplexus-cipher-java=1.8-2
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-cipher-java/1.8-2/binfiles?fileinfo=1
Get binary package info: libplexus-classworlds-java=2.6.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-classworlds-java/2.6.0-1/binfiles?fileinfo=1
Get binary package info: libplexus-component-annotations-java=2.1.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-component-annotations-java/2.1.0-1/binfiles?fileinfo=1
Get binary package info: libplexus-container-default-java=2.1.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-container-default-java/2.1.0-1/binfiles?fileinfo=1
Get binary package info: libplexus-interpolation-java=1.26-1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-interpolation-java/1.26-1/binfiles?fileinfo=1
Get binary package info: libplexus-io-java=3.2.0-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-io-java/3.2.0-1.1/binfiles?fileinfo=1
Get binary package info: libplexus-sec-dispatcher-java=1.4-4
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-sec-dispatcher-java/1.4-4/binfiles?fileinfo=1
Get binary package info: libplexus-utils2-java=3.3.0-1
Binary URL: http://snapshot.notset.fr/mr/binary/libplexus-utils2-java/3.3.0-1/binfiles?fileinfo=1
Get binary package info: libpng16-16=1.6.37-3
Binary URL: http://snapshot.notset.fr/mr/binary/libpng16-16/1.6.37-3/binfiles?fileinfo=1
Get binary package info: libpolyglot-maven-java=0.8~tobrien+git20120905-10
Binary URL: http://snapshot.notset.fr/mr/binary/libpolyglot-maven-java/0.8~tobrien+git20120905-10/binfiles?fileinfo=1
Get binary package info: libpython3-stdlib=3.9.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpython3-stdlib/3.9.8-1/binfiles?fileinfo=1
Get binary package info: libpython3.9-minimal=3.9.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpython3.9-minimal/3.9.9-1/binfiles?fileinfo=1
Get binary package info: libpython3.9-stdlib=3.9.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/libpython3.9-stdlib/3.9.9-1/binfiles?fileinfo=1
Get binary package info: libqdox-java=1.12.1-3
Binary URL: http://snapshot.notset.fr/mr/binary/libqdox-java/1.12.1-3/binfiles?fileinfo=1
Get binary package info: libquadmath0=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libquadmath0/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libreadline8=8.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libreadline8/8.1-2/binfiles?fileinfo=1
Get binary package info: libreflectasm-java=1.11.6+dfsg-1
Binary URL: http://snapshot.notset.fr/mr/binary/libreflectasm-java/1.11.6+dfsg-1/binfiles?fileinfo=1
Get binary package info: librelaxng-datatype-java=1.0+ds1-3.1
Binary URL: http://snapshot.notset.fr/mr/binary/librelaxng-datatype-java/1.0+ds1-3.1/binfiles?fileinfo=1
Get binary package info: librhino-java=1.7.7.2-3
Binary URL: http://snapshot.notset.fr/mr/binary/librhino-java/1.7.7.2-3/binfiles?fileinfo=1
Get binary package info: librngom-java=2.3.0.1-10
Binary URL: http://snapshot.notset.fr/mr/binary/librngom-java/2.3.0.1-10/binfiles?fileinfo=1
Get binary package info: librole-tiny-perl=2.002004-1
Binary URL: http://snapshot.notset.fr/mr/binary/librole-tiny-perl/2.002004-1/binfiles?fileinfo=1
Get binary package info: libsasl2-2=2.1.27+dfsg2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libsasl2-2/2.1.27+dfsg2-2/binfiles?fileinfo=1
Get binary package info: libsasl2-modules-db=2.1.27+dfsg2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libsasl2-modules-db/2.1.27+dfsg2-2/binfiles?fileinfo=1
Get binary package info: libseccomp2=2.5.3-2
Binary URL: http://snapshot.notset.fr/mr/binary/libseccomp2/2.5.3-2/binfiles?fileinfo=1
Get binary package info: libselinux1=3.3-1+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libselinux1/3.3-1+b1/binfiles?fileinfo=1
Get binary package info: libsemanage-common=3.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsemanage-common/3.3-1/binfiles?fileinfo=1
Get binary package info: libsemanage2=3.3-1+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libsemanage2/3.3-1+b1/binfiles?fileinfo=1
Get binary package info: libsensors-config=1:3.6.0-7
Binary URL: http://snapshot.notset.fr/mr/binary/libsensors-config/1:3.6.0-7/binfiles?fileinfo=1
Get binary package info: libsensors5=1:3.6.0-7
Binary URL: http://snapshot.notset.fr/mr/binary/libsensors5/1:3.6.0-7/binfiles?fileinfo=1
Get binary package info: libsepol2=3.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsepol2/3.3-1/binfiles?fileinfo=1
Get binary package info: libservlet-api-java=4.0.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libservlet-api-java/4.0.1-2/binfiles?fileinfo=1
Get binary package info: libservlet3.1-java=1:4.0.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libservlet3.1-java/1:4.0.1-2/binfiles?fileinfo=1
Get binary package info: libsigsegv2=2.13-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsigsegv2/2.13-1/binfiles?fileinfo=1
Get binary package info: libsimple-http-java=4.1.21-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libsimple-http-java/4.1.21-1.1/binfiles?fileinfo=1
Get binary package info: libsisu-inject-java=0.3.4-2
Binary URL: http://snapshot.notset.fr/mr/binary/libsisu-inject-java/0.3.4-2/binfiles?fileinfo=1
Get binary package info: libsisu-plexus-java=0.3.4-3
Binary URL: http://snapshot.notset.fr/mr/binary/libsisu-plexus-java/0.3.4-3/binfiles?fileinfo=1
Get binary package info: libslf4j-java=1.7.32-1
Binary URL: http://snapshot.notset.fr/mr/binary/libslf4j-java/1.7.32-1/binfiles?fileinfo=1
Get binary package info: libsmartcols1=2.37.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/libsmartcols1/2.37.2-4/binfiles?fileinfo=1
Get binary package info: libsnappy-java=1.1.8.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsnappy-java/1.1.8.3-1/binfiles?fileinfo=1
Get binary package info: libsnappy-jni=1.1.8.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsnappy-jni/1.1.8.3-1/binfiles?fileinfo=1
Get binary package info: libsnappy1v5=1.1.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsnappy1v5/1.1.8-1/binfiles?fileinfo=1
Get binary package info: libsqlite3-0=3.36.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libsqlite3-0/3.36.0-2/binfiles?fileinfo=1
Get binary package info: libssl1.1=1.1.1l-1
Binary URL: http://snapshot.notset.fr/mr/binary/libssl1.1/1.1.1l-1/binfiles?fileinfo=1
Get binary package info: libstax-ex-java=1.7.8-3
Binary URL: http://snapshot.notset.fr/mr/binary/libstax-ex-java/1.7.8-3/binfiles?fileinfo=1
Get binary package info: libstdc++-11-dev=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libstdc++-11-dev/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libstdc++6=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libstdc++6/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libstreambuffer-java=1.5.4-1.1
Binary URL: http://snapshot.notset.fr/mr/binary/libstreambuffer-java/1.5.4-1.1/binfiles?fileinfo=1
Get binary package info: libsub-override-perl=0.09-2
Binary URL: http://snapshot.notset.fr/mr/binary/libsub-override-perl/0.09-2/binfiles?fileinfo=1
Get binary package info: libsub-quote-perl=2.006006-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsub-quote-perl/2.006006-1/binfiles?fileinfo=1
Get binary package info: libsystemd0=249.7-1
Binary URL: http://snapshot.notset.fr/mr/binary/libsystemd0/249.7-1/binfiles?fileinfo=1
Get binary package info: libtasn1-6=4.18.0-4
Binary URL: http://snapshot.notset.fr/mr/binary/libtasn1-6/4.18.0-4/binfiles?fileinfo=1
Get binary package info: libtimedate-perl=2.3300-2
Binary URL: http://snapshot.notset.fr/mr/binary/libtimedate-perl/2.3300-2/binfiles?fileinfo=1
Get binary package info: libtinfo6=6.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libtinfo6/6.3-1/binfiles?fileinfo=1
Get binary package info: libtirpc-common=1.3.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libtirpc-common/1.3.2-2/binfiles?fileinfo=1
Get binary package info: libtirpc-dev=1.3.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libtirpc-dev/1.3.2-2/binfiles?fileinfo=1
Get binary package info: libtirpc3=1.3.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libtirpc3/1.3.2-2/binfiles?fileinfo=1
Get binary package info: libtool=2.4.6-15
Binary URL: http://snapshot.notset.fr/mr/binary/libtool/2.4.6-15/binfiles?fileinfo=1
Get binary package info: libtry-tiny-perl=0.30-1
Binary URL: http://snapshot.notset.fr/mr/binary/libtry-tiny-perl/0.30-1/binfiles?fileinfo=1
Get binary package info: libtsan0=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libtsan0/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libtxw2-java=2.3.0.1-10
Binary URL: http://snapshot.notset.fr/mr/binary/libtxw2-java/2.3.0.1-10/binfiles?fileinfo=1
Get binary package info: libubsan1=11.2.0-12
Binary URL: http://snapshot.notset.fr/mr/binary/libubsan1/11.2.0-12/binfiles?fileinfo=1
Get binary package info: libuchardet0=0.0.7-1
Binary URL: http://snapshot.notset.fr/mr/binary/libuchardet0/0.0.7-1/binfiles?fileinfo=1
Get binary package info: libudev1=249.7-1
Binary URL: http://snapshot.notset.fr/mr/binary/libudev1/249.7-1/binfiles?fileinfo=1
Get binary package info: libunistring2=0.9.10-6
Binary URL: http://snapshot.notset.fr/mr/binary/libunistring2/0.9.10-6/binfiles?fileinfo=1
Get binary package info: liburi-perl=5.10-1
Binary URL: http://snapshot.notset.fr/mr/binary/liburi-perl/5.10-1/binfiles?fileinfo=1
Get binary package info: libuuid1=2.37.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/libuuid1/2.37.2-4/binfiles?fileinfo=1
Get binary package info: libvulkan1=1.2.189.0-2
Binary URL: http://snapshot.notset.fr/mr/binary/libvulkan1/1.2.189.0-2/binfiles?fileinfo=1
Get binary package info: libwagon-file-java=3.3.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libwagon-file-java/3.3.4-1/binfiles?fileinfo=1
Get binary package info: libwagon-http-java=3.3.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libwagon-http-java/3.3.4-1/binfiles?fileinfo=1
Get binary package info: libwagon-provider-api-java=3.3.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libwagon-provider-api-java/3.3.4-1/binfiles?fileinfo=1
Get binary package info: libwebsocket-api-java=1.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/libwebsocket-api-java/1.1-2/binfiles?fileinfo=1
Get binary package info: libwww-perl=6.58-1
Binary URL: http://snapshot.notset.fr/mr/binary/libwww-perl/6.58-1/binfiles?fileinfo=1
Get binary package info: libwww-robotrules-perl=6.02-1
Binary URL: http://snapshot.notset.fr/mr/binary/libwww-robotrules-perl/6.02-1/binfiles?fileinfo=1
Get binary package info: libx11-6=2:1.7.2-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libx11-6/2:1.7.2-2+b1/binfiles?fileinfo=1
Get binary package info: libx11-data=2:1.7.2-2
Binary URL: http://snapshot.notset.fr/mr/binary/libx11-data/2:1.7.2-2/binfiles?fileinfo=1
Get binary package info: libx11-xcb1=2:1.7.2-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libx11-xcb1/2:1.7.2-2+b1/binfiles?fileinfo=1
Get binary package info: libxau6=1:1.0.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxau6/1:1.0.9-1/binfiles?fileinfo=1
Get binary package info: libxbean-reflect-java=4.5-8
Binary URL: http://snapshot.notset.fr/mr/binary/libxbean-reflect-java/4.5-8/binfiles?fileinfo=1
Get binary package info: libxcb-dri2-0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-dri2-0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-dri3-0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-dri3-0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-glx0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-glx0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-present0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-present0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-shm0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-shm0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-sync1=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-sync1/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb-xfixes0=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb-xfixes0/1.14-3/binfiles?fileinfo=1
Get binary package info: libxcb1=1.14-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxcb1/1.14-3/binfiles?fileinfo=1
Get binary package info: libxdmcp6=1:1.1.2-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxdmcp6/1:1.1.2-3/binfiles?fileinfo=1
Get binary package info: libxerces2-java=2.12.1-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxerces2-java/2.12.1-1/binfiles?fileinfo=1
Get binary package info: libxext6=2:1.3.4-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxext6/2:1.3.4-1/binfiles?fileinfo=1
Get binary package info: libxfixes3=1:5.0.3-2
Binary URL: http://snapshot.notset.fr/mr/binary/libxfixes3/1:5.0.3-2/binfiles?fileinfo=1
Get binary package info: libxi6=2:1.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxi6/2:1.8-1/binfiles?fileinfo=1
Get binary package info: libxml-commons-external-java=1.4.01-5
Binary URL: http://snapshot.notset.fr/mr/binary/libxml-commons-external-java/1.4.01-5/binfiles?fileinfo=1
Get binary package info: libxml-commons-resolver1.1-java=1.2-11
Binary URL: http://snapshot.notset.fr/mr/binary/libxml-commons-resolver1.1-java/1.2-11/binfiles?fileinfo=1
Get binary package info: libxml2=2.9.12+dfsg-5+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libxml2/2.9.12+dfsg-5+b1/binfiles?fileinfo=1
Get binary package info: libxpp3-java=1.1.4c-3
Binary URL: http://snapshot.notset.fr/mr/binary/libxpp3-java/1.1.4c-3/binfiles?fileinfo=1
Get binary package info: libxrender1=1:0.9.10-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxrender1/1:0.9.10-1/binfiles?fileinfo=1
Get binary package info: libxshmfence1=1.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxshmfence1/1.3-1/binfiles?fileinfo=1
Get binary package info: libxsom-java=2.3.0.1-10
Binary URL: http://snapshot.notset.fr/mr/binary/libxsom-java/2.3.0.1-10/binfiles?fileinfo=1
Get binary package info: libxstream-java=1.4.18-2
Binary URL: http://snapshot.notset.fr/mr/binary/libxstream-java/1.4.18-2/binfiles?fileinfo=1
Get binary package info: libxtst6=2:1.2.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxtst6/2:1.2.3-1/binfiles?fileinfo=1
Get binary package info: libxxf86vm1=1:1.1.4-1+b2
Binary URL: http://snapshot.notset.fr/mr/binary/libxxf86vm1/1:1.1.4-1+b2/binfiles?fileinfo=1
Get binary package info: libxz-java=1.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/libxz-java/1.9-1/binfiles?fileinfo=1
Get binary package info: libyaml-snake-java=1.29-1
Binary URL: http://snapshot.notset.fr/mr/binary/libyaml-snake-java/1.29-1/binfiles?fileinfo=1
Get binary package info: libz3-4=4.8.12-1+b1
Binary URL: http://snapshot.notset.fr/mr/binary/libz3-4/4.8.12-1+b1/binfiles?fileinfo=1
Get binary package info: libzstd1=1.4.8+dfsg-3
Binary URL: http://snapshot.notset.fr/mr/binary/libzstd1/1.4.8+dfsg-3/binfiles?fileinfo=1
Get binary package info: linux-libc-dev=5.15.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/linux-libc-dev/5.15.3-1/binfiles?fileinfo=1
Get binary package info: login=1:4.8.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/login/1:4.8.1-2/binfiles?fileinfo=1
Get binary package info: lsb-base=11.1.0
Binary URL: http://snapshot.notset.fr/mr/binary/lsb-base/11.1.0/binfiles?fileinfo=1
Get binary package info: m4=1.4.18-5
Binary URL: http://snapshot.notset.fr/mr/binary/m4/1.4.18-5/binfiles?fileinfo=1
Get binary package info: make=4.3-4.1
Binary URL: http://snapshot.notset.fr/mr/binary/make/4.3-4.1/binfiles?fileinfo=1
Get binary package info: man-db=2.9.4-2
Binary URL: http://snapshot.notset.fr/mr/binary/man-db/2.9.4-2/binfiles?fileinfo=1
Get binary package info: maven-repo-helper=1.10
Binary URL: http://snapshot.notset.fr/mr/binary/maven-repo-helper/1.10/binfiles?fileinfo=1
Get binary package info: mawk=1.3.4.20200120-2
Binary URL: http://snapshot.notset.fr/mr/binary/mawk/1.3.4.20200120-2/binfiles?fileinfo=1
Get binary package info: media-types=4.0.0
Binary URL: http://snapshot.notset.fr/mr/binary/media-types/4.0.0/binfiles?fileinfo=1
Get binary package info: ncurses-base=6.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/ncurses-base/6.3-1/binfiles?fileinfo=1
Get binary package info: ncurses-bin=6.3-1
Binary URL: http://snapshot.notset.fr/mr/binary/ncurses-bin/6.3-1/binfiles?fileinfo=1
Get binary package info: netbase=6.3
Binary URL: http://snapshot.notset.fr/mr/binary/netbase/6.3/binfiles?fileinfo=1
Get binary package info: openjdk-11-doc=11.0.13+8-1
Binary URL: http://snapshot.notset.fr/mr/binary/openjdk-11-doc/11.0.13+8-1/binfiles?fileinfo=1
Get binary package info: openjdk-11-jdk=11.0.13+8-1
Binary URL: http://snapshot.notset.fr/mr/binary/openjdk-11-jdk/11.0.13+8-1/binfiles?fileinfo=1
Get binary package info: openjdk-11-jdk-headless=11.0.13+8-1
Binary URL: http://snapshot.notset.fr/mr/binary/openjdk-11-jdk-headless/11.0.13+8-1/binfiles?fileinfo=1
Get binary package info: openjdk-11-jre=11.0.13+8-1
Binary URL: http://snapshot.notset.fr/mr/binary/openjdk-11-jre/11.0.13+8-1/binfiles?fileinfo=1
Get binary package info: openjdk-11-jre-headless=11.0.13+8-1
Binary URL: http://snapshot.notset.fr/mr/binary/openjdk-11-jre-headless/11.0.13+8-1/binfiles?fileinfo=1
Get binary package info: openssl=1.1.1l-1
Binary URL: http://snapshot.notset.fr/mr/binary/openssl/1.1.1l-1/binfiles?fileinfo=1
Get binary package info: passwd=1:4.8.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/passwd/1:4.8.1-2/binfiles?fileinfo=1
Get binary package info: patch=2.7.6-7
Binary URL: http://snapshot.notset.fr/mr/binary/patch/2.7.6-7/binfiles?fileinfo=1
Get binary package info: patchutils=0.4.2-1
Binary URL: http://snapshot.notset.fr/mr/binary/patchutils/0.4.2-1/binfiles?fileinfo=1
Get binary package info: perl=5.32.1-6
Binary URL: http://snapshot.notset.fr/mr/binary/perl/5.32.1-6/binfiles?fileinfo=1
Get binary package info: perl-base=5.32.1-6
Binary URL: http://snapshot.notset.fr/mr/binary/perl-base/5.32.1-6/binfiles?fileinfo=1
Get binary package info: perl-modules-5.32=5.32.1-6
Binary URL: http://snapshot.notset.fr/mr/binary/perl-modules-5.32/5.32.1-6/binfiles?fileinfo=1
Get binary package info: perl-openssl-defaults=5
Binary URL: http://snapshot.notset.fr/mr/binary/perl-openssl-defaults/5/binfiles?fileinfo=1
Get binary package info: pinentry-curses=1.1.0-4
Binary URL: http://snapshot.notset.fr/mr/binary/pinentry-curses/1.1.0-4/binfiles?fileinfo=1
Get binary package info: po-debconf=1.0.21+nmu1
Binary URL: http://snapshot.notset.fr/mr/binary/po-debconf/1.0.21+nmu1/binfiles?fileinfo=1
Get binary package info: python3=3.9.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/python3/3.9.8-1/binfiles?fileinfo=1
Get binary package info: python3-minimal=3.9.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/python3-minimal/3.9.8-1/binfiles?fileinfo=1
Get binary package info: python3.9=3.9.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/python3.9/3.9.9-1/binfiles?fileinfo=1
Get binary package info: python3.9-minimal=3.9.9-1
Binary URL: http://snapshot.notset.fr/mr/binary/python3.9-minimal/3.9.9-1/binfiles?fileinfo=1
Get binary package info: readline-common=8.1-2
Binary URL: http://snapshot.notset.fr/mr/binary/readline-common/8.1-2/binfiles?fileinfo=1
Get binary package info: rpcsvc-proto=1.4.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/rpcsvc-proto/1.4.2-4/binfiles?fileinfo=1
Get binary package info: scala-library=2.11.12-5
Binary URL: http://snapshot.notset.fr/mr/binary/scala-library/2.11.12-5/binfiles?fileinfo=1
Get binary package info: sed=4.8-1
Binary URL: http://snapshot.notset.fr/mr/binary/sed/4.8-1/binfiles?fileinfo=1
Get binary package info: sensible-utils=0.0.17
Binary URL: http://snapshot.notset.fr/mr/binary/sensible-utils/0.0.17/binfiles?fileinfo=1
Get binary package info: sysvinit-utils=3.00-1
Binary URL: http://snapshot.notset.fr/mr/binary/sysvinit-utils/3.00-1/binfiles?fileinfo=1
Get binary package info: tar=1.34+dfsg-1
Binary URL: http://snapshot.notset.fr/mr/binary/tar/1.34+dfsg-1/binfiles?fileinfo=1
Get binary package info: testng=6.9.12-4
Binary URL: http://snapshot.notset.fr/mr/binary/testng/6.9.12-4/binfiles?fileinfo=1
Get binary package info: tzdata=2021e-1
Binary URL: http://snapshot.notset.fr/mr/binary/tzdata/2021e-1/binfiles?fileinfo=1
Get binary package info: ucf=3.0043
Binary URL: http://snapshot.notset.fr/mr/binary/ucf/3.0043/binfiles?fileinfo=1
Get binary package info: unzip=6.0-26
Binary URL: http://snapshot.notset.fr/mr/binary/unzip/6.0-26/binfiles?fileinfo=1
Get binary package info: util-linux=2.37.2-4
Binary URL: http://snapshot.notset.fr/mr/binary/util-linux/2.37.2-4/binfiles?fileinfo=1
Get binary package info: wdiff=1.2.2-2+b1
Binary URL: http://snapshot.notset.fr/mr/binary/wdiff/1.2.2-2+b1/binfiles?fileinfo=1
Get binary package info: x11-common=1:7.7+23
Binary URL: http://snapshot.notset.fr/mr/binary/x11-common/1:7.7+23/binfiles?fileinfo=1
Get binary package info: xz-utils=5.2.5-2
Binary URL: http://snapshot.notset.fr/mr/binary/xz-utils/5.2.5-2/binfiles?fileinfo=1
Get binary package info: zlib1g=1:1.2.11.dfsg-2
Binary URL: http://snapshot.notset.fr/mr/binary/zlib1g/1:1.2.11.dfsg-2/binfiles?fileinfo=1
Remaining packages to be found: 463
Timestamp source (243 packages): deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main
New buildinfo file: /tmp/htsjdk-2.24.1+dfsg-1nkb5uakn/htsjdk_2.24.1+dfsg-1_all.buildinfo
env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=adduser:all=3.118 ant:all=1.10.11-1 ant-optional:all=1.10.11-1 antlr:all=2.7.7+dfsg-12 autoconf:all=2.71-2 automake:all=1:1.16.5-1.1 autopoint:all=0.21-4 autotools-dev:all=20180224.1+nmu1 base-files:amd64=12 base-passwd:amd64=3.5.52 bash:amd64=5.1-3.1 binutils:amd64=2.37-10 binutils-common:amd64=2.37-10 binutils-x86-64-linux-gnu:amd64=2.37-10 bnd:all=5.0.1-3 bsdextrautils:amd64=2.37.2-4 bsdutils:amd64=1:2.37.2-4 build-essential:amd64=12.9 bzip2:amd64=1.0.8-4 ca-certificates:all=20211016 ca-certificates-java:all=20190909 coreutils:amd64=8.32-4.1 cpp:amd64=4:11.2.0-2 cpp-11:amd64=11.2.0-12 dash:amd64=0.5.11+git20210903+057cd650a4ed-3 dctrl-tools:amd64=2.24-3+b1 debconf:all=1.5.79 debhelper:all=13.5.2 debianutils:amd64=5.5-1 default-jdk:amd64=2:1.11-72 default-jdk-doc:amd64=2:1.11-72 default-jdk-headless:amd64=2:1.11-72 default-jre:amd64=2:1.11-72 default-jre-headless:amd64=2:1.11-72 devscripts:amd64=2.21.5 dh-autoreconf:all=20 dh-strip-nondeterminism:all=1.12.1-1 diffutils:amd64=1:3.7-5 dirmngr:amd64=2.2.27-2 dpkg:amd64=1.20.9 dpkg-dev:all=1.20.9 dwz:amd64=0.14-1 fakeroot:amd64=1.26-1 file:amd64=1:5.41-2 findutils:amd64=4.8.0-1 fontconfig-config:all=2.13.1-4.2 fonts-dejavu-core:all=2.37-2 g++:amd64=4:11.2.0-2 g++-11:amd64=11.2.0-12 gcc:amd64=4:11.2.0-2 gcc-11:amd64=11.2.0-12 gcc-11-base:amd64=11.2.0-12 gettext:amd64=0.21-4 gettext-base:amd64=0.21-4 gnupg:all=2.2.27-2 gnupg-l10n:all=2.2.27-2 gnupg-utils:amd64=2.2.27-2 gpg:amd64=2.2.27-2 gpg-agent:amd64=2.2.27-2 gpg-wks-client:amd64=2.2.27-2 gpg-wks-server:amd64=2.2.27-2 gpgconf:amd64=2.2.27-2 gpgsm:amd64=2.2.27-2 gpgv:amd64=2.2.27-2 gradle:all=4.4.1-13 gradle-debian-helper:all=2.1 grep:amd64=3.7-1 groff-base:amd64=1.22.4-7 groovy:all=2.4.21-1 gzip:amd64=1.10-4 hostname:amd64=3.23 init-system-helpers:all=1.60 intltool-debian:all=0.35.0+20060710.5 ivy:all=2.5.0-2 java-common:all=0.72 java-wrappers:all=0.3 javahelper:all=0.78 junit4:all=4.13.2-1 libacl1:amd64=2.3.1-1 libactivation-java:all=1.2.0-2 libantlr-java:all=2.7.7+dfsg-12 libaopalliance-java:all=20070526-6 libapache-pom-java:all=18-1 libarchive-zip-perl:all=1.68-1 libargs4j-java:all=2.33-1.1 libasan6:amd64=11.2.0-12 libasm-java:all=9.2-1 libasound2:amd64=1.2.5.1-1 libasound2-data:all=1.2.5.1-1 libassuan0:amd64=2.5.5-1 libatinject-jsr330-api-java:all=1.0+ds1-5 libatomic1:amd64=11.2.0-12 libattr1:amd64=1:2.5.1-1 libaudit-common:all=1:3.0.6-1 libaudit1:amd64=1:3.0.6-1+b1 libavahi-client3:amd64=0.8-5 libavahi-common-data:amd64=0.8-5 libavahi-common3:amd64=0.8-5 libb-hooks-op-check-perl:amd64=0.22-1+b3 libbcel-java:all=6.5.0-1 libbcpg-java:all=1.68-5 libbcprov-java:all=1.68-5 libbinutils:amd64=2.37-10 libblkid1:amd64=2.37.2-4 libbrotli1:amd64=1.0.9-2+b3 libbsd0:amd64=0.11.3-1 libbsf-java:all=1:2.4.0-8 libbsh-java:all=2.0b4-20 libbz2-1.0:amd64=1.0.8-4 libc-bin:amd64=2.32-4 libc-dev-bin:amd64=2.32-4 libc6:amd64=2.32-4 libc6-dev:amd64=2.32-4 libcap-ng0:amd64=0.7.9-2.2+b1 libcap2:amd64=1:2.44-1 libcc1-0:amd64=11.2.0-12 libcdi-api-java:all=1.2-3 libclass-method-modifiers-perl:all=2.13-1 libcodemodel-java:all=2.6+jaxb2.3.0.1-10 libcom-err2:amd64=1.46.4-1 libcommons-cli-java:all=1.4-2 libcommons-codec-java:all=1.15-1 libcommons-collections3-java:all=3.2.2-2 libcommons-compress-java:all=1.21-1 libcommons-io-java:all=2.11.0-2 libcommons-jexl2-java:all=2.1.1-5 libcommons-lang-java:all=2.6-9 libcommons-lang3-java:all=3.11-1 libcommons-logging-java:all=1.2-2 libcommons-parent-java:all=43-1 libcrypt-dev:amd64=1:4.4.26-1 libcrypt1:amd64=1:4.4.26-1 libctf-nobfd0:amd64=2.37-10 libctf0:amd64=2.37-10 libcups2:amd64=2.3.3op2-7 libdb5.3:amd64=5.3.28+dfsg1-0.8 libdbus-1-3:amd64=1.12.20-3 libdd-plist-java:all=1.20-1.1 libdebconfclient0:amd64=0.261 libdebhelper-perl:all=13.5.2 libdevel-callchecker-perl:amd64=0.008-1+b2 libdom4j-java:all=2.1.3-1 libdpkg-perl:all=1.20.9 libdrm-amdgpu1:amd64=2.4.108-1 libdrm-common:all=2.4.108-1 libdrm-intel1:amd64=2.4.108-1 libdrm-nouveau2:amd64=2.4.108-1 libdrm-radeon1:amd64=2.4.108-1 libdrm2:amd64=2.4.108-1 libdtd-parser-java:all=1.2-1 libdynaloader-functions-perl:all=0.003-1.1 libeclipse-jdt-annotation-java:all=2.2.600+eclipse4.21-1 libedit2:amd64=3.1-20210910-1 libel-api-java:all=3.0.0-3 libelf1:amd64=0.186-1 libencode-locale-perl:all=1.05-1.1 libexpat1:amd64=2.4.1-3 libfakeroot:amd64=1.26-1 libfastinfoset-java:all=1.2.12-3 libfelix-framework-java:all=4.6.1-2.1 libfelix-gogo-runtime-java:all=0.16.2-1.1 libfelix-resolver-java:all=1.16.0-1 libffi8:amd64=3.4.2-3 libfile-dirlist-perl:all=0.05-2 libfile-homedir-perl:all=1.006-1 libfile-listing-perl:all=6.14-1 libfile-stripnondeterminism-perl:all=1.12.1-1 libfile-touch-perl:all=0.12-1 libfile-which-perl:all=1.23-1 libfindbugs-java:all=3.1.0~preview2-3 libfontconfig1:amd64=2.13.1-4.2 libfreetype6:amd64=2.11.0+dfsg-1 libgcc-11-dev:amd64=11.2.0-12 libgcc-s1:amd64=11.2.0-12 libgcrypt20:amd64=1.9.4-3+b1 libgdbm-compat4:amd64=1.22-1 libgdbm6:amd64=1.22-1 libgeronimo-annotation-1.3-spec-java:all=1.3-1 libgeronimo-interceptor-3.0-spec-java:all=1.0.1-4 libgif7:amd64=5.1.9-2 libgl1:amd64=1.3.4-2+b1 libgl1-mesa-dri:amd64=21.2.5-1 libglapi-mesa:amd64=21.2.5-1 libglib2.0-0:amd64=2.70.1-1 libglvnd0:amd64=1.3.4-2+b1 libglx-mesa0:amd64=21.2.5-1 libglx0:amd64=1.3.4-2+b1 libgmp10:amd64=2:6.2.1+dfsg-3 libgnutls30:amd64=3.7.2-2 libgomp1:amd64=11.2.0-12 libgoogle-gson-java:all=2.8.8-1 libgpg-error0:amd64=1.42-3 libgradle-core-java:all=4.4.1-13 libgradle-plugins-java:all=4.4.1-13 libgraphite2-3:amd64=1.3.14-1 libgssapi-krb5-2:amd64=1.18.3-7 libguava-java:all=29.0-6 libguice-java:all=4.2.3-2 libhamcrest-java:all=1.3-9 libharfbuzz0b:amd64=2.7.4-1 libhawtjni-runtime-java:all=1.17-1 libhogweed6:amd64=3.7.3-1 libhtml-parser-perl:amd64=3.76-1 libhtml-tagset-perl:all=3.20-4 libhtml-tree-perl:all=5.07-2 libhttp-cookies-perl:all=6.10-1 libhttp-date-perl:all=6.05-1 libhttp-message-perl:all=6.35-1 libhttp-negotiate-perl:all=6.01-1 libhttpclient-java:all=4.5.13-3 libhttpcore-java:all=4.4.14-2 libicu67:amd64=67.1-7 libidn2-0:amd64=2.3.2-2 libimport-into-perl:all=1.002005-1 libio-html-perl:all=1.004-2 libio-pty-perl:amd64=1:1.15-2 libio-socket-ssl-perl:all=2.072-1 libipc-run-perl:all=20200505.0-1 libisl23:amd64=0.24-2 libistack-commons-java:all=3.0.6-5 libitm1:amd64=11.2.0-12 libjansi-java:all=1.18-1 libjansi-native-java:all=1.8-1 libjarjar-java:all=1.4+svn142-10 libjatl-java:all=0.2.3-1.1 libjavaewah-java:all=1.1.7-1 libjaxb-api-java:all=2.3.1-1 libjaxb-java:all=2.3.0.1-10 libjaxen-java:all=1.1.6-4 libjcifs-java:all=1.3.19-2 libjcip-annotations-java:all=20060626-6 libjcommander-java:all=1.71-3 libjetty9-java:all=9.4.44-3 libjformatstring-java:all=0.10~20131207-2.1 libjgit-java:all=4.11.9-1 libjimfs-java:all=1.1-6 libjline2-java:all=2.14.6-4 libjna-java:all=5.9.0-1 libjna-jni:amd64=5.9.0-1 libjpeg62-turbo:amd64=1:2.1.1-2 libjs-jquery:all=3.5.1+dfsg+~3.5.5-8 libjsch-java:all=0.1.55-1 libjson-simple-java:all=2.3.0-1 libjsoup-java:all=1.14.3-1 libjsp-api-java:all=2.3.4-3 libjsr305-java:all=0.1~+svn49-11 libjzlib-java:all=1.1.3-2 libk5crypto3:amd64=1.18.3-7 libkeyutils1:amd64=1.6.1-2 libkrb5-3:amd64=1.18.3-7 libkrb5support0:amd64=1.18.3-7 libkryo-java:all=2.20-7 libksba8:amd64=1.6.0-2 liblcms2-2:amd64=2.12~rc1-2 libldap-2.4-2:amd64=2.4.59+dfsg-1 libllvm12:amd64=1:12.0.1-16 liblogback-java:all=1:1.2.3-6 liblsan0:amd64=11.2.0-12 liblwp-mediatypes-perl:all=6.04-1 liblwp-protocol-https-perl:all=6.10-1 liblz4-1:amd64=1.9.3-2 liblzma5:amd64=5.2.5-2 libmagic-mgc:amd64=1:5.41-2 libmagic1:amd64=1:5.41-2 libmaven-file-management-java:all=3.0.0-1 libmaven-parent-java:all=31-2 libmaven-resolver-java:all=1.4.2-3 libmaven-shared-io-java:all=3.0.0-3 libmaven-shared-utils-java:all=3.3.0-1 libmaven3-core-java:all=3.6.3-5 libmd0:amd64=1.0.4-1 libminlog-java:all=1.3.0-1.1 libmodule-runtime-perl:all=0.016-1 libmoo-perl:all=2.005004-2 libmount1:amd64=2.37.2-4 libmpc3:amd64=1.2.1-1 libmpdec3:amd64=2.5.1-2 libmpfr6:amd64=4.1.0-3 libnative-platform-java:all=0.14-5 libnative-platform-jni:amd64=0.14-5 libncurses6:amd64=6.3-1 libncursesw6:amd64=6.3-1 libnekohtml-java:all=1.9.22-1.1 libnet-http-perl:all=6.21-1 libnet-ssleay-perl:amd64=1.90-1 libnettle8:amd64=3.7.3-1 libngs-java:amd64=2.11.2-1 libngs-sdk-dev:amd64=2.11.2-1 libngs-sdk2:amd64=2.11.2-1 libnpth0:amd64=1.6-3 libnsl-dev:amd64=1.3.0-2 libnsl2:amd64=1.3.0-2 libnspr4:amd64=2:4.32-3 libnss3:amd64=2:3.72-2 libobjenesis-java:all=3.2-1 libosgi-annotation-java:all=8.0.1-1 libosgi-compendium-java:all=7.0.0-1 libosgi-core-java:all=7.0.0-2 libp11-kit0:amd64=0.24.0-5 libpam-modules:amd64=1.4.0-10 libpam-modules-bin:amd64=1.4.0-10 libpam-runtime:all=1.4.0-10 libpam0g:amd64=1.4.0-10 libparams-classify-perl:amd64=0.015-1+b3 libpciaccess0:amd64=0.16-1 libpcre2-8-0:amd64=10.39-3 libpcre3:amd64=2:8.39-13 libpcsclite1:amd64=1.9.4-1 libperl5.32:amd64=5.32.1-6 libpipeline1:amd64=1.5.4-1 libplexus-archiver-java:all=3.6.0-2 libplexus-cipher-java:all=1.8-2 libplexus-classworlds-java:all=2.6.0-1 libplexus-component-annotations-java:all=2.1.0-1 libplexus-container-default-java:all=2.1.0-1 libplexus-interpolation-java:all=1.26-1 libplexus-io-java:all=3.2.0-1.1 libplexus-sec-dispatcher-java:all=1.4-4 libplexus-utils2-java:all=3.3.0-1 libpng16-16:amd64=1.6.37-3 libpolyglot-maven-java:all=0.8~tobrien+git20120905-10 libpython3-stdlib:amd64=3.9.8-1 libpython3.9-minimal:amd64=3.9.9-1 libpython3.9-stdlib:amd64=3.9.9-1 libqdox-java:all=1.12.1-3 libquadmath0:amd64=11.2.0-12 libreadline8:amd64=8.1-2 libreflectasm-java:all=1.11.6+dfsg-1 librelaxng-datatype-java:all=1.0+ds1-3.1 librhino-java:all=1.7.7.2-3 librngom-java:all=2.3.0.1-10 librole-tiny-perl:all=2.002004-1 libsasl2-2:amd64=2.1.27+dfsg2-2 libsasl2-modules-db:amd64=2.1.27+dfsg2-2 libseccomp2:amd64=2.5.3-2 libselinux1:amd64=3.3-1+b1 libsemanage-common:all=3.3-1 libsemanage2:amd64=3.3-1+b1 libsensors-config:all=1:3.6.0-7 libsensors5:amd64=1:3.6.0-7 libsepol2:amd64=3.3-1 libservlet-api-java:all=4.0.1-2 libservlet3.1-java:all=1:4.0.1-2 libsigsegv2:amd64=2.13-1 libsimple-http-java:all=4.1.21-1.1 libsisu-inject-java:all=0.3.4-2 libsisu-plexus-java:all=0.3.4-3 libslf4j-java:all=1.7.32-1 libsmartcols1:amd64=2.37.2-4 libsnappy-java:all=1.1.8.3-1 libsnappy-jni:amd64=1.1.8.3-1 libsnappy1v5:amd64=1.1.8-1 libsqlite3-0:amd64=3.36.0-2 libssl1.1:amd64=1.1.1l-1 libstax-ex-java:all=1.7.8-3 libstdc++-11-dev:amd64=11.2.0-12 libstdc++6:amd64=11.2.0-12 libstreambuffer-java:all=1.5.4-1.1 libsub-override-perl:all=0.09-2 libsub-quote-perl:all=2.006006-1 libsystemd0:amd64=249.7-1 libtasn1-6:amd64=4.18.0-4 libtimedate-perl:all=2.3300-2 libtinfo6:amd64=6.3-1 libtirpc-common:all=1.3.2-2 libtirpc-dev:amd64=1.3.2-2 libtirpc3:amd64=1.3.2-2 libtool:all=2.4.6-15 libtry-tiny-perl:all=0.30-1 libtsan0:amd64=11.2.0-12 libtxw2-java:all=2.3.0.1-10 libubsan1:amd64=11.2.0-12 libuchardet0:amd64=0.0.7-1 libudev1:amd64=249.7-1 libunistring2:amd64=0.9.10-6 liburi-perl:all=5.10-1 libuuid1:amd64=2.37.2-4 libvulkan1:amd64=1.2.189.0-2 libwagon-file-java:all=3.3.4-1 libwagon-http-java:all=3.3.4-1 libwagon-provider-api-java:all=3.3.4-1 libwebsocket-api-java:all=1.1-2 libwww-perl:all=6.58-1 libwww-robotrules-perl:all=6.02-1 libx11-6:amd64=2:1.7.2-2+b1 libx11-data:all=2:1.7.2-2 libx11-xcb1:amd64=2:1.7.2-2+b1 libxau6:amd64=1:1.0.9-1 libxbean-reflect-java:all=4.5-8 libxcb-dri2-0:amd64=1.14-3 libxcb-dri3-0:amd64=1.14-3 libxcb-glx0:amd64=1.14-3 libxcb-present0:amd64=1.14-3 libxcb-shm0:amd64=1.14-3 libxcb-sync1:amd64=1.14-3 libxcb-xfixes0:amd64=1.14-3 libxcb1:amd64=1.14-3 libxdmcp6:amd64=1:1.1.2-3 libxerces2-java:all=2.12.1-1 libxext6:amd64=2:1.3.4-1 libxfixes3:amd64=1:5.0.3-2 libxi6:amd64=2:1.8-1 libxml-commons-external-java:all=1.4.01-5 libxml-commons-resolver1.1-java:all=1.2-11 libxml2:amd64=2.9.12+dfsg-5+b1 libxpp3-java:all=1.1.4c-3 libxrender1:amd64=1:0.9.10-1 libxshmfence1:amd64=1.3-1 libxsom-java:all=2.3.0.1-10 libxstream-java:all=1.4.18-2 libxtst6:amd64=2:1.2.3-1 libxxf86vm1:amd64=1:1.1.4-1+b2 libxz-java:all=1.9-1 libyaml-snake-java:all=1.29-1 libz3-4:amd64=4.8.12-1+b1 libzstd1:amd64=1.4.8+dfsg-3 linux-libc-dev:amd64=5.15.3-1 login:amd64=1:4.8.1-2 lsb-base:all=11.1.0 m4:amd64=1.4.18-5 make:amd64=4.3-4.1 man-db:amd64=2.9.4-2 maven-repo-helper:all=1.10 mawk:amd64=1.3.4.20200120-2 media-types:all=4.0.0 ncurses-base:all=6.3-1 ncurses-bin:amd64=6.3-1 netbase:all=6.3 openjdk-11-doc:all=11.0.13+8-1 openjdk-11-jdk:amd64=11.0.13+8-1 openjdk-11-jdk-headless:amd64=11.0.13+8-1 openjdk-11-jre:amd64=11.0.13+8-1 openjdk-11-jre-headless:amd64=11.0.13+8-1 openssl:amd64=1.1.1l-1 passwd:amd64=1:4.8.1-2 patch:amd64=2.7.6-7 patchutils:amd64=0.4.2-1 perl:amd64=5.32.1-6 perl-base:amd64=5.32.1-6 perl-modules-5.32:all=5.32.1-6 perl-openssl-defaults:amd64=5 pinentry-curses:amd64=1.1.0-4 po-debconf:all=1.0.21+nmu1 python3:amd64=3.9.8-1 python3-minimal:amd64=3.9.8-1 python3.9:amd64=3.9.9-1 python3.9-minimal:amd64=3.9.9-1 readline-common:all=8.1-2 rpcsvc-proto:amd64=1.4.2-4 scala-library:all=2.11.12-5 sed:amd64=4.8-1 sensible-utils:all=0.0.17 sysvinit-utils:amd64=3.00-1 tar:amd64=1.34+dfsg-1 testng:all=6.9.12-4 tzdata:all=2021e-1 ucf:all=3.0043 unzip:amd64=6.0-26 util-linux:amd64=2.37.2-4 wdiff:amd64=1.2.2-2+b1 x11-common:all=1:7.7+23 xz-utils:amd64=5.2.5-2 zlib1g:amd64=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20211124T025830Z/ unstable main
deb-src http://snapshot.notset.fr/archive/debian/20211124T025830Z/ unstable main
deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d htsjdk=2.24.1+dfsg-1 && mkdir -p /build/htsjdk-meg1tw && dpkg-source --no-check -x /*.dsc /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg && chown -R builduser:builduser /build/htsjdk-meg1tw" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637701405" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/htsjdk-meg1tw /tmp/htsjdk-2.24.1+dfsg-1nkb5uakn bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm main
I: automatically chosen mode: root
I: chroot architecture amd64 is equal to the host's architecture
I: automatically chosen format: tar
I: using /tmp/mmdebstrap.FqIVzlvQhR as tempdir
I: running apt-get update...
I: downloading packages with apt...
I: extracting archives...
I: installing essential packages...
I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.FqIVzlvQhR
Reading package lists...
Building dependency tree...
util-linux is already the newest version (2.36.1-8).
The following NEW packages will be installed:
  fakeroot libfakeroot
0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded.
Need to get 134 kB of archives.
After this operation, 397 kB of additional disk space will be used.
Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB]
Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 134 kB in 0s (995 kB/s)
Selecting previously unselected package libfakeroot:amd64.
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(Reading database ... 4668 files and directories currently installed.)
Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ...
Unpacking libfakeroot:amd64 (1.25.3-1.1) ...
Selecting previously unselected package fakeroot.
Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ...
Unpacking fakeroot (1.25.3-1.1) ...
Setting up libfakeroot:amd64 (1.25.3-1.1) ...
Setting up fakeroot (1.25.3-1.1) ...
update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode
Processing triggers for libc-bin (2.31-13) ...
I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/
I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20211124T025830Z/ unstable main
deb-src http://snapshot.notset.fr/archive/debian/20211124T025830Z/ unstable main
deb http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.FqIVzlvQhR
Get:1 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable InRelease [165 kB]
Hit:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease
Ign:3 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main Sources
Ign:4 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main amd64 Packages
Ign:3 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main Sources
Ign:4 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main amd64 Packages
Ign:3 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main Sources
Ign:4 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main amd64 Packages
Get:3 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main Sources [12.5 MB]
Get:4 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main amd64 Packages [12.0 MB]
Fetched 24.7 MB in 21s (1193 kB/s)
Reading package lists...
I: installing remaining packages inside the chroot...
I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.FqIVzlvQhR
I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d htsjdk=2.24.1+dfsg-1 && mkdir -p /build/htsjdk-meg1tw && dpkg-source --no-check -x /*.dsc /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg && chown -R builduser:builduser /build/htsjdk-meg1tw"' exec /tmp/mmdebstrap.FqIVzlvQhR
Reading package lists...
NOTICE: 'htsjdk' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/htsjdk.git
Please use:
git clone https://salsa.debian.org/med-team/htsjdk.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 44.2 MB of source archives.
Get:1 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main htsjdk 2.24.1+dfsg-1 (dsc) [2462 B]
Get:2 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main htsjdk 2.24.1+dfsg-1 (tar) [44.2 MB]
Get:3 http://snapshot.notset.fr/archive/debian/20211124T025830Z unstable/main htsjdk 2.24.1+dfsg-1 (diff) [31.9 kB]
Fetched 44.2 MB in 35s (1277 kB/s)
Download complete and in download only mode
W: Download is performed unsandboxed as root as file 'htsjdk_2.24.1+dfsg-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied)
dpkg-source: info: extracting htsjdk in /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg
dpkg-source: info: unpacking htsjdk_2.24.1+dfsg.orig.tar.xz
dpkg-source: info: unpacking htsjdk_2.24.1+dfsg-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 10-build.xml.patch
dpkg-source: info: applying 13-skip_network_tests
dpkg-source: info: applying 20-fix-version.patch
dpkg-source: info: applying 30-disable-scalatest.patch
dpkg-source: info: applying 40-fix-java9
dpkg-source: info: applying 60-enable-tests
dpkg-source: info: applying 70-removesometests-testng.patch
dpkg-source: info: applying 80-2to3.patch
dpkg-source: info: applying 90-disable-testftp.patch
dpkg-source: info: applying 92-disable-testhttp.patch
dpkg-source: info: applying 100-fix-java11
dpkg-source: info: applying 110-debian-lib-version.patch
dpkg-source: info: applying disable-network-tests.diff
dpkg-source: info: applying 120-fix-build.patch
dpkg-source: info: applying 130-use-json-simple-instead-of-mjson.patch
I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637701405" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.FqIVzlvQhR
dpkg-buildpackage: info: source package htsjdk
dpkg-buildpackage: info: source version 2.24.1+dfsg-1
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Pierre Gruet <pgt@debian.org>
 dpkg-source --before-build .
 debian/rules clean
dh  clean  --buildsystem=gradle --with javahelper,jh_maven_repo_helper
   dh_auto_clean -O--buildsystem=gradle
	install -d /build/htsjdk-meg1tw/htsjdk-2.24.1\+dfsg/debian/.debhelper/generated/_source/home
	sh -c "find . -wholename .*build/tmp | xargs echo | sed -e 's^build/tmp^build^g' | xargs rm -Rf"
	sh -c "find . -wholename .*build/debian | xargs echo | sed -e 's^build/tmp^build^g' | xargs rm -Rf"
	rm -Rf /build/htsjdk-meg1tw/htsjdk-2.24.1\+dfsg/.gradle /build/htsjdk-meg1tw/htsjdk-2.24.1\+dfsg/buildSrc/.gradle .m2
   dh_autoreconf_clean -O--buildsystem=gradle
   jh_clean -O--buildsystem=gradle
	rm -fr debian/_jh_manifest* debian/_jh_build*
	rm -fr debian/.eclipse-build
	rm -f debian/orbitdeps.debhelper
   mh_clean -O--buildsystem=gradle
   dh_clean -O--buildsystem=gradle
	rm -f debian/debhelper-build-stamp
	rm -rf debian/.debhelper/
	rm -f -- debian/libhtsjdk-java.substvars debian/libhtsjdk-java-doc.substvars debian/files
	rm -fr -- debian/libhtsjdk-java/ debian/tmp/ debian/libhtsjdk-java-doc/
	find .  \( \( \
		\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \
	        \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
		 -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
		 -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
		 -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
		\) -exec rm -f {} + \) -o \
		\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
 debian/rules binary-indep
dh  binary-indep  --buildsystem=gradle --with javahelper,jh_maven_repo_helper
   dh_update_autotools_config -i -O--buildsystem=gradle
   dh_autoreconf -i -O--buildsystem=gradle
   dh_auto_configure -i -O--buildsystem=gradle
	install -d /build/htsjdk-meg1tw/htsjdk-2.24.1\+dfsg/debian/.debhelper/generated/_source/home
   jh_linkjars -i -O--buildsystem=gradle
   debian/rules override_dh_auto_build
make[1]: Entering directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
dh_auto_build -- jar javadoc
	mkdir -p .gradle/init.d
	cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/
	gradle --info --console plain --offline --stacktrace --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. -Duser.name=debian -Ddebian.package=htsjdk -Dfile.encoding=UTF-8 --parallel --max-workers=4 jar javadoc
Initialized native services in: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/native
Using 4 worker leases.
Creating new cache for fileHashes, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf3798b
Creating new cache for resourceHashesCache, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf3798b
Creating new cache for fileHashes, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@2cd2c8fe
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access using Lookup on org.gradle.internal.reflect.JavaMethod (file:/usr/share/gradle/lib/gradle-base-services-4.4.1.jar) to class java.lang.ClassLoader
WARNING: Please consider reporting this to the maintainers of org.gradle.internal.reflect.JavaMethod
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
Starting Build
Compiling initialization script '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/init.d/init.gradle' using SubsetScriptTransformer.
Creating new cache for metadata-1.1/results, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@221a2068
Compiling initialization script '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/init.d/init.gradle' using BuildScriptTransformer.
Compiling settings file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/settings.gradle' using SubsetScriptTransformer.
Compiling settings file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/settings.gradle' using BuildScriptTransformer.
Settings evaluated using settings file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/settings.gradle'.
Projects loaded. Root project using build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle'.
Included projects: [root project 'htsjdk']
	Keep-alive timer started
	Adding Debian repository to project 'htsjdk'
Parallel execution is an incubating feature.
Evaluating root project 'htsjdk' using build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle'.
Compiling build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle' using SubsetScriptTransformer.
Compiling build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle' using BuildScriptTransformer.
Starting process 'command 'dpkg-parsechangelog''. Working directory: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg Command: dpkg-parsechangelog -S Version
Successfully started process 'command 'dpkg-parsechangelog''
build for version:2.24.1
	Adding Maven pom generation to project 'htsjdk'
	Linking the generated javadoc to the system JDK API documentation
All projects evaluated.
Selected primary task 'jar' from project :
Creating new cache for annotation-processors, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@6ec98ccc
Selected primary task 'javadoc' from project :
Tasks to be executed: [task ':compileJava', task ':processResources', task ':classes', task ':debianMavenPom', task ':jar', task ':javadoc']
Creating new cache for resourceHashesCache, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@2cd2c8fe
Creating new cache for taskHistory, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@62dc1203
Creating new cache for outputFiles, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@7fd3fd06
:compileJava (Thread[main,5,main]) started.
:compileJava
executing task ':compileJava' ...
Putting task artifact state for task ':compileJava' into context took 0.004 secs.
Creating new cache for metadata-2.36/module-metadata, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@58ac0823
	Loading the Maven rules...
	Replacing org.apache.commons:commons-jexl:jar:2.1.1  ->  org.apache.commons:commons-jexl:jar:debian
	Passing through org.apache.commons:commons-parent:jar:debian
	Passing through org.apache:apache:jar:debian
	Replacing commons-logging:commons-logging:jar:1.1.1  ->  commons-logging:commons-logging:jar:debian
	Replacing org.xerial.snappy:snappy-java:jar:1.1.7.3  ->  org.xerial.snappy:snappy-java:jar:debian
	Replacing org.apache.commons:commons-compress:jar:1.19  ->  org.apache.commons:commons-compress:jar:debian
	Replacing org.tukaani:xz:jar:1.8  ->  org.tukaani:xz:jar:debian
	Replacing gov.nih.nlm.ncbi:ngs-java:jar:2.9.0  ->  gov.nih.nlm.ncbi:ngs-java:jar:debian
	Passing through javax.xml.bind:jaxb-api:jar:debian
	Passing through javax.xml.bind:jaxb-api-parent:jar:debian
	Passing through com.github.cliftonlabs:json-simple:jar:debian
	Passing through javax.activation:javax.activation-api:jar:debian
javax.activation:javax.activation-api:debian is relocated to com.sun.activation:javax.activation:debian. Please update your dependencies.
	Passing through com.sun.activation:javax.activation:jar:debian
	Passing through com.sun.activation:all:jar:debian
Up-to-date check for task ':compileJava' took 10.728 secs. It is not up-to-date because:
  No history is available.
All input files are considered out-of-date for incremental task ':compileJava'.
Compiling with JDK Java compiler API.
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
:compileJava (Thread[main,5,main]) completed. Took 46.724 secs.
:processResources (Thread[main,5,main]) started.
:processResources
executing task ':processResources' ...
Putting task artifact state for task ':processResources' into context took 0.0 secs.
file or directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/resources', not found
Skipping task ':processResources' as it has no source files and no previous output files.
:processResources NO-SOURCE
:processResources (Thread[main,5,main]) completed. Took 0.17 secs.
:classes (Thread[main,5,main]) started.
:classes
executing task ':classes' ...
Skipping task ':classes' as it has no actions.
:classes (Thread[main,5,main]) completed. Took 0.001 secs.
:debianMavenPom (Thread[main,5,main]) started.
:debianMavenPom
executing task ':debianMavenPom' ...
Putting task artifact state for task ':debianMavenPom' into context took 0.0 secs.
Up-to-date check for task ':debianMavenPom' took 0.001 secs. It is not up-to-date because:
  No history is available.
	Generating pom file /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/debian/htsjdk.pom
:debianMavenPom (Thread[main,5,main]) completed. Took 0.171 secs.
:jar (Thread[main,5,main]) started.
:jar
executing task ':jar' ...
Putting task artifact state for task ':jar' into context took 0.0 secs.
Up-to-date check for task ':jar' took 0.041 secs. It is not up-to-date because:
  No history is available.
:jar (Thread[main,5,main]) completed. Took 0.769 secs.
:javadoc (Thread[main,5,main]) started.
:javadoc
executing task ':javadoc' ...
Putting task artifact state for task ':javadoc' into context took 0.0 secs.
Up-to-date check for task ':javadoc' took 0.681 secs. It is not up-to-date because:
  No history is available.
Starting process 'command '/usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc''. Working directory: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg Command: /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc @/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/tmp/javadoc/javadoc.options
Successfully started process 'command '/usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc''
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/build/ContainerFactory.java:54: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/filter/IntervalFilter.java:53: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/filter/IntervalKeepPairFilter.java:59: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/index/DynamicIndexCreator.java:171: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/io/HtsPath.java:55: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/io/HtsPath.java:55: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/io/HtsPath.java:68: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/io/IOPath.java:48: warning - invalid usage of tag {@code java.nio File System
 still can't be turned into a {@code java.nio.file.Path}, i.e., the following specifies an invalid
 authority "namenode":

  hdfs://namenode/to/file

 The current implementation returns false for these cases (toPath will fail, getInvalidPathReason
 returns the reason code).
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/io/IOPath.java:48: warning - invalid usage of tag {@code java.nio File System
 still can't be turned into a {@code java.nio.file.Path}, i.e., the following specifies an invalid
 authority "namenode":

  hdfs://namenode/to/file

 The current implementation returns false for these cases (toPath will fail, getInvalidPathReason
 returns the reason code).
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/io/ITF8.java:17: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/io/ITF8.java:31: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/index/linear/LinearIndex.java:165: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/index/linear/LinearIndex.java:166: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/readers/LongLineBufferedReader.java:75: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/readers/LongLineBufferedReader.java:453: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/readers/Positional.java:45: warning - invalid usage of tag >
javadoc: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:56: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:464: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:478: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:494: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/Bin.java:108: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/Bin.java:108: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/CoordinateSortedPairInfoMap.java:194: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/DuplicateScoringStrategy.java:125: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/DuplicateScoringStrategy.java:150: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/GenomicIndexUtil.java:106: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/GenomicIndexUtil.java:124: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/QueryInterval.java:18: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMFileWriterImpl.java:35: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMLineParser.java:221: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:59: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:165: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:165: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:777: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordComparator.java:37: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:39: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:39: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:85: warning - invalid usage of tag <
javadoc: warning - invalid usage of tag <
javadoc: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMRecordQueryNameComparator.java:77: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMSortOrderChecker.java:42: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:644: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:645: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:645: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:659: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:659: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:1128: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:1128: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMValidationError.java:84: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SAMValidationError.java:84: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:63: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:63: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:64: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:95: warning - invalid usage of tag >
javadoc: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/CompressionHeader.java:87: warning - Tag @return cannot be used in constructor documentation.  It can only be used in the following types of documentation: method.
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/ContainerHeader.java:131: warning - Tag @return cannot be used in constructor documentation.  It can only be used in the following types of documentation: method.
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMCompressionRecord.java:376: warning - Tag @link: reference not found: Slice#normalizeCRAMRecords(List, CRAMReferenceRegion, SubstitutionMatrix)
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:70: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:90: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:114: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/cram/structure/Slice.java:171: warning - Tag @return cannot be used in constructor documentation.  It can only be used in the following types of documentation: method.
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/FeatureCodecHeader.java:31: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/tribble/FeatureCodecHeader.java:71: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:140: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:140: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:148: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:148: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:158: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:158: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:167: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:167: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:64: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:64: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/BlockGunzipper.java:104: warning - Parameter "compressedBlock" is documented more than once.
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/CloserUtil.java:57: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/CloserUtil.java:57: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/CollectionUtil.java:108: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/CollectionUtil.java:108: warning - invalid usage of tag >
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/FormatUtil.java:97: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/FormatUtil.java:97: warning - invalid usage of tag &
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:344: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:520: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:344: warning - invalid usage of tag <
/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:520: warning - invalid usage of tag <
100 warnings
:javadoc (Thread[main,5,main]) completed. Took 22.059 secs.

BUILD SUCCESSFUL in 1m 18s
4 actionable tasks: 4 executed
make[1]: Leaving directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
   jh_build -i -O--buildsystem=gradle
	rm -f debian/libhtsjdk-java-doc.debhelper.log debian/libhtsjdk-java.debhelper.log
   debian/rules override_dh_auto_test
make[1]: Entering directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
# testng bug 895886: testng: jcommander classes not found
dh_auto_build -- test
	mkdir -p .gradle/init.d
	cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/
	gradle --info --console plain --offline --stacktrace --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. -Duser.name=debian -Ddebian.package=htsjdk -Dfile.encoding=UTF-8 --parallel --max-workers=4 test
Initialized native services in: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/native
Using 4 worker leases.
Creating new cache for fileHashes, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf3798b
Creating new cache for resourceHashesCache, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@4bf3798b
Creating new cache for fileHashes, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@2cd2c8fe
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access using Lookup on org.gradle.internal.reflect.JavaMethod (file:/usr/share/gradle/lib/gradle-base-services-4.4.1.jar) to class java.lang.ClassLoader
WARNING: Please consider reporting this to the maintainers of org.gradle.internal.reflect.JavaMethod
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
Starting Build
Creating new cache for metadata-1.1/results, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@6ae62c7e
Settings evaluated using settings file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/settings.gradle'.
Projects loaded. Root project using build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle'.
Included projects: [root project 'htsjdk']
	Keep-alive timer started
	Adding Debian repository to project 'htsjdk'
Parallel execution is an incubating feature.
Evaluating root project 'htsjdk' using build file '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build.gradle'.
Starting process 'command 'dpkg-parsechangelog''. Working directory: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg Command: dpkg-parsechangelog -S Version
Successfully started process 'command 'dpkg-parsechangelog''
build for version:2.24.1
	Adding Maven pom generation to project 'htsjdk'
	Linking the generated javadoc to the system JDK API documentation
All projects evaluated.
Selected primary task 'test' from project :
Creating new cache for annotation-processors, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@7d5ef1c3
Tasks to be executed: [task ':compileJava', task ':processResources', task ':classes', task ':findScalaAndJavaTypes', task ':compileTestJava', task ':processTestResources', task ':testClasses', task ':testWithDefaultReference', task ':test']
Creating new cache for resourceHashesCache, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@2cd2c8fe
Creating new cache for taskHistory, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@41404aa2
Creating new cache for outputFiles, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@289a4b90
:compileJava (Thread[main,5,main]) started.
:compileJava
executing task ':compileJava' ...
Putting task artifact state for task ':compileJava' into context took 0.004 secs.
Creating new cache for metadata-2.36/module-metadata, path /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@34fc315d
	Loading the Maven rules...
	Replacing org.apache.commons:commons-jexl:jar:2.1.1  ->  org.apache.commons:commons-jexl:jar:debian
	Passing through org.apache.commons:commons-parent:jar:debian
	Passing through org.apache:apache:jar:debian
	Replacing commons-logging:commons-logging:jar:1.1.1  ->  commons-logging:commons-logging:jar:debian
	Replacing org.xerial.snappy:snappy-java:jar:1.1.7.3  ->  org.xerial.snappy:snappy-java:jar:debian
	Replacing org.apache.commons:commons-compress:jar:1.19  ->  org.apache.commons:commons-compress:jar:debian
	Replacing org.tukaani:xz:jar:1.8  ->  org.tukaani:xz:jar:debian
	Replacing gov.nih.nlm.ncbi:ngs-java:jar:2.9.0  ->  gov.nih.nlm.ncbi:ngs-java:jar:debian
	Passing through javax.xml.bind:jaxb-api:jar:debian
	Passing through javax.xml.bind:jaxb-api-parent:jar:debian
	Passing through com.github.cliftonlabs:json-simple:jar:debian
	Passing through javax.activation:javax.activation-api:jar:debian
javax.activation:javax.activation-api:debian is relocated to com.sun.activation:javax.activation:debian. Please update your dependencies.
	Passing through com.sun.activation:javax.activation:jar:debian
	Passing through com.sun.activation:all:jar:debian
Skipping task ':compileJava' as it is up-to-date (took 0.953 secs).
:compileJava UP-TO-DATE
:compileJava (Thread[main,5,main]) completed. Took 1.004 secs.
:processResources (Thread[main,5,main]) started.
:processResources
executing task ':processResources' ...
Putting task artifact state for task ':processResources' into context took 0.0 secs.
file or directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/main/resources', not found
Skipping task ':processResources' as it has no source files and no previous output files.
:processResources NO-SOURCE
:processResources (Thread[main,5,main]) completed. Took 0.004 secs.
:classes (Thread[main,5,main]) started.
:classes
executing task ':classes' ...
Skipping task ':classes' as it has no actions.
:classes UP-TO-DATE
:classes (Thread[main,5,main]) completed. Took 0.003 secs.
:findScalaAndJavaTypes (Thread[main,5,main]) started.
:findScalaAndJavaTypes
executing task ':findScalaAndJavaTypes' ...
Putting task artifact state for task ':findScalaAndJavaTypes' into context took 0.001 secs.
Up-to-date check for task ':findScalaAndJavaTypes' took 0.0 secs. It is not up-to-date because:
  Task has not declared any outputs.
Starting process 'command './scripts/checkScalaAndJavaFiles.sh''. Working directory: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg Command: ./scripts/checkScalaAndJavaFiles.sh 
Successfully started process 'command './scripts/checkScalaAndJavaFiles.sh''
:findScalaAndJavaTypes (Thread[main,5,main]) completed. Took 0.026 secs.
:compileTestJava (Thread[main,5,main]) started.
:compileTestJava
executing task ':compileTestJava' ...
Putting task artifact state for task ':compileTestJava' into context took 0.0 secs.
	Passing through org.scala-lang:scala-library:jar:2.11.x
	Passing through org.testng:testng:jar:debian
	Passing through com.google.jimfs:jimfs:jar:debian
	Passing through com.google.jimfs:jimfs-parent:jar:debian
	Passing through com.google.guava:guava:jar:debian
	Passing through com.google.guava:guava-parent:jar:debian
	Passing through org.apache.commons:commons-lang3:jar:debian
	Passing through org.beanshell:bsh:jar:debian
	Passing through com.beust:jcommander:jar:debian
	Passing through org.jsr-305:jsr305:jar:0.x
Up-to-date check for task ':compileTestJava' took 24.915 secs. It is not up-to-date because:
  No history is available.
All input files are considered out-of-date for incremental task ':compileTestJava'.
Compiling with JDK Java compiler API.
Note: Some input files use or override a deprecated API.
Note: Recompile with -Xlint:deprecation for details.
Note: Some input files use unchecked or unsafe operations.
Note: Recompile with -Xlint:unchecked for details.
:compileTestJava (Thread[main,5,main]) completed. Took 38.368 secs.
:processTestResources (Thread[main,5,main]) started.
:processTestResources
executing task ':processTestResources' ...
Putting task artifact state for task ':processTestResources' into context took 0.0 secs.
Up-to-date check for task ':processTestResources' took 11.874 secs. It is not up-to-date because:
  No history is available.
:processTestResources (Thread[main,5,main]) completed. Took 24.36 secs.
:testClasses (Thread[main,5,main]) started.
:testClasses
executing task ':testClasses' ...
Skipping task ':testClasses' as it has no actions.
:testClasses (Thread[main,5,main]) completed. Took 0.002 secs.
:testWithDefaultReference (Thread[main,5,main]) started.
:testWithDefaultReference
executing task ':testWithDefaultReference' ...
Putting task artifact state for task ':testWithDefaultReference' into context took 0.001 secs.
Up-to-date check for task ':testWithDefaultReference' took 0.945 secs. It is not up-to-date because:
  Task.upToDateWhen is false.
Finished generating test XML results (0.002 secs) into: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/test-results/testWithDefaultReference
Generating HTML test report...
Finished generating test html results (0.02 secs) into: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/reports/tests/testWithDefaultReference
:testWithDefaultReference (Thread[main,5,main]) completed. Took 2.131 secs.
:test (Thread[main,5,main]) started.
:test
executing task ':test' ...
Putting task artifact state for task ':test' into context took 0.0 secs.
Up-to-date check for task ':test' took 0.101 secs. It is not up-to-date because:
  Task.upToDateWhen is false.
Starting process 'Gradle Test Executor 1'. Working directory: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg Command: /usr/lib/jvm/java-11-openjdk-amd64/bin/java -Djava.awt.headless=true -Dorg.gradle.native=false @/tmp/gradle-worker-classpath10309694327567493774txt -Xms1G -Xmx2G -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -ea worker.org.gradle.process.internal.worker.GradleWorkerMain 'Gradle Test Executor 1'
Successfully started process 'Gradle Test Executor 1'
Gradle Test Executor 1 started executing tests.

Gradle suite > Gradle test > htsjdk.variant.variantcontext.filter.JavascriptVariantFilterTest.testJavascriptFilters[0](ILLUMINA.wex.broad_phase2_baseline.20111114.both.exome.genotypes.1000.vcf, variantFilter01.js, 61) STANDARD_ERROR
    Warning: Nashorn engine is planned to be removed from a future JDK release

Gradle suite > Gradle test > htsjdk.variant.variantcontext.filter.JavascriptVariantFilterTest.testJavascriptFilters[1](ILLUMINA.wex.broad_phase2_baseline.20111114.both.exome.genotypes.1000.vcf, variantFilter02.js, 38) STANDARD_ERROR
    Warning: Nashorn engine is planned to be removed from a future JDK release

Gradle suite > Gradle test > htsjdk.TestDataProviders.testDataProviderswithDP[128](private java.lang.Object[][] htsjdk.samtools.cram.structure.SliceTests.sliceStateTestCases(), class htsjdk.samtools.cram.structure.SliceTests) STANDARD_ERROR
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@2b20529d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cfe1c3c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@eedbe5db] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@d0b9af7a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@b2977919] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@947542b8] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@76530c57] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@5830d5f6] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@3a0e9f95] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1bec6934] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@2b20529d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cfe1c3c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@eedbe5db] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@d0b9af7a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@b2977919] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@947542b8] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@76530c57] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@5830d5f6] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@3a0e9f95] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 11:51:13	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1bec6934] has an valid alignment start but not a valid reference index.

Gradle suite > Gradle test > htsjdk.variant.vcf.VCFHeaderUnitTest.testVCFHeaderSampleRenamingMultiSampleVCF STANDARD_ERROR
    WARNING	2021-11-28 11:52:29	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.variant.vcf.VCFHeaderUnitTest.testVCFHeaderSampleRenamingSingleSampleVCF STANDARD_ERROR
    WARNING	2021-11-28 11:52:29	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.variant.vcf.VCFHeaderUnitTest.testVCFHeaderSampleRenamingSitesOnlyVCF STANDARD_ERROR
    WARNING	2021-11-28 11:52:29	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.demonstrateTestWriteToPipeDoesNotHang_1 STANDARD_ERROR
    java.lang.RuntimeException: oops
    	at htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.lambda$demonstrateTestWriteToPipeDoesNotHang_1$0(VariantContextWriterBuilderUnitTest.java:497)
    	at htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.lambda$testWriteToPipe$2(VariantContextWriterBuilderUnitTest.java:522)
    	at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:515)
    	at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
    	at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
    	at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
    	at java.base/java.lang.Thread.run(Thread.java:829)

Gradle suite > Gradle test > htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.demonstrateTestWriteToPipeDoesNotHang_2 STANDARD_ERROR
    java.lang.RuntimeException: oops
    	at htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.lambda$demonstrateTestWriteToPipeDoesNotHang_2$1(VariantContextWriterBuilderUnitTest.java:503)
    	at htsjdk.variant.variantcontext.writer.VariantContextWriterBuilderUnitTest.lambda$testWriteToPipe$2(VariantContextWriterBuilderUnitTest.java:522)
    	at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:515)
    	at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
    	at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
    	at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
    	at java.base/java.lang.Thread.run(Thread.java:829)

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[5](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[6](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[7](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstCompleteContigRead[8](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstCompleteContigRead runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[5](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[6](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstElementOfIterator runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[7](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstElementOfIterator[8](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequence[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstSequence runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequence[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstSequence runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequence[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstSequence runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequence[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstSequence runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequence[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstSequence runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequenceExtended[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstSequenceExtended runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequenceExtended[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstSequenceExtended runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequenceExtended[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstSequenceExtended runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequenceExtended[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstSequenceExtended runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testFirstSequenceExtended[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstSequenceExtended runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 6ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 6ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testLastCompleteContigRead runtime: 7ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[5](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testLastCompleteContigRead runtime: 7ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[6](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testLastCompleteContigRead runtime: 8ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[7](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 2ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastCompleteContigRead[8](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testLastCompleteContigRead runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastOfChr20[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstOfChr1 runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastOfChr20[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstOfChr1 runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastOfChr20[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testFirstOfChr1 runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastOfChr20[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testFirstOfChr1 runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testLastOfChr20[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testFirstOfChr1 runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testNextElementOfIterator runtime: 7ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[5](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testNextElementOfIterator runtime: 8ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[6](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testNextElementOfIterator runtime: 7ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[7](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 2ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testNextElementOfIterator[8](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testNextElementOfIterator runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testOpenFile[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testOpenFile runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testOpenFile[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testOpenFile runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testOpenFile[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testOpenFile runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testOpenFile[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testOpenFile runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testOpenFile[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testOpenFile runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadPastEndOfContig[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadPastEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadPastEndOfContig[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadPastEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadPastEndOfContig[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadPastEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadPastEndOfContig[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadPastEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadPastEndOfContig[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReadPastEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfFirstLine[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadStartingInCenterOfFirstLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfFirstLine[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadStartingInCenterOfFirstLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfFirstLine[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadStartingInCenterOfFirstLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfFirstLine[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadStartingInCenterOfFirstLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfFirstLine[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReadStartingInCenterOfFirstLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfMiddleLine[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadStartingInCenterOfMiddleLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfMiddleLine[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadStartingInCenterOfMiddleLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfMiddleLine[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadStartingInCenterOfMiddleLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfMiddleLine[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadStartingInCenterOfMiddleLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadStartingInCenterOfMiddleLine[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReadStartingInCenterOfMiddleLine runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadThroughEndOfContig[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadThroughEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadThroughEndOfContig[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadThroughEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadThroughEndOfContig[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReadThroughEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadThroughEndOfContig[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.nodict.fasta) STANDARD_ERROR
    testReadThroughEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReadThroughEndOfContig[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReadThroughEndOfContig runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[0](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[1](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[2](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 0ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[3](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 1ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[4](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReset runtime: 7ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[5](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReset runtime: 8ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[6](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    testReset runtime: 8ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[7](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 2ms

Gradle suite > Gradle test > htsjdk.samtools.reference.AbstractIndexedFastaSequenceFileTest.testReset[8](/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    testReset runtime: 2ms

Gradle suite > Gradle test > htsjdk.tribble.AsciiFeatureCodecTest.testMakeIndexableSourceFromUnknownStream STANDARD_ERROR
    WARNING	2021-11-28 11:53:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.tribble.readers.AsciiLineReaderTest.testFromStream[2](java.io.ByteArrayInputStream@1ac2a32e, class htsjdk.tribble.readers.AsciiLineReader) STANDARD_ERROR
    WARNING	2021-11-28 11:53:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.tribble.readers.AsciiLineReaderTest.testReadLines STANDARD_ERROR
    WARNING	2021-11-28 11:53:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.tribble.readers.AsciiLineReaderTest.voidTestLineEndingLength STANDARD_ERROR
    WARNING	2021-11-28 11:53:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.tribble.readers.AsciiLineReaderTest.voidTestLineEndingLengthAtEof STANDARD_ERROR
    WARNING	2021-11-28 11:53:35	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.BAMFileIndexTest.testQueryUnmapped STANDARD_OUT
    Found start of unmapped reads.  Num mapped reads: 9721
    Time so far: 0
    Linear scan total time: 0
    queryUnmapped time: 0
    Number of unmapped reads:279

Gradle suite > Gradle test > htsjdk.samtools.BAMFileIndexTest.testRandomQueries STANDARD_OUT
    Testing query chr11_random:7211102-7392752 ...
    Testing query chrX_random:2969904-3087323 ...
    Testing query chr5:9255377-9796767 ...
    Testing query chr16_random:9067406-9976989 ...
    Testing query chr6:2164417-9572211 ...
    Testing query chr8_random:5688357-6576007 ...
    Testing query chr4_random:4241203-6327831 ...
    Testing query chr2_random:411082-4462819 ...
    Testing query chr13_random:145947-4307287 ...
    Testing query chr15_random:3298214-6356603 ...
    Testing query chr21:472385-8291032 ...
    Testing query chr2:4177649-9835176 ...
    Testing query chr22_random:1490587-8781106 ...
    Testing query chr14:2167927-6299701 ...
    Testing query chr7:4700515-5593851 ...
    Testing query chr22:5016764-7470151 ...
    Testing query chr22_random:7524398-8627117 ...
    Testing query chr8:3764754-6977071 ...
    Testing query chr1_random:1725504-3204042 ...
    Testing query chr21:2025794-4625889 ...
    Testing query chr14:1426554-6327490 ...
    Testing query chrX_random:1992622-9650667 ...
    Testing query chr4:2669418-7183639 ...
    Testing query chr10:2967472-3641376 ...
    Testing query chr10_random:3273594-3427480 ...
    Testing query chr19_random:4582311-5090524 ...
    Testing query chr9_random:7218100-8812477 ...
    Testing query chrX:257134-4337775 ...
    Testing query chr9_random:713930-3536575 ...
    Testing query chrX:2523687-4774316 ...
    Testing query chr21:513221-829881 ...
    Testing query chr14:6924617-9048044 ...
    Testing query chr6:4945372-7173211 ...
    Testing query chr6_random:7501139-9077397 ...
    Testing query chr19:2934833-5141776 ...
    Testing query chr9:863231-7545153 ...
    Testing query chr2:4308042-6742767 ...
    Testing query chr12:293858-324418 ...
    Testing query chr6_random:3308674-4557713 ...
    Testing query chr2_random:6755655-7330097 ...
    Testing query chr9_random:1234763-6135261 ...
    Testing query chr17:7042296-7582149 ...
    Testing query chr18:6749235-8476299 ...
    Testing query chr22:1198031-6226173 ...
    Testing query chr22:9446557-9458998 ...
    Testing query chr15:473293-1136600 ...
    Testing query chr13:8001267-8034858 ...
    Testing query chr7_random:12779-8349897 ...
    Testing query chrX:6476995-9046675 ...
    Testing query chr22:455684-9901546 ...
    Testing query chr20:2540726-9004820 ...
    Testing query chr1:5290124-7772462 ...
    Testing query chr2_random:4562177-7629291 ...
    Testing query chr4:5992612-7734912 ...
    Testing query chr5:1027938-6017856 ...
    Testing query chr5:3945452-4558863 ...
    Testing query chr7_random:1434224-8766265 ...
    Testing query chr13_random:2806926-8471270 ...
    Testing query chr21:5896937-6230120 ...
    Testing query chr10_random:2325170-6773979 ...
    Testing query chr4:768115-9242973 ...
    Testing query chr9:204376-1523700 ...
    Testing query chr15:6918456-9920136 ...
    Testing query chr8:195836-2912231 ...
    Testing query chr4_random:8569316-9601747 ...
    Testing query chr14:7539676-8479802 ...
    Testing query chr17_random:6016149-9676582 ...
    Testing query chr3:2401075-5926977 ...
    Testing query chr7:6825835-8610049 ...
    Testing query chr4:8589977-9226779 ...
    Testing query chr22_random:881883-9900377 ...
    Testing query chr19:2282185-2974234 ...
    Testing query chr2_random:530137-7997036 ...
    Testing query chr11_random:1524078-8571487 ...
    Testing query chrX:3561537-3812547 ...
    Testing query chr7_random:5345040-8399303 ...
    Testing query chr22:1586323-6546266 ...
    Testing query chr13:356087-8263221 ...
    Testing query chr9:6308509-8761532 ...
    Testing query chr8:3702301-5705153 ...
    Testing query chr13_random:1656308-4034137 ...
    Testing query chr3:4684965-7862719 ...
    Testing query chr19_random:5585589-7312648 ...
    Testing query chr18:8395777-9280098 ...
    Testing query chr6_random:738052-6252176 ...
    Testing query chr5_random:6874632-8838246 ...
    Testing query chr7_random:4576401-9601286 ...
    Testing query chr6_random:1277796-9240909 ...
    Testing query chr22:2128956-7451924 ...
    Testing query chr9:5866041-7641214 ...
    Testing query chr6_random:2900603-6324004 ...
    Testing query chr5:3340073-3878152 ...
    Testing query chr7_random:6065731-8117472 ...
    Testing query chr22:6980282-9420307 ...
    Testing query chr3_random:7896234-9902729 ...
    Testing query chr4:5226514-9465698 ...
    Testing query chr11_random:2710966-7297413 ...
    Testing query chr4:5814391-6477874 ...
    Testing query chr17:3411447-7945931 ...
    Testing query chr19_random:1563833-8954930 ...
    Testing query chr4:2666458-5577064 ...
    Testing query chrM:2495375-2785830 ...
    Testing query chr22_random:2741863-7160257 ...
    Testing query chr20:3030962-4839827 ...
    Testing query chrX_random:1999206-3290596 ...
    Testing query chr1_random:7581574-9491516 ...
    Testing query chr5:8544911-9905206 ...
    Testing query chr17_random:5247411-8818598 ...
    Testing query chr18:2206748-2542618 ...
    Testing query chr6:5560095-6841213 ...
    Testing query chrX:5584638-8069137 ...
    Testing query chr2_random:893746-4019636 ...
    Testing query chr4_random:7220619-8625179 ...
    Testing query chr17_random:7487783-7745825 ...
    Testing query chr13_random:140415-4339843 ...
    Testing query chr22:3465880-9918684 ...
    Testing query chr16_random:2228554-5218116 ...
    Testing query chr6:3812651-9020894 ...
    Testing query chr19:4897072-8152584 ...
    Testing query chr15_random:2493596-3303830 ...
    Testing query chr17:7330256-9331563 ...
    Testing query chr7_random:2372609-7660988 ...
    Testing query chr21:16468-1408282 ...
    Testing query chrM:946718-7866529 ...
    Testing query chr6:636772-5261193 ...
    Testing query chr4:4081985-5160778 ...
    Testing query chr4_random:3992937-8001782 ...
    Testing query chr3_random:4269902-7314671 ...
    Testing query chr8_random:5398008-9100867 ...
    Testing query chr11_random:4717946-5886722 ...
    Testing query chr14:3324888-9762784 ...
    Testing query chr3_random:447076-2904415 ...
    Testing query chr18_random:4656587-8830031 ...
    Testing query chr15_random:2677992-8013872 ...
    Testing query chr8:8741342-9773821 ...
    Testing query chrM:638643-3884353 ...
    Testing query chr6:1102480-2996219 ...
    Testing query chr13:27071-9001996 ...
    Testing query chr8_random:133575-8239847 ...
    Testing query chr4:5119076-7497751 ...
    Testing query chr6_random:8932876-9157638 ...
    Testing query chr2:8039126-9556281 ...
    Testing query chr18:2759483-4424919 ...
    Testing query chr7_random:2162721-7693312 ...
    Testing query chr17_random:3212242-7079443 ...
    Testing query chrX_random:9441944-9675063 ...
    Testing query chrX:1483850-9503277 ...
    Testing query chrY:708618-2939362 ...
    Testing query chr1:1457571-8460228 ...
    Testing query chrM:5153488-6390263 ...
    Testing query chr8:2469944-5489240 ...
    Testing query chr4:2270560-9937550 ...
    Testing query chr10:1924284-4282155 ...
    Testing query chrY:5044757-9726553 ...
    Testing query chr21_random:8138434-8862076 ...
    Testing query chr17_random:8064209-8585636 ...
    Testing query chr22:7325448-9656485 ...
    Testing query chr11:6475178-6915306 ...
    Testing query chrM:1569370-6357214 ...
    Testing query chr8_random:1676954-7528262 ...
    Testing query chr8:3436473-9972209 ...
    Testing query chr19_random:8309162-8766514 ...
    Testing query chr7_random:6416981-6735864 ...
    Testing query chr19:3484685-3801122 ...
    Testing query chr1:1868925-6151268 ...
    Testing query chr1:536419-4044558 ...
    Testing query chr1:2522877-4924643 ...
    Testing query chr11_random:676633-9128847 ...
    Testing query chr6_random:3598124-6981657 ...
    Testing query chr5_random:7166103-8219161 ...
    Testing query chr19:1684800-5872548 ...
    Testing query chr1_random:3315026-8441262 ...
    Testing query chr18_random:2290355-8594736 ...
    Testing query chr20:3121858-8750525 ...
    Testing query chr5:1854779-7785465 ...
    Testing query chr3:2844488-8229201 ...
    Testing query chr9:98994-6937193 ...
    Testing query chr7_random:566405-4329525 ...
    Testing query chrM:3349123-8858299 ...
    Testing query chr18_random:2476805-3333909 ...
    Testing query chr5_random:2947230-5023103 ...
    Testing query chrY:858711-3764404 ...
    Testing query chrM:3202756-4087290 ...
    Testing query chr3:2241212-3744434 ...
    Testing query chr2:294299-2791063 ...
    Testing query chr16:5636813-7725712 ...
    Testing query chrY:190457-4183568 ...
    Testing query chr15_random:1757556-6243468 ...
    Testing query chr21_random:2404640-9698959 ...
    Testing query chrY:2899895-8525822 ...
    Testing query chr14:5316023-9325638 ...
    Testing query chr5_random:3836137-6496666 ...
    Testing query chr10_random:1992029-2390509 ...
    Testing query chr15:2008393-5397033 ...
    Testing query chr6:3033491-5689013 ...
    Testing query chr13:4802709-6651494 ...
    Testing query chr11_random:1126435-2590416 ...
    Testing query chr14:674415-1741256 ...
    Testing query chr2:5945864-7917088 ...
    Testing query chr4:2984861-4376484 ...
    Testing query chr1_random:5661261-9348854 ...
    Testing query chr18:2892586-9538492 ...
    Testing query chr19_random:2666788-6214501 ...
    Testing query chr5_random:2892340-8892790 ...
    Testing query chr3:8321138-9156829 ...
    Testing query chr20:1010051-2675065 ...
    Testing query chr12:2016127-9734230 ...
    Testing query chr17:6565364-9842724 ...
    Testing query chr2_random:1534009-9935421 ...
    Testing query chr22_random:1798866-3566302 ...
    Testing query chr9_random:2863862-4098636 ...
    Testing query chr7_random:6695702-7166373 ...
    Testing query chr19_random:7774915-8904502 ...
    Testing query chr4_random:1354793-3060860 ...
    Testing query chr16_random:680783-7967813 ...
    Testing query chr22_random:1679274-1962853 ...
    Testing query chr5:1405068-3861785 ...
    Testing query chr8_random:6642950-9011653 ...
    Testing query chr16:1873173-7921837 ...
    Testing query chr7_random:2750681-9520458 ...
    Testing query chr16_random:885218-3713066 ...
    Testing query chr10_random:4952036-9328892 ...
    Testing query chr1_random:1556041-9207413 ...
    Testing query chrX:3509058-4668683 ...
    Testing query chr22_random:5775297-9086853 ...
    Testing query chr1:1171026-6903635 ...
    Testing query chr17_random:706069-7256916 ...
    Testing query chr1:7825983-8559769 ...
    Testing query chr7_random:7709758-9250068 ...
    Testing query chr6:4475592-7218806 ...
    Testing query chr5_random:7263397-7305993 ...
    Testing query chr16_random:5376132-9863064 ...
    Testing query chr5:4383593-4921390 ...
    Testing query chr12:5541381-6329888 ...
    Testing query chr7_random:297473-6191920 ...
    Testing query chr7_random:5797186-6007720 ...
    Testing query chr14:6288978-7147625 ...
    Testing query chrY:3280527-6071425 ...
    Testing query chr2_random:341241-9849655 ...
    Testing query chr18_random:2756400-5124352 ...
    Testing query chr18_random:3245587-6421468 ...
    Testing query chr7_random:1108885-7011416 ...
    Testing query chr19:55506-8032351 ...
    Testing query chr9_random:507759-1925801 ...
    Testing query chr21_random:5641470-6291456 ...
    Testing query chr16_random:2647045-6473932 ...
    Testing query chr3:8883638-9872842 ...
    Testing query chr17:2328196-3652679 ...
    Testing query chr22_random:2297511-5498425 ...
    Testing query chrX_random:3773240-4693054 ...
    Testing query chr13:1575245-9070298 ...
    Testing query chr8_random:5301468-7005527 ...
    Testing query chr4:6535020-9656212 ...
    Testing query chr18:5782944-8199590 ...
    Testing query chr5_random:1102579-7463246 ...
    Testing query chr5:2779653-6802521 ...
    Testing query chr10:99615-2172940 ...
    Testing query chr7:2762506-2870870 ...
    Testing query chr15_random:981768-8907527 ...
    Testing query chr16:436530-5189740 ...
    Testing query chr15:9551545-9569163 ...
    Testing query chr17_random:432471-8074112 ...
    Testing query chr8:4845184-5039976 ...
    Testing query chr7:3531770-6086719 ...
    Testing query chr17:2693356-7185572 ...
    Testing query chr6:6650063-9646384 ...
    Testing query chrY:121317-4718433 ...
    Testing query chr1_random:1003027-1831870 ...
    Testing query chr21:8788645-9420609 ...
    Testing query chr13_random:987064-4341370 ...
    Testing query chr13_random:842466-5111480 ...
    Testing query chrM:7654248-8310027 ...
    Testing query chr2:1532378-3980671 ...
    Testing query chr16_random:2308350-8259941 ...
    Testing query chr18_random:7619793-8200073 ...
    Testing query chr16:908998-6962421 ...
    Testing query chr1_random:4760134-7897692 ...
    Testing query chr4_random:351969-2613223 ...
    Testing query chr16:3482498-9633584 ...
    Testing query chr22:7907949-9933800 ...
    Testing query chr15:5854248-7275283 ...
    Testing query chr14:3664791-8748133 ...
    Testing query chrX:896137-9572469 ...
    Testing query chrX:1865390-3062428 ...
    Testing query chr6:595893-8247348 ...
    Testing query chr9_random:1425130-4402172 ...
    Testing query chr7_random:463001-1378501 ...
    Testing query chr10:5465621-8140677 ...
    Testing query chr22:4007755-6030817 ...
    Testing query chr19:2152758-4285738 ...
    Testing query chrX_random:6197638-7278734 ...
    Testing query chr8_random:2506286-3132074 ...
    Testing query chr3:5088917-6346018 ...
    Testing query chr21_random:709245-2447062 ...
    Testing query chr7_random:2297450-2733491 ...
    Testing query chrX_random:75616-6715390 ...
    Testing query chr14:1451557-9217186 ...
    Testing query chr22:4216648-4273083 ...
    Testing query chr22_random:2900019-9495009 ...
    Testing query chr4:6062237-9450155 ...
    Testing query chr3_random:2205998-8038523 ...
    Testing query chr19:4006735-8497976 ...
    Testing query chrM:4367909-8743630 ...
    Testing query chr1:3235237-5886681 ...
    Testing query chr18:2455071-8918070 ...
    Testing query chr3:715763-7415212 ...
    Testing query chr2_random:3698070-6718252 ...
    Testing query chr10:4035923-8780337 ...
    Testing query chr1_random:4369783-9221375 ...
    Testing query chr11:3488452-9565235 ...
    Testing query chrX:3524615-7110878 ...
    Testing query chr19_random:7779323-8424172 ...
    Testing query chr15_random:910898-4876910 ...
    Testing query chr15_random:1015024-3678499 ...
    Testing query chr9:3393986-9417756 ...
    Testing query chr18_random:857279-9200045 ...
    Testing query chr18:1396324-2772435 ...
    Testing query chr12:5614369-9031405 ...
    Testing query chr5:3780359-4070909 ...
    Testing query chr17:4508678-5389778 ...
    Testing query chr21_random:6972726-7854603 ...
    Testing query chr12:3182535-8039198 ...
    Testing query chr10:3951103-7166395 ...
    Testing query chr5_random:6532707-9837900 ...
    Testing query chr13_random:7985015-9743703 ...
    Testing query chr20:6134113-9969678 ...
    Testing query chrY:1542908-4899134 ...
    Testing query chr19_random:324180-7673324 ...
    Testing query chr22_random:4465119-8807791 ...
    Testing query chr14:4342424-6275354 ...
    Testing query chr21:3393386-7099240 ...
    Testing query chr3_random:2130566-2642809 ...
    Testing query chr1_random:2534189-6047752 ...
    Testing query chrM:3319509-8627744 ...
    Testing query chr4_random:7027413-8546790 ...
    Testing query chr18:5213087-7307044 ...
    Testing query chrX_random:5138706-7179617 ...
    Testing query chr21:1746459-3369825 ...
    Testing query chr17_random:4364489-9952653 ...
    Testing query chr21_random:2852383-6343308 ...
    Testing query chr16:1718072-7027200 ...
    Testing query chr7:2836942-5941970 ...
    Testing query chr21_random:6013526-6739121 ...
    Testing query chr6:2041720-8080188 ...
    Testing query chr20:5614189-8320637 ...
    Testing query chr18:7510033-9259036 ...
    Testing query chr7_random:5464431-5858425 ...
    Testing query chrX_random:2642097-9170108 ...
    Testing query chr21_random:2372613-7228145 ...
    Testing query chr7:7643929-8629915 ...
    Testing query chrM:1496669-3662785 ...
    Testing query chrM:5816559-7988640 ...
    Testing query chr4_random:3216837-5344216 ...
    Testing query chr8_random:7939352-9193364 ...
    Testing query chr11_random:4477474-7119222 ...
    Testing query chr22:1795085-7018163 ...
    Testing query chr2:489045-5507534 ...
    Testing query chr20:228222-2645827 ...
    Testing query chr2_random:6696262-7193942 ...
    Testing query chrX:624678-2022130 ...
    Testing query chr11_random:7420609-7476969 ...
    Testing query chr7_random:35741-8947140 ...
    Testing query chr9:2887670-8574309 ...
    Testing query chr9_random:5022666-8213630 ...
    Testing query chr16_random:2811399-8122673 ...
    Testing query chr19:2563169-2938289 ...
    Testing query chr15_random:3165794-8354108 ...
    Testing query chr1_random:4114915-9235471 ...
    Testing query chr10_random:983161-9480146 ...
    Testing query chr2:5984445-9861542 ...
    Testing query chr21:2955353-3709382 ...
    Testing query chr18:4220403-7713605 ...
    Testing query chr9:5837376-6191557 ...
    Testing query chr18:3760903-6211242 ...
    Testing query chr4:2604919-6869284 ...
    Testing query chr14:8243966-8657979 ...
    Testing query chrX:8572226-9566286 ...
    Testing query chr15_random:1776922-9379642 ...
    Testing query chr11:6484864-9835462 ...
    Testing query chr13_random:2265643-8434104 ...
    Testing query chr18_random:2936640-6667223 ...
    Testing query chr21_random:6212251-8673018 ...
    Testing query chr1_random:1062720-2585432 ...
    Testing query chr21_random:5965453-7655829 ...
    Testing query chrX_random:2147524-2773583 ...
    Testing query chr13_random:368974-2821747 ...
    Testing query chr5_random:1943780-5626512 ...
    Testing query chr20:30472-8431478 ...
    Testing query chr10_random:1574710-2300026 ...
    Testing query chr16_random:5290469-9294719 ...
    Testing query chr22:2213818-3185623 ...
    Testing query chr18:2186838-5554932 ...
    Testing query chr1_random:4416515-6829118 ...
    Testing query chr17_random:4168349-9033195 ...
    Testing query chr4_random:7231065-9006087 ...
    Testing query chr3:6627861-7098084 ...
    Testing query chr21:4791386-7462661 ...
    Testing query chr6:5486440-6497547 ...
    Testing query chr7:7583780-8490132 ...
    Testing query chr15:4167629-9516050 ...
    Testing query chr13:412129-3106131 ...
    Testing query chr6:2242528-3392002 ...
    Testing query chr13:4573366-8565166 ...
    Testing query chr14:1012727-4265512 ...
    Testing query chrX:8331093-8914945 ...
    Testing query chr19:3587675-9174187 ...
    Testing query chr7:296443-1800051 ...
    Testing query chr3:5277077-9767087 ...
    Testing query chr21:7692109-7739057 ...
    Testing query chr11:3448455-8411453 ...
    Testing query chr1_random:2275881-3676442 ...
    Testing query chr4_random:6322956-7587151 ...
    Testing query chr22_random:4609088-7067795 ...
    Testing query chr11:1103974-5115622 ...
    Testing query chr17:8733322-9618772 ...
    Testing query chr5_random:1779768-6935553 ...
    Testing query chr8_random:2538535-9879832 ...
    Testing query chr22:768294-3209930 ...
    Testing query chr22:943981-2330158 ...
    Testing query chr12:4987241-7314877 ...
    Testing query chr2:3120747-6311500 ...
    Testing query chrX:1829150-5592634 ...
    Testing query chr7:795351-9692074 ...
    Testing query chr9:5469158-7108447 ...
    Testing query chr18:1967306-6204810 ...
    Testing query chr4_random:8969152-9598463 ...
    Testing query chr4_random:1579186-2839628 ...
    Testing query chr15:5974419-7281533 ...
    Testing query chr8_random:3609626-6631230 ...
    Testing query chr17:3094989-6618173 ...
    Testing query chr15:1799279-6576530 ...
    Testing query chr3:5157964-8423765 ...
    Testing query chr22_random:2813926-5797993 ...
    Testing query chr2:2248206-3931961 ...
    Testing query chr7:3205910-9801772 ...
    Testing query chr21_random:623490-6775587 ...
    Testing query chrM:8166786-8509161 ...
    Testing query chr17:1804940-2950404 ...
    Testing query chr10_random:2511464-6816559 ...
    Testing query chr21_random:153036-5827934 ...
    Testing query chr2_random:8263243-9685626 ...
    Testing query chr21:1111482-5812333 ...
    Testing query chr8:4290604-9166817 ...
    Testing query chr13:3398929-7913910 ...
    Testing query chr10:4553797-9072246 ...
    Testing query chr20:7207944-7471721 ...
    Testing query chrY:1982521-2897985 ...
    Testing query chr10_random:5100074-7818426 ...
    Testing query chr15:4365944-8388476 ...
    Testing query chr13:50044-8373169 ...
    Testing query chr12:5115399-7648840 ...
    Testing query chr4:2962742-8829366 ...
    Testing query chr6_random:1322565-9235978 ...
    Testing query chr12:6057343-7930326 ...
    Testing query chr3:1612029-2982153 ...
    Testing query chr15:6582900-8591795 ...
    Testing query chr21:5009971-6424414 ...
    Testing query chr6:706279-8162934 ...
    Testing query chr16:3267535-9670332 ...
    Testing query chr16:2694606-3346697 ...
    Testing query chrY:9108749-9339860 ...
    Testing query chr18:1265164-5476362 ...
    Testing query chr8_random:1135765-3131623 ...
    Testing query chr1_random:4068577-5850392 ...
    Testing query chr10_random:8086436-9515610 ...
    Testing query chr12:786080-9272524 ...
    Testing query chr2_random:3529918-9107547 ...
    Testing query chrX:33039-720704 ...
    Testing query chrY:7759964-8753893 ...
    Testing query chr18_random:9023306-9399435 ...
    Testing query chr6:5281117-9258674 ...
    Testing query chr2_random:3737881-7335740 ...
    Testing query chr18_random:486302-3415910 ...
    Testing query chr9_random:4036001-4224366 ...
    Testing query chr1_random:676459-981484 ...
    Testing query chr21:213055-9194219 ...
    Testing query chr3:5273397-7935759 ...
    Testing query chr7:5844019-5928029 ...
    Testing query chr22:4400032-4947008 ...
    Testing query chr1_random:6368632-9050986 ...
    Testing query chr6_random:3521181-8577335 ...
    Testing query chr11_random:4864475-5742060 ...
    Testing query chr9:691952-3618418 ...
    Testing query chr16:5899296-6778697 ...
    Testing query chr16:865613-6607475 ...
    Testing query chr17_random:4739682-6923211 ...
    Testing query chrY:2356621-4914419 ...
    Testing query chr3_random:1842297-6259766 ...
    Testing query chr3_random:5126637-7321281 ...
    Testing query chrX:4209013-9761426 ...
    Testing query chr5_random:4596157-5675945 ...
    Testing query chr21_random:3696079-6024271 ...
    Testing query chr3_random:5067064-8876286 ...
    Testing query chr21_random:5565110-6689301 ...
    Testing query chr21_random:15781-4584722 ...
    Testing query chr1:3346110-7059075 ...
    Testing query chrX:5966696-6933232 ...
    Testing query chr17:5021510-8070334 ...
    Testing query chr6:1149206-6788407 ...
    Testing query chr3_random:3744515-8291994 ...
    Testing query chr2:22996-4588290 ...
    Testing query chr17_random:5326761-6699939 ...
    Testing query chr11_random:2696057-3080563 ...
    Testing query chr9:6885746-7594235 ...
    Testing query chr2:4534733-7295296 ...
    Testing query chr13_random:3998213-9469962 ...
    Testing query chr1_random:5426791-6149949 ...
    Testing query chr9_random:530950-725978 ...
    Testing query chr11:4184033-9403368 ...
    Testing query chr15_random:1456012-6938955 ...
    Testing query chr4:527074-2332486 ...
    Testing query chr15:6231961-6744661 ...
    Testing query chr4_random:1429017-4799661 ...
    Testing query chrX_random:1288951-8906564 ...
    Testing query chr5:203973-5396390 ...
    Testing query chr22_random:6924137-9556382 ...
    Testing query chr13:3692768-5792536 ...
    Testing query chr7_random:4736121-7190035 ...
    Testing query chr19_random:1067060-5424230 ...
    Testing query chr5:4645403-9655346 ...
    Testing query chr21:6194788-9692460 ...
    Testing query chr3_random:6249249-8849610 ...
    Testing query chr1_random:116005-4931104 ...
    Testing query chr9_random:2264542-9177908 ...
    Testing query chr5:1920701-3940100 ...
    Testing query chr19:3510626-6120416 ...
    Testing query chr8_random:1385330-9139475 ...
    Testing query chr5_random:4560385-9932819 ...
    Testing query chr10_random:1546770-4255829 ...
    Testing query chrY:1634712-6195051 ...
    Testing query chr21:1934284-3805640 ...
    Testing query chr10:1098075-1222293 ...
    Testing query chrX:3147440-5915627 ...
    Testing query chr12:644340-9578661 ...
    Testing query chr7:3815107-7552297 ...
    Testing query chr7_random:979254-6592345 ...
    Testing query chr15_random:4031375-9529529 ...
    Testing query chr20:809453-6417655 ...
    Testing query chr3_random:1311668-6592135 ...
    Testing query chr16_random:4796848-9917504 ...
    Testing query chr2:2316239-8809758 ...
    Testing query chr22_random:3700813-7193581 ...
    Testing query chr2_random:5629881-8301170 ...
    Testing query chr2:4292815-5793077 ...
    Testing query chr16:4963697-5732378 ...
    Testing query chr20:1818167-2602981 ...
    Testing query chr13_random:857910-3186701 ...
    Testing query chr8:7828099-7863231 ...
    Testing query chr2:3039751-5869790 ...
    Testing query chr7_random:948462-2258714 ...
    Testing query chr12:2176474-8835346 ...
    Testing query chr4_random:4818082-9335116 ...
    Testing query chr9_random:949590-4937462 ...
    Testing query chr3_random:139177-2147902 ...
    Testing query chr15_random:4086655-7110200 ...
    Testing query chr7:1707937-7031178 ...
    Testing query chr15:6704897-7523233 ...
    Testing query chr8_random:3261310-3388805 ...
    Testing query chr11:4627964-9758513 ...
    Testing query chr3_random:1269243-5807226 ...
    Testing query chr9_random:564250-7036410 ...
    Testing query chr8_random:5129373-5437488 ...
    Testing query chr18:2171501-3304941 ...
    Testing query chr17_random:5747642-6505556 ...
    Testing query chrY:3819311-5517038 ...
    Testing query chr11_random:4980823-9419145 ...
    Testing query chrX:3246258-6297440 ...
    Testing query chr1_random:810216-9835846 ...
    Testing query chr9_random:227030-6294798 ...
    Testing query chr1_random:301295-1576363 ...
    Testing query chr21:4560202-9527465 ...
    Testing query chr11:3926303-4702504 ...
    Testing query chr13_random:4053954-7799426 ...
    Testing query chr8_random:1615788-4228091 ...
    Testing query chrX:5354321-7998054 ...
    Testing query chr5:428791-7222158 ...
    Testing query chrY:5600982-5656729 ...
    Testing query chr4_random:3857931-8313241 ...
    Testing query chr15:1925774-5199208 ...
    Testing query chr11_random:1107850-6997032 ...
    Testing query chr14:2769511-5526141 ...
    Testing query chr22:1129798-7717631 ...
    Testing query chr22_random:2940332-5279177 ...
    Testing query chr9:1067427-1150594 ...
    Testing query chr8:5146545-9541542 ...
    Testing query chr15:7089597-8473958 ...
    Testing query chr12:5527737-5802706 ...
    Testing query chr7:1551097-6396733 ...
    Testing query chr2_random:3022570-3558123 ...
    Testing query chr5_random:385945-6563916 ...
    Testing query chr19_random:3546106-9160937 ...
    Testing query chr15_random:3701260-8137083 ...
    Testing query chr5:1805515-5128679 ...
    Testing query chr10_random:748486-5680503 ...
    Testing query chr18:1342370-7881611 ...
    Testing query chr18_random:770908-6308398 ...
    Testing query chr19:7484581-8473209 ...
    Testing query chr7:4518548-7588072 ...
    Testing query chr9_random:7255308-8443827 ...
    Testing query chrX:5799987-8117438 ...
    Testing query chr14:7540848-8413963 ...
    Testing query chr19_random:2328053-2556284 ...
    Testing query chr16_random:7230921-7518347 ...
    Testing query chr19_random:276347-1547597 ...
    Testing query chr13:765679-7048818 ...
    Testing query chrM:2605992-5897739 ...
    Testing query chrX:7913839-8348655 ...
    Testing query chr2_random:7115229-7577760 ...
    Testing query chr21:7618516-8976664 ...
    Testing query chr10_random:5113402-9511617 ...
    Testing query chr3_random:2749825-6235208 ...
    Testing query chr7_random:4542464-5736534 ...
    Testing query chr22:3287391-8684233 ...
    Testing query chr1:6551268-8138439 ...
    Testing query chr18_random:7072081-7642659 ...
    Testing query chr1_random:375703-2560467 ...
    Testing query chr21:5140483-9431223 ...
    Testing query chr19:320517-7295855 ...
    Testing query chr12:585392-5511186 ...
    Testing query chr18_random:8083366-8235379 ...
    Testing query chr10:126713-1547118 ...
    Testing query chr10:5632955-8746379 ...
    Testing query chr10_random:3676138-6848091 ...
    Testing query chr9:4589897-9207905 ...
    Testing query chr6_random:7846883-9764185 ...
    Testing query chr18_random:4290690-8214747 ...
    Testing query chr13_random:2540819-4559633 ...
    Testing query chr11_random:3861379-5778337 ...
    Testing query chr16_random:1701866-3678380 ...
    Testing query chr15:6359944-8126244 ...
    Testing query chr9_random:3748170-8007098 ...
    Testing query chr9:7943740-9455802 ...
    Testing query chr19_random:1042691-5523628 ...
    Testing query chr1_random:1492517-5228447 ...
    Testing query chr6:5705000-6113711 ...
    Testing query chr20:323999-8013692 ...
    Testing query chr10_random:2403788-4666817 ...
    Testing query chr12:809220-4859122 ...
    Testing query chr7:4626441-6767688 ...
    Testing query chr9:1227373-9861818 ...
    Testing query chr9_random:1646320-4830906 ...
    Testing query chr5:1816686-8010796 ...
    Testing query chr18_random:2978620-4099625 ...
    Testing query chr2:2092284-6363784 ...
    Testing query chr11:6697928-8978854 ...
    Testing query chr15:4328362-7736553 ...
    Testing query chr19:2684370-4694361 ...
    Testing query chr8_random:1549783-2052889 ...
    Testing query chr10_random:343773-5114298 ...
    Testing query chr22:239978-7311092 ...
    Testing query chr10:59830-4498628 ...
    Testing query chr6_random:4394006-8726576 ...
    Testing query chr2:2521493-6006376 ...
    Testing query chrY:174190-248602 ...
    Testing query chr5_random:3175374-3810594 ...
    Testing query chr21:458207-4328406 ...
    Testing query chr7:746735-8755260 ...
    Testing query chr1:8376346-9926832 ...
    Testing query chrX:1558302-6671795 ...
    Testing query chr3:90115-6523026 ...
    Testing query chr17_random:1954593-2055586 ...
    Testing query chr9:2137572-9471850 ...
    Testing query chr18_random:7412031-7927783 ...
    Testing query chr7:2153207-4745373 ...
    Testing query chrX:4532293-8914932 ...
    Testing query chr11:2910609-3421044 ...
    Testing query chr9:6096367-7279687 ...
    Testing query chr3:2070513-7395995 ...
    Testing query chr8_random:835918-1827839 ...
    Testing query chr18:248820-4981110 ...
    Testing query chr11_random:4573607-7438971 ...
    Testing query chrX:4061785-7455437 ...
    Testing query chr3:5179852-5811856 ...
    Testing query chr7_random:3320586-3880101 ...
    Testing query chr22:1201575-8615117 ...
    Testing query chr4:6832003-9027563 ...
    Testing query chr5_random:2075108-2231968 ...
    Testing query chrX_random:59800-714902 ...
    Testing query chrX_random:2828941-5491980 ...
    Testing query chr8:1038109-7255118 ...
    Testing query chr19:564478-5162536 ...
    Testing query chr21:6696589-7247970 ...
    Testing query chr6:918960-1474816 ...
    Testing query chrM:5636321-9968137 ...
    Testing query chr7_random:5485027-5682623 ...
    Testing query chrY:4149126-7271874 ...
    Testing query chrX_random:2119447-7981903 ...
    Testing query chr8:392266-4278110 ...
    Testing query chr15:126791-8741531 ...
    Testing query chrY:1970354-3699838 ...
    Testing query chr16:4070891-8181737 ...
    Testing query chr18_random:1308317-5408953 ...
    Testing query chr9:1486842-2579174 ...
    Testing query chr9_random:3614823-8021197 ...
    Testing query chr19_random:4100590-7401362 ...
    Testing query chr13:9198949-9562213 ...
    Testing query chr13_random:3477250-5979150 ...
    Testing query chr8:702816-7724269 ...
    Testing query chrX:1173848-9916277 ...
    Testing query chr19_random:1528939-7213477 ...
    Testing query chrY:4055178-8006125 ...
    Testing query chr21_random:5600720-8897721 ...
    Testing query chr13:5754292-7802376 ...
    Testing query chr6_random:2337681-6172508 ...
    Testing query chr2:5799739-7134812 ...
    Testing query chrX_random:3353632-6262401 ...
    Testing query chr21:945894-5132876 ...
    Testing query chr18_random:2350673-9531784 ...
    Testing query chr22_random:5048930-8474866 ...
    Testing query chr19:6352226-8501858 ...
    Testing query chr20:3392059-9830746 ...
    Testing query chr16_random:4090981-7752074 ...
    Testing query chr11_random:5905570-6251642 ...
    Testing query chr13:360298-9358487 ...
    Testing query chr6_random:882947-4758560 ...
    Testing query chr11:2340078-2932391 ...
    Testing query chr22_random:2213551-2534609 ...
    Testing query chr21:5841676-5846763 ...
    Testing query chr11_random:4038782-7000307 ...
    Testing query chr6_random:25409-5762752 ...
    Testing query chr16:5928354-8501435 ...
    Testing query chrY:694230-6280406 ...
    Testing query chr11:7243231-8376959 ...
    Testing query chr16_random:7306380-8046651 ...
    Testing query chr16:1271045-7843225 ...
    Testing query chr15:3261152-4143715 ...
    Testing query chr16:3643483-7977448 ...
    Testing query chrM:2682115-4251696 ...
    Testing query chrM:8447185-9660353 ...
    Testing query chr17_random:4662108-9040099 ...
    Testing query chr15:2717869-3422290 ...
    Testing query chr9_random:2276674-4258729 ...
    Testing query chrX_random:975097-5521164 ...
    Testing query chr11:2146529-8617542 ...
    Testing query chr10_random:1180053-8007684 ...
    Testing query chr3_random:3693000-4565796 ...
    Testing query chr11:145445-2682401 ...
    Testing query chr8_random:6750591-7945127 ...
    Testing query chr1:8320362-9511438 ...
    Testing query chr8:7013549-9472948 ...
    Testing query chr13_random:3536637-5003209 ...
    Testing query chr9:6558793-7284938 ...
    Testing query chr21_random:2580219-9412760 ...
    Testing query chr10:406321-2977770 ...
    Testing query chr21:492284-7994828 ...
    Testing query chr8:2657319-7983432 ...
    Testing query chrX:4732048-8043746 ...
    Testing query chr20:3307597-9305376 ...
    Testing query chr2_random:755380-8957174 ...
    Testing query chrY:2933069-9880634 ...
    Testing query chr6:774738-5674081 ...
    Testing query chr22_random:715809-9050909 ...
    Testing query chr4:1349527-3344979 ...
    Testing query chr6:8028105-9684178 ...
    Testing query chr5_random:4787471-8881473 ...
    Testing query chr10_random:2634703-3696440 ...
    Testing query chr11_random:829085-1727870 ...
    Testing query chr15_random:592933-9165180 ...
    Testing query chr4_random:4418610-8898086 ...
    Testing query chrX_random:2431444-6884713 ...
    Testing query chr8_random:6475456-8480814 ...
    Testing query chr7:3815530-7026545 ...
    Testing query chr19:7331585-7602899 ...
    Testing query chr1_random:874465-3320587 ...
    Testing query chr13_random:733794-6825035 ...
    Testing query chr15_random:9014536-9668872 ...
    Testing query chr17_random:6591609-9129777 ...
    Testing query chrM:656068-4356620 ...
    Testing query chr8:405654-9125605 ...
    Testing query chrX:2091850-6675177 ...
    Testing query chr17_random:7703315-8296743 ...
    Testing query chr5:6509082-7915180 ...
    Testing query chr22:2553656-7681295 ...
    Testing query chr14:3268086-7514168 ...
    Testing query chr8:4422671-6192314 ...
    Testing query chr1:65591-912831 ...
    Testing query chr3_random:5754696-6365576 ...
    Testing query chr19:3761804-6226235 ...
    Testing query chr15_random:437782-2343429 ...
    Testing query chr21_random:6464723-8352688 ...
    Testing query chr2:2429164-5768260 ...
    Testing query chr4:470318-7002218 ...
    Testing query chr4:3690943-5461445 ...
    Testing query chr22_random:5183905-6703677 ...
    Testing query chr6:956010-4837181 ...
    Testing query chr22_random:4644999-6726863 ...
    Testing query chr3:461910-2847795 ...
    Testing query chrM:1898841-4804510 ...
    Testing query chr17_random:4508018-9521979 ...
    Testing query chr5_random:324986-2917264 ...
    Testing query chr21_random:5399136-5748620 ...
    Testing query chr22:2778077-4812793 ...
    Testing query chr10:4969555-6126688 ...
    Testing query chr18:1713300-5060476 ...
    Testing query chr13_random:3333348-5290509 ...
    Testing query chr11_random:4081564-5917103 ...
    Testing query chr4_random:5054748-8642850 ...
    Testing query chr1:2326146-4227874 ...
    Testing query chr18:1537257-7925976 ...
    Testing query chr22_random:8252153-8805544 ...
    Testing query chr3_random:1198809-9011283 ...
    Testing query chr17_random:6967406-8885184 ...
    Testing query chr13:1386877-2947412 ...
    Testing query chrM:6757870-7928951 ...
    Testing query chr21:4074861-7649457 ...
    Testing query chrX_random:1019101-6500619 ...
    Testing query chrX:1825987-5504513 ...
    Testing query chr21_random:3186073-5713305 ...
    Testing query chr4:6259611-8028235 ...
    Testing query chr4:1743818-8599191 ...
    Testing query chr17:1858282-6524491 ...
    Testing query chr15_random:4438074-7157093 ...
    Testing query chr3_random:397131-735889 ...
    Testing query chr8:6928096-9944821 ...
    Testing query chr4_random:1300717-4919221 ...
    Testing query chr5_random:338852-4544685 ...
    Testing query chr7_random:9056136-9688355 ...
    Testing query chr13:2503131-3346435 ...
    Testing query chr15_random:4163332-8152391 ...
    Testing query chr11_random:3309623-7440495 ...
    Testing query chr5_random:9256148-9879716 ...
    Testing query chr17_random:1285404-9731324 ...
    Testing query chr11:8839451-9081378 ...
    Testing query chr13:8871343-9845159 ...
    Testing query chr22:4961912-7272246 ...
    Testing query chr7_random:1546612-1704922 ...
    Testing query chr4_random:3988885-5892099 ...
    Testing query chr16:3240803-6856154 ...
    Testing query chr16:217614-7256181 ...
    Testing query chr8_random:9247976-9386452 ...
    Testing query chr3_random:6627763-9791298 ...
    Testing query chr2:2529288-4212123 ...
    Testing query chrX_random:2988973-8007994 ...
    Testing query chr15:7917609-9330719 ...
    Testing query chr11_random:3494062-5554433 ...
    Testing query chr10_random:550231-9169795 ...
    Testing query chrM:2348914-4789264 ...
    Testing query chr10_random:1774094-2022615 ...
    Testing query chrY:1233622-1787356 ...
    Testing query chr16:1423379-2759956 ...
    Testing query chr15_random:2179216-5955676 ...
    Testing query chr13_random:4485355-8258869 ...
    Testing query chr16:1540718-7599890 ...
    Testing query chr16:3470124-5210468 ...
    Testing query chr5_random:2480219-3389498 ...
    Testing query chrX_random:2150354-9183393 ...
    Testing query chr4_random:7326066-8687796 ...
    Testing query chr9_random:778644-7335950 ...
    Testing query chr3_random:117405-711777 ...
    Testing query chr3_random:1627027-5946622 ...
    Testing query chr14:1896619-3058485 ...
    Testing query chr4:361451-8469991 ...
    Testing query chr13:8016007-9409673 ...
    Testing query chr15_random:4902505-9345392 ...
    Testing query chr11_random:7321862-9499733 ...
    Testing query chr4:1033220-5712150 ...
    Testing query chr8:3549734-9090035 ...
    Testing query chrM:5081509-5962772 ...
    Testing query chrX_random:97240-6137606 ...
    Testing query chr8_random:4271059-4291635 ...
    Testing query chrX_random:530035-1682825 ...
    Testing query chr15:2788773-5483281 ...
    Testing query chrX_random:4759178-9377757 ...
    Testing query chrM:3245025-4297984 ...
    Testing query chr19_random:3021529-4576251 ...
    Testing query chr4_random:1397040-5761345 ...
    Testing query chrM:561371-7187972 ...
    Testing query chr22:5413646-8736775 ...
    Testing query chr17_random:1425366-7019792 ...
    Testing query chr3_random:572179-7205526 ...
    Testing query chr5:4328737-9239750 ...
    Testing query chr22:5069432-6659616 ...
    Testing query chr13:48249-7303858 ...
    Testing query chr3:305799-6869287 ...
    Testing query chr21:3873459-5093561 ...
    Testing query chr19:5939843-9027189 ...
    Testing query chr2:5873453-6683127 ...
    Testing query chr22_random:3713598-5598641 ...
    Testing query chr20:179927-8450235 ...
    Testing query chr13_random:8308459-9668938 ...
    Testing query chr11:1199780-7649669 ...
    Testing query chr19:4137076-6447341 ...
    Testing query chrM:78280-8559488 ...
    Testing query chr4:623887-7069138 ...
    Testing query chr16:3039657-4345359 ...
    Testing query chr17:3391405-4744719 ...
    Testing query chr20:2910861-7899348 ...
    Testing query chr19_random:913985-2128081 ...
    Testing query chr22:1426695-8605324 ...
    Testing query chr12:1887213-4358077 ...
    Testing query chrX:5563613-8375913 ...
    Testing query chr7_random:136737-595720 ...
    Testing query chr22:3649338-3715557 ...
    Testing query chr22_random:1857324-2876705 ...
    Testing query chr3_random:1299041-9034999 ...
    Testing query chr15:978485-8350193 ...
    Testing query chr19_random:4068601-6523086 ...
    Testing query chr2:201488-4273604 ...
    Testing query chr19_random:5966187-9871009 ...
    Testing query chrM:1330413-9761840 ...
    Testing query chr7:4263424-8956444 ...
    Testing query chr5:710131-1481160 ...
    Testing query chr22_random:3228001-4696776 ...
    Testing query chr3:64585-1673488 ...
    Testing query chr16:8045346-8459636 ...
    Testing query chr13_random:1741393-4393228 ...
    Testing query chr22_random:2624571-7878001 ...
    Testing query chr20:4312366-7263897 ...
    Testing query chr2_random:792986-9926045 ...
    Testing query chr4:876557-8032416 ...
    Testing query chr7_random:9474728-9775529 ...
    Testing query chrY:196281-2297210 ...
    Testing query chr11_random:1815604-1988691 ...
    Testing query chr17:327462-9941596 ...
    Testing query chr4:1225057-5716342 ...
    Testing query chrX_random:5518830-9291836 ...
    Testing query chr19_random:8850582-9837888 ...
    Testing query chr10_random:906079-4133872 ...
    Testing query chrX:1487717-2363048 ...
    Testing query chrX:315413-7567516 ...
    Testing query chr8_random:6478215-9426080 ...
    Testing query chr20:2999407-4776774 ...
    Testing query chr5_random:1309090-5902755 ...
    Testing query chr4_random:4737388-7952008 ...
    Testing query chr21_random:3092337-5111212 ...
    Testing query chr12:4888197-9051400 ...
    Testing query chr13_random:4483564-5744770 ...
    Testing query chr22_random:54755-6638497 ...
    Testing query chr13_random:5891419-7679795 ...
    Testing query chr12:1730038-8775120 ...
    Testing query chr10:3971454-8725046 ...
    Testing query chr13_random:2420218-3946730 ...
    Testing query chr16_random:6268326-9602951 ...
    Testing query chr15_random:6201359-7624324 ...
    Testing query chr8_random:1897294-5156982 ...
    Testing query chr1:2597385-4514890 ...
    Testing query chrX_random:338730-7953560 ...
    Testing query chr7:5484367-7925032 ...
    Testing query chr5_random:6298235-7470139 ...
    Testing query chr21_random:3834366-4459713 ...
    Testing query chr5:2361767-8905807 ...
    Testing query chrM:3162105-9086123 ...
    Testing query chrX_random:4940689-6482079 ...
    Testing query chr4:4948264-5128137 ...
    Testing query chr3:4207686-7342748 ...
    Testing query chr19_random:2021389-9994958 ...
    Testing query chr18:3680011-9706840 ...
    Testing query chr17_random:5951397-8238603 ...
    Testing query chr15_random:4175461-7481270 ...
    Testing query chr4:498362-9165782 ...
    Testing query chr21:4179687-5159563 ...
    Testing query chr1:5178637-7992880 ...
    Testing query chr15_random:6053128-8149868 ...
    Testing query chr5:4008322-7971530 ...
    Testing query chr19_random:1097409-1939223 ...
    Testing query chr15:7469377-8821183 ...
    Testing query chr11_random:1627957-5387469 ...
    Testing query chr9:5855393-7238773 ...
    Testing query chr22:3055704-4751301 ...
    Testing query chr18_random:2752026-7569770 ...
    Testing query chr6:2659325-3383321 ...
    Testing query chr19_random:6031799-9193165 ...
    Testing query chr10:2867928-7456748 ...
    Testing query chr17:803521-2016747 ...
    Testing query chr11_random:2756837-9309974 ...
    Testing query chr9_random:4932323-6215308 ...
    Testing query chr19_random:1738738-9429398 ...
    Testing query chr4_random:162435-8328176 ...
    Testing query chr17:138893-2694455 ...
    Testing query chrX_random:4137996-9339319 ...
    Testing query chr19:2497402-8914940 ...
    Testing query chr13_random:3513964-5910759 ...
    Testing query chrX:1099583-2639169 ...
    Testing query chr11_random:6266637-8387131 ...
    Testing query chr8_random:3059827-5229064 ...
    Testing query chr6:380960-2560436 ...
    Testing query chr15_random:5618328-6876961 ...
    Testing query chr2_random:3878460-5680854 ...
    Testing query chr8_random:2477614-4148075 ...
    Testing query chr18_random:5415785-8338387 ...
    Testing query chr10_random:8209397-8355863 ...
    Testing query chr11_random:4475489-6604223 ...
    Testing query chr1_random:754948-7226484 ...
    Testing query chr9:2946100-8357028 ...
    Testing query chr15:7199317-8245905 ...
    Testing query chr7_random:7269507-8820498 ...
    Testing query chr16:1621267-2368637 ...
    Testing query chr7_random:2996833-9854987 ...
    Testing query chrM:6484003-6911983 ...
    Testing query chr13:1771424-4738191 ...
    Testing query chr13_random:1828228-4302873 ...
    Testing query chrM:2962858-5957962 ...
    Testing query chr6_random:4242794-9824359 ...
    Testing query chr13:415874-9331256 ...
    Testing query chr8:7417568-9299672 ...
    Testing query chr5_random:6880184-8188312 ...
    Testing query chr10_random:1892176-5188920 ...
    Testing query chr21_random:4076206-6101050 ...
    Testing query chr20:5126731-9990106 ...
    Testing query chr4:3133535-3261569 ...

Gradle suite > Gradle test > htsjdk.samtools.BAMFileReaderTest.testGetIndexTypeOK STANDARD_OUT
    chrM length=	16571	Aligned= 23	Unaligned= 0
    chr1 length=	247249719	Aligned= 885	Unaligned= 0
    chr2 length=	242951149	Aligned= 837	Unaligned= 0
    chr3 length=	199501827	Aligned= 683	Unaligned= 0
    chr4 length=	191273063	Aligned= 633	Unaligned= 0
    chr5 length=	180857866	Aligned= 611	Unaligned= 0
    chr6 length=	170899992	Aligned= 585	Unaligned= 0
    chr7 length=	158821424	Aligned= 521	Unaligned= 0
    chr8 length=	146274826	Aligned= 507	Unaligned= 0
    chr9 length=	140273252	Aligned= 388	Unaligned= 0
    chr10 length=	135374737	Aligned= 477	Unaligned= 0
    chr11 length=	134452384	Aligned= 467	Unaligned= 0
    chr12 length=	132349534	Aligned= 459	Unaligned= 0
    chr13 length=	114142980	Aligned= 327	Unaligned= 0
    chr14 length=	106368585	Aligned= 310	Unaligned= 0
    chr15 length=	100338915	Aligned= 280	Unaligned= 0
    chr16 length=	88827254	Aligned= 278	Unaligned= 0
    chr17 length=	78774742	Aligned= 269	Unaligned= 0
    chr18 length=	76117153	Aligned= 265	Unaligned= 0
    chr19 length=	63811651	Aligned= 178	Unaligned= 0
    chr20 length=	62435964	Aligned= 228	Unaligned= 0
    chr21 length=	46944323	Aligned= 123	Unaligned= 0
    chr22 length=	49691432	Aligned= 121	Unaligned= 0
    chrX length=	154913754	Aligned= 237	Unaligned= 0
    chrY length=	57772954	Aligned= 29	Unaligned= 0
    chr1_random length=	1663265	Aligned= 0	Unaligned= 0
    chr2_random length=	185571	Aligned= 0	Unaligned= 0
    chr3_random length=	749256	Aligned= 0	Unaligned= 0
    chr4_random length=	842648	Aligned= 0	Unaligned= 0
    chr5_random length=	143687	Aligned= 0	Unaligned= 0
    chr6_random length=	1875562	Aligned= 0	Unaligned= 0
    chr7_random length=	549659	Aligned= 0	Unaligned= 0
    chr8_random length=	943810	Aligned= 0	Unaligned= 0
    chr9_random length=	1146434	Aligned= 0	Unaligned= 0
    chr10_random length=	113275	Aligned= 0	Unaligned= 0
    chr11_random length=	215294	Aligned= 0	Unaligned= 0
    chr13_random length=	186858	Aligned= 0	Unaligned= 0
    chr15_random length=	784346	Aligned= 0	Unaligned= 0
    chr16_random length=	105485	Aligned= 0	Unaligned= 0
    chr17_random length=	2617613	Aligned= 0	Unaligned= 0
    chr18_random length=	4262	Aligned= 0	Unaligned= 0
    chr19_random length=	301858	Aligned= 0	Unaligned= 0
    chr21_random length=	1679693	Aligned= 0	Unaligned= 0
    chr22_random length=	257318	Aligned= 0	Unaligned= 0
    chrX_random length=	1719168	Aligned= 0	Unaligned= 0
    NoCoordinateCount= 279

Gradle suite > Gradle test > htsjdk.samtools.BAMIndexWriterTest.testWriteBinary STANDARD_OUT
    #BAMIndexWriterTest Wrote binary java BAM Index file /tmp/javaBai.13689841409358492811.bai
    #BAMIndexWriterTest Wrote sorted C binary BAM Index file /tmp/cBai.7087836092669383652.bai
    #BAMIndexWriterTest diff /tmp/javaBai.13689841409358492811.bai /tmp/cBai.7087836092669383652.bai

Gradle suite > Gradle test > htsjdk.samtools.BAMIndexWriterTest.testWriteText STANDARD_OUT
    #BAMIndexWriterTest Wrote textual C BAM Index file /tmp/cBai.13216026136663370411.bai.txt
    #BAMIndexWriterTest Wrote binary Java BAM Index file /tmp/javaBai.9969345128385469158java.bai
    #BAMIndexWriterTest diff /tmp/javaBai.9969345128385469158java.bai.txt /tmp/cBai.13216026136663370411.bai.txt

Gradle suite > Gradle test > htsjdk.samtools.util.BinaryCodecTest.readPastEndOfFile STANDARD_OUT
    29ms to write

Gradle suite > Gradle test > htsjdk.samtools.util.BinaryCodecTest.timeTest STANDARD_OUT
    30ms to write

Gradle suite > Gradle test > htsjdk.samtools.util.BlockCompressedInputStreamTest.testCustomInflater SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.util.BlockCompressedOutputStreamTest.testBasic STANDARD_OUT
    Creating file /tmp/BCOST.17733047500485414318.gz

Gradle suite > Gradle test > htsjdk.samtools.util.BlockCompressedOutputStreamTest.testCustomDeflater STANDARD_OUT
    Creating file /tmp/testCustomDeflater.15959414371612669791.gz

Gradle suite > Gradle test > htsjdk.samtools.util.BlockCompressedOutputStreamTest.testOverflow STANDARD_OUT
    Creating file /tmp/BCOST.7499518920271472398.gz

Gradle suite > Gradle test > htsjdk.samtools.CRAMComplianceTest.fullVerificationTest[0](c1#bounds) STANDARD_ERROR
    WARNING	2021-11-28 11:54:47	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=12, counter=0.
    WARNING	2021-11-28 11:54:47	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=12, counter=0.

Gradle suite > Gradle test > htsjdk.samtools.CRAMEdgeCasesTest.testContigNotFoundInRef STANDARD_ERROR
    WARNING	2021-11-28 11:54:52	ReferenceSource	Sequence not found: chrSheila

Gradle suite > Gradle test > htsjdk.samtools.CRAMEdgeCasesTest.testNullsAndBeyondRef STANDARD_ERROR
    WARNING	2021-11-28 11:54:52	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=3, counter=0.
    WARNING	2021-11-28 11:54:52	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=3, counter=0.

Gradle suite > Gradle test > htsjdk.samtools.CRAMEdgeCasesTest.testUnsorted STANDARD_ERROR
    WARNING	2021-11-28 11:54:52	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=37, counter=0.
    WARNING	2021-11-28 11:54:52	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=37, counter=0.
	Gradle is still running, please be patient...

Gradle suite > Gradle test > htsjdk.samtools.CRAMReferencelessTest.testReadCRAMWithEmbeddedReference STANDARD_ERROR
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Read name 20FUKAAXX100202:2:1:20271:61529, Mate Alignment start (9999748) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Read name 20FUKAAXX100202:2:1:20271:61529, Mate Alignment start (9999748) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 1, Read name 20FUKAAXX100202:3:27:11237:128368, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 1, Read name 20FUKAAXX100202:3:27:11237:128368, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 2, Read name 20FUKAAXX100202:3:27:11250:128353, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 2, Read name 20FUKAAXX100202:3:27:11250:128353, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 3, Read name 20GAVAAXX100126:4:23:2251:22957, Mate Alignment start (9999692) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 3, Read name 20GAVAAXX100126:4:23:2251:22957, Mate Alignment start (9999692) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 4, Read name 20FUKAAXX100202:2:41:20497:197885, Mate Alignment start (10000344) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 4, Read name 20FUKAAXX100202:2:41:20497:197885, Mate Alignment start (10000344) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 5, Read name 20FUKAAXX100202:7:67:1995:131468, Mate Alignment start (9999746) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 5, Read name 20FUKAAXX100202:7:67:1995:131468, Mate Alignment start (9999746) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 6, Read name 20GAVAAXX100126:2:64:13726:30107, Mate Alignment start (10000306) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 6, Read name 20GAVAAXX100126:2:64:13726:30107, Mate Alignment start (10000306) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 7, Read name 20FUKAAXX100202:4:43:20796:59238, Mate Alignment start (9999709) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 7, Read name 20FUKAAXX100202:4:43:20796:59238, Mate Alignment start (9999709) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 8, Read name 20GAVAAXX100126:1:23:7794:118351, Mate Alignment start (10000299) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 8, Read name 20GAVAAXX100126:1:23:7794:118351, Mate Alignment start (10000299) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 9, Read name 20GAVAAXX100126:4:68:6400:174077, Mate Alignment start (10000335) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 9, Read name 20GAVAAXX100126:4:68:6400:174077, Mate Alignment start (10000335) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 10, Read name 20GAVAAXX100126:5:27:13558:117863, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 10, Read name 20GAVAAXX100126:5:27:13558:117863, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 11, Read name 20FUKAAXX100202:1:64:5977:190591, Mate Alignment start (10000296) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 11, Read name 20FUKAAXX100202:1:64:5977:190591, Mate Alignment start (10000296) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 12, Read name 20FUKAAXX100202:8:68:8163:66511, Mate Alignment start (10000285) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 12, Read name 20FUKAAXX100202:8:68:8163:66511, Mate Alignment start (10000285) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 13, Read name 20GAVAAXX100126:2:65:15310:41789, Mate Alignment start (9999670) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 13, Read name 20GAVAAXX100126:2:65:15310:41789, Mate Alignment start (9999670) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 14, Read name 20GAVAAXX100126:7:66:12507:22293, Mate Alignment start (10000236) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 14, Read name 20GAVAAXX100126:7:66:12507:22293, Mate Alignment start (10000236) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 15, Read name 20FUKAAXX100202:4:28:1593:6464, Mate Alignment start (9999607) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 15, Read name 20FUKAAXX100202:4:28:1593:6464, Mate Alignment start (9999607) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 16, Read name 20FUKAAXX100202:3:43:19691:103757, Mate Alignment start (10000257) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 16, Read name 20FUKAAXX100202:3:43:19691:103757, Mate Alignment start (10000257) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 17, Read name 20FUKAAXX100202:5:24:20426:8780, Mate Alignment start (10000318) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 17, Read name 20FUKAAXX100202:5:24:20426:8780, Mate Alignment start (10000318) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 18, Read name 20GAVAAXX100126:3:43:6705:167739, Mate Alignment start (10000257) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 18, Read name 20GAVAAXX100126:3:43:6705:167739, Mate Alignment start (10000257) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 19, Read name 20GAVAAXX100126:3:66:17154:191764, Mate Alignment start (9999760) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 19, Read name 20GAVAAXX100126:3:66:17154:191764, Mate Alignment start (9999760) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 20, Read name 20GAVAAXX100126:6:66:18327:134560, Mate Alignment start (9999694) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 20, Read name 20GAVAAXX100126:6:66:18327:134560, Mate Alignment start (9999694) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 23, Read name 20FUKAAXX100202:5:64:19991:74214, Mate Alignment start (10000274) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 23, Read name 20FUKAAXX100202:5:64:19991:74214, Mate Alignment start (10000274) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 24, Read name 20FUKAAXX100202:2:41:7948:31113, Mate Alignment start (9999705) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 24, Read name 20FUKAAXX100202:2:41:7948:31113, Mate Alignment start (9999705) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 25, Read name 20GAVAAXX100126:8:67:6825:84706, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 25, Read name 20GAVAAXX100126:8:67:6825:84706, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 26, Read name 20FUKAAXX100202:5:46:8200:95675, Mate Alignment start (10000307) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 26, Read name 20FUKAAXX100202:5:46:8200:95675, Mate Alignment start (10000307) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 27, Read name 20FUKAAXX100202:5:46:8201:95696, Mate Alignment start (10000307) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 27, Read name 20FUKAAXX100202:5:46:8201:95696, Mate Alignment start (10000307) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 28, Read name 20FUKAAXX100202:6:5:15635:154535, Mate Alignment start (10000315) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 28, Read name 20FUKAAXX100202:6:5:15635:154535, Mate Alignment start (10000315) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 29, Read name 20FUKAAXX100202:7:41:10752:140666, Mate Alignment start (9999753) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 29, Read name 20FUKAAXX100202:7:41:10752:140666, Mate Alignment start (9999753) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 30, Read name 20GAVAAXX100126:2:23:4627:33063, Mate Alignment start (10000346) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 30, Read name 20GAVAAXX100126:2:23:4627:33063, Mate Alignment start (10000346) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 31, Read name 20GAVAAXX100126:2:23:4640:33082, Mate Alignment start (10000346) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 31, Read name 20GAVAAXX100126:2:23:4640:33082, Mate Alignment start (10000346) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 32, Read name 20GAVAAXX100126:3:25:2015:120007, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 32, Read name 20GAVAAXX100126:3:25:2015:120007, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 33, Read name 20GAVAAXX100126:3:25:2028:120028, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 33, Read name 20GAVAAXX100126:3:25:2028:120028, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 34, Read name 20FUKAAXX100202:5:41:14163:52829, Mate Alignment start (10000260) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 34, Read name 20FUKAAXX100202:5:41:14163:52829, Mate Alignment start (10000260) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 35, Read name 20GAVAAXX100126:7:46:18099:135243, Mate Alignment start (9999721) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 35, Read name 20GAVAAXX100126:7:46:18099:135243, Mate Alignment start (9999721) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 36, Read name 20GAVAAXX100126:2:47:15498:55100, Mate Alignment start (9999706) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 36, Read name 20GAVAAXX100126:2:47:15498:55100, Mate Alignment start (9999706) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 37, Read name 20FUKAAXX100202:8:21:4919:132430, Mate Alignment start (10000321) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 37, Read name 20FUKAAXX100202:8:21:4919:132430, Mate Alignment start (10000321) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 38, Read name 20FUKAAXX100202:3:67:3748:19953, Mate Alignment start (10000279) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 38, Read name 20FUKAAXX100202:3:67:3748:19953, Mate Alignment start (10000279) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 39, Read name 20FUKAAXX100202:2:2:3418:95829, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 39, Read name 20FUKAAXX100202:2:2:3418:95829, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 40, Read name 20FUKAAXX100202:6:5:5332:102974, Mate Alignment start (10000361) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 40, Read name 20FUKAAXX100202:6:5:5332:102974, Mate Alignment start (10000361) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 41, Read name 20FUKAAXX100202:2:8:7024:145363, Mate Alignment start (10000353) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 41, Read name 20FUKAAXX100202:2:8:7024:145363, Mate Alignment start (10000353) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 42, Read name 20GAVAAXX100126:3:25:20036:5188, Mate Alignment start (9999721) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 42, Read name 20GAVAAXX100126:3:25:20036:5188, Mate Alignment start (9999721) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 43, Read name 20FUKAAXX100202:5:2:4432:167162, Mate Alignment start (9999749) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 43, Read name 20FUKAAXX100202:5:2:4432:167162, Mate Alignment start (9999749) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 44, Read name 20GAVAAXX100126:3:63:6482:2143, Mate Alignment start (10000263) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 44, Read name 20GAVAAXX100126:3:63:6482:2143, Mate Alignment start (10000263) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 45, Read name 20GAVAAXX100126:3:63:6488:2160, Mate Alignment start (10000263) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 45, Read name 20GAVAAXX100126:3:63:6488:2160, Mate Alignment start (10000263) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 48, Read name 20FUKAAXX100202:1:21:2273:66026, Mate Alignment start (10000322) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 48, Read name 20FUKAAXX100202:1:21:2273:66026, Mate Alignment start (10000322) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 49, Read name 20FUKAAXX100202:1:21:2285:66012, Mate Alignment start (10000322) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 49, Read name 20FUKAAXX100202:1:21:2285:66012, Mate Alignment start (10000322) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 50, Read name 20FUKAAXX100202:4:8:13315:108160, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 50, Read name 20FUKAAXX100202:4:8:13315:108160, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 51, Read name 20FUKAAXX100202:2:21:15808:57403, Mate Alignment start (10000379) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 51, Read name 20FUKAAXX100202:2:21:15808:57403, Mate Alignment start (10000379) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 52, Read name 20FUKAAXX100202:8:41:10876:123643, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 52, Read name 20FUKAAXX100202:8:41:10876:123643, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 53, Read name 20FUKAAXX100202:8:41:10891:123658, Mate Alignment start (10000357) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 53, Read name 20FUKAAXX100202:8:41:10891:123658, Mate Alignment start (10000357) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 54, Read name 20FUKAAXX100202:1:8:10582:193735, Mate Alignment start (9999814) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 54, Read name 20FUKAAXX100202:1:8:10582:193735, Mate Alignment start (9999814) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 55, Read name 20FUKAAXX100202:4:23:20668:198863, Mate Alignment start (10000391) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 55, Read name 20FUKAAXX100202:4:23:20668:198863, Mate Alignment start (10000391) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 56, Read name 20FUKAAXX100202:3:27:18714:174324, Mate Alignment start (10000329) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 56, Read name 20FUKAAXX100202:3:27:18714:174324, Mate Alignment start (10000329) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 57, Read name 20GAVAAXX100126:3:3:7922:39057, Mate Alignment start (9999758) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 57, Read name 20GAVAAXX100126:3:3:7922:39057, Mate Alignment start (9999758) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 58, Read name 20GAVAAXX100126:3:26:15712:87893, Mate Alignment start (10000309) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 58, Read name 20GAVAAXX100126:3:26:15712:87893, Mate Alignment start (10000309) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 59, Read name 20GAVAAXX100126:4:23:3530:147535, Mate Alignment start (9999796) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 59, Read name 20GAVAAXX100126:4:23:3530:147535, Mate Alignment start (9999796) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 60, Read name 20GAVAAXX100126:5:24:17054:156839, Mate Alignment start (10000359) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 60, Read name 20GAVAAXX100126:5:24:17054:156839, Mate Alignment start (10000359) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 61, Read name 20GAVAAXX100126:5:24:17070:156829, Mate Alignment start (10000359) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 61, Read name 20GAVAAXX100126:5:24:17070:156829, Mate Alignment start (10000359) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 62, Read name 20GAVAAXX100126:5:28:14493:46327, Mate Alignment start (10000381) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 62, Read name 20GAVAAXX100126:5:28:14493:46327, Mate Alignment start (10000381) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 63, Read name 20GAVAAXX100126:5:28:14509:46338, Mate Alignment start (10000381) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 63, Read name 20GAVAAXX100126:5:28:14509:46338, Mate Alignment start (10000381) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 64, Read name 20FUKAAXX100202:3:3:19592:17448, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 64, Read name 20FUKAAXX100202:3:3:19592:17448, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 65, Read name 20FUKAAXX100202:5:61:14815:105709, Mate Alignment start (9999813) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 65, Read name 20FUKAAXX100202:5:61:14815:105709, Mate Alignment start (9999813) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 66, Read name 20GAVAAXX100126:2:1:17704:50462, Mate Alignment start (9999830) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 66, Read name 20GAVAAXX100126:2:1:17704:50462, Mate Alignment start (9999830) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 67, Read name 20GAVAAXX100126:2:5:19558:132530, Mate Alignment start (10000310) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 67, Read name 20GAVAAXX100126:2:5:19558:132530, Mate Alignment start (10000310) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 68, Read name 20FUKAAXX100202:2:42:6225:11993, Mate Alignment start (10000403) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 68, Read name 20FUKAAXX100202:2:42:6225:11993, Mate Alignment start (10000403) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 69, Read name 20FUKAAXX100202:1:6:12511:73800, Mate Alignment start (10000338) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 69, Read name 20FUKAAXX100202:1:6:12511:73800, Mate Alignment start (10000338) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 70, Read name 20FUKAAXX100202:3:3:7237:174227, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 70, Read name 20FUKAAXX100202:3:3:7237:174227, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 71, Read name 20GAVAAXX100126:2:44:2924:108763, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 71, Read name 20GAVAAXX100126:2:44:2924:108763, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 72, Read name 20FUKAAXX100202:5:46:18326:99323, Mate Alignment start (9999771) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 72, Read name 20FUKAAXX100202:5:46:18326:99323, Mate Alignment start (9999771) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 73, Read name 20FUKAAXX100202:1:41:13026:43433, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 73, Read name 20FUKAAXX100202:1:41:13026:43433, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 74, Read name 20FUKAAXX100202:7:41:10475:81635, Mate Alignment start (10000316) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 74, Read name 20FUKAAXX100202:7:41:10475:81635, Mate Alignment start (10000316) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 75, Read name 20FUKAAXX100202:6:7:6837:63100, Mate Alignment start (10000335) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 75, Read name 20FUKAAXX100202:6:7:6837:63100, Mate Alignment start (10000335) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 76, Read name 20FUKAAXX100202:8:41:15613:40512, Mate Alignment start (10000400) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 76, Read name 20FUKAAXX100202:8:41:15613:40512, Mate Alignment start (10000400) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 77, Read name 20GAVAAXX100126:4:66:5628:46560, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 77, Read name 20GAVAAXX100126:4:66:5628:46560, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 78, Read name 20GAVAAXX100126:2:43:11751:59743, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 78, Read name 20GAVAAXX100126:2:43:11751:59743, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 79, Read name 20GAVAAXX100126:4:6:17284:168594, Mate Alignment start (9999791) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 79, Read name 20GAVAAXX100126:4:6:17284:168594, Mate Alignment start (9999791) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 80, Read name 20FUKAAXX100202:8:41:1273:146353, Mate Alignment start (10000404) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 80, Read name 20FUKAAXX100202:8:41:1273:146353, Mate Alignment start (10000404) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 81, Read name 20FUKAAXX100202:5:43:11657:127515, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 81, Read name 20FUKAAXX100202:5:43:11657:127515, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 82, Read name 20FUKAAXX100202:5:43:11665:127498, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 82, Read name 20FUKAAXX100202:5:43:11665:127498, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 83, Read name 20FUKAAXX100202:1:48:13750:136932, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 83, Read name 20FUKAAXX100202:1:48:13750:136932, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 84, Read name 20FUKAAXX100202:1:2:3754:138352, Mate Alignment start (10000379) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 84, Read name 20FUKAAXX100202:1:2:3754:138352, Mate Alignment start (10000379) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 85, Read name 20GAVAAXX100126:7:46:18080:135229, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 85, Read name 20GAVAAXX100126:7:46:18080:135229, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 86, Read name 20FUKAAXX100202:7:22:18885:27661, Mate Alignment start (9999857) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 86, Read name 20FUKAAXX100202:7:22:18885:27661, Mate Alignment start (9999857) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 87, Read name 20GAVAAXX100126:2:68:19001:156273, Mate Alignment start (9999800) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 87, Read name 20GAVAAXX100126:2:68:19001:156273, Mate Alignment start (9999800) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 88, Read name 20GAVAAXX100126:7:23:12948:100075, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 88, Read name 20GAVAAXX100126:7:23:12948:100075, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 89, Read name 20GAVAAXX100126:3:44:17022:23968, Mate Alignment start (9999797) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 89, Read name 20GAVAAXX100126:3:44:17022:23968, Mate Alignment start (9999797) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 90, Read name 20FUKAAXX100202:1:21:6910:153058, Mate Alignment start (10000324) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 90, Read name 20FUKAAXX100202:1:21:6910:153058, Mate Alignment start (10000324) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 91, Read name 20GAVAAXX100126:4:43:14464:8329, Mate Alignment start (10000409) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 91, Read name 20GAVAAXX100126:4:43:14464:8329, Mate Alignment start (10000409) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 92, Read name 20GAVAAXX100126:4:43:14480:8346, Mate Alignment start (10000408) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 92, Read name 20GAVAAXX100126:4:43:14480:8346, Mate Alignment start (10000408) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 93, Read name 20FUKAAXX100202:6:27:18144:27680, Mate Alignment start (10000498) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 93, Read name 20FUKAAXX100202:6:27:18144:27680, Mate Alignment start (10000498) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 94, Read name 20GAVAAXX100126:8:44:5555:179202, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 94, Read name 20GAVAAXX100126:8:44:5555:179202, Mate Alignment start (9999834) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 95, Read name 20GAVAAXX100126:5:63:15490:26472, Mate Alignment start (10000395) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 95, Read name 20GAVAAXX100126:5:63:15490:26472, Mate Alignment start (10000395) must be <= reference sequence length (200) on reference 20
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 96, Read name 20FUKAAXX100202:6:24:17640:150063, Mate Alignment start (9999667) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 96, Read name 20FUKAAXX100202:6:24:17640:150063, Mate Alignment start (9999667) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 97, Read name 20FUKAAXX100202:2:46:7154:171464, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 97, Read name 20FUKAAXX100202:2:46:7154:171464, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 98, Read name 20FUKAAXX100202:2:46:7154:171487, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 98, Read name 20FUKAAXX100202:2:46:7154:171487, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 99, Read name 20FUKAAXX100202:3:4:1882:78979, Mate Alignment start (10000344) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 99, Read name 20FUKAAXX100202:3:4:1882:78979, Mate Alignment start (10000344) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 100, Read name 20FUKAAXX100202:4:5:13072:190773, Mate Alignment start (9999748) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 100, Read name 20FUKAAXX100202:4:5:13072:190773, Mate Alignment start (9999748) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 101, Read name 20FUKAAXX100202:8:63:5291:16081, Mate Alignment start (9999671) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 101, Read name 20FUKAAXX100202:8:63:5291:16081, Mate Alignment start (9999671) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 102, Read name 20GAVAAXX100126:5:48:11843:159383, Mate Alignment start (9999699) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 102, Read name 20GAVAAXX100126:5:48:11843:159383, Mate Alignment start (9999699) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 103, Read name 20GAVAAXX100126:6:21:4070:89543, Mate Alignment start (9999671) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 103, Read name 20GAVAAXX100126:6:21:4070:89543, Mate Alignment start (9999671) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 104, Read name 20GAVAAXX100126:7:44:7446:1891, Mate Alignment start (9999669) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 104, Read name 20GAVAAXX100126:7:44:7446:1891, Mate Alignment start (9999669) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 105, Read name 20FUKAAXX100202:6:67:17100:172461, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 105, Read name 20FUKAAXX100202:6:67:17100:172461, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 106, Read name 20GAVAAXX100126:6:64:2441:17495, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 106, Read name 20GAVAAXX100126:6:64:2441:17495, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 107, Read name 20FUKAAXX100202:1:5:14642:152032, Mate Alignment start (10000246) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 107, Read name 20FUKAAXX100202:1:5:14642:152032, Mate Alignment start (10000246) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 108, Read name 20FUKAAXX100202:4:6:12695:123335, Mate Alignment start (10000333) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 108, Read name 20FUKAAXX100202:4:6:12695:123335, Mate Alignment start (10000333) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 109, Read name 20FUKAAXX100202:1:61:11336:198565, Mate Alignment start (9999704) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 109, Read name 20FUKAAXX100202:1:61:11336:198565, Mate Alignment start (9999704) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 110, Read name 20GAVAAXX100126:7:48:10601:51282, Mate Alignment start (9999727) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 110, Read name 20GAVAAXX100126:7:48:10601:51282, Mate Alignment start (9999727) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 111, Read name 20GAVAAXX100126:8:62:18437:38607, Mate Alignment start (9999701) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 111, Read name 20GAVAAXX100126:8:62:18437:38607, Mate Alignment start (9999701) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 112, Read name 20GAVAAXX100126:4:7:20111:148814, Mate Alignment start (10000281) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 112, Read name 20GAVAAXX100126:4:7:20111:148814, Mate Alignment start (10000281) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 113, Read name 20FUKAAXX100202:8:43:12077:86650, Mate Alignment start (9999682) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 113, Read name 20FUKAAXX100202:8:43:12077:86650, Mate Alignment start (9999682) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 114, Read name 20GAVAAXX100126:5:25:17399:72164, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 114, Read name 20GAVAAXX100126:5:25:17399:72164, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 117, Read name 20FUKAAXX100202:3:48:16538:10482, Mate Alignment start (10000457) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 117, Read name 20FUKAAXX100202:3:48:16538:10482, Mate Alignment start (10000457) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 118, Read name 20GAVAAXX100126:7:46:11904:195602, Mate Alignment start (10000293) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 118, Read name 20GAVAAXX100126:7:46:11904:195602, Mate Alignment start (10000293) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 121, Read name 20GAVAAXX100126:4:21:14134:132604, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 121, Read name 20GAVAAXX100126:4:21:14134:132604, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 122, Read name 20FUKAAXX100202:5:47:2763:24217, Mate Alignment start (9999701) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 122, Read name 20FUKAAXX100202:5:47:2763:24217, Mate Alignment start (9999701) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 123, Read name 20GAVAAXX100126:8:21:2096:123816, Mate Alignment start (9999768) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 123, Read name 20GAVAAXX100126:8:21:2096:123816, Mate Alignment start (9999768) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 126, Read name 20FUKAAXX100202:4:23:7470:195860, Mate Alignment start (10000353) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 126, Read name 20FUKAAXX100202:4:23:7470:195860, Mate Alignment start (10000353) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 127, Read name 20GAVAAXX100126:5:5:9475:54882, Mate Alignment start (10000264) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 127, Read name 20GAVAAXX100126:5:5:9475:54882, Mate Alignment start (10000264) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 128, Read name 20GAVAAXX100126:6:68:9971:99340, Mate Alignment start (10000372) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 128, Read name 20GAVAAXX100126:6:68:9971:99340, Mate Alignment start (10000372) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 129, Read name 20GAVAAXX100126:8:4:2514:172766, Mate Alignment start (9999751) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 129, Read name 20GAVAAXX100126:8:4:2514:172766, Mate Alignment start (9999751) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 130, Read name 20FUKAAXX100202:8:45:1989:15113, Mate Alignment start (10000303) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 130, Read name 20FUKAAXX100202:8:45:1989:15113, Mate Alignment start (10000303) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 131, Read name 20FUKAAXX100202:5:43:9081:11499, Mate Alignment start (9999706) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 131, Read name 20FUKAAXX100202:5:43:9081:11499, Mate Alignment start (9999706) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 132, Read name 20GAVAAXX100126:6:2:3042:60022, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 132, Read name 20GAVAAXX100126:6:2:3042:60022, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 133, Read name 20FUKAAXX100202:1:25:16659:142466, Mate Alignment start (9999713) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 133, Read name 20FUKAAXX100202:1:25:16659:142466, Mate Alignment start (9999713) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 134, Read name 20GAVAAXX100126:7:47:6583:18921, Mate Alignment start (9999712) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 134, Read name 20GAVAAXX100126:7:47:6583:18921, Mate Alignment start (9999712) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 135, Read name 20FUKAAXX100202:8:25:6061:158813, Mate Alignment start (9999688) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 135, Read name 20FUKAAXX100202:8:25:6061:158813, Mate Alignment start (9999688) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 136, Read name 20GAVAAXX100126:8:65:19600:82097, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 136, Read name 20GAVAAXX100126:8:65:19600:82097, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 137, Read name 20GAVAAXX100126:8:65:19610:82077, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 137, Read name 20GAVAAXX100126:8:65:19610:82077, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 138, Read name 20FUKAAXX100202:2:22:8993:175344, Mate Alignment start (9999717) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 138, Read name 20FUKAAXX100202:2:22:8993:175344, Mate Alignment start (9999717) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 139, Read name 20GAVAAXX100126:1:21:7801:54762, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 139, Read name 20GAVAAXX100126:1:21:7801:54762, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 140, Read name 20GAVAAXX100126:4:1:13342:97110, Mate Alignment start (9999743) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 140, Read name 20GAVAAXX100126:4:1:13342:97110, Mate Alignment start (9999743) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 141, Read name 20FUKAAXX100202:3:2:9552:27284, Mate Alignment start (9999718) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 141, Read name 20FUKAAXX100202:3:2:9552:27284, Mate Alignment start (9999718) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 142, Read name 20FUKAAXX100202:4:3:6934:181831, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 142, Read name 20FUKAAXX100202:4:3:6934:181831, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 143, Read name 20GAVAAXX100126:8:7:2115:102977, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 143, Read name 20GAVAAXX100126:8:7:2115:102977, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 144, Read name 20FUKAAXX100202:5:45:17899:193943, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 144, Read name 20FUKAAXX100202:5:45:17899:193943, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 145, Read name 20FUKAAXX100202:7:24:21385:130712, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 145, Read name 20FUKAAXX100202:7:24:21385:130712, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 146, Read name 20FUKAAXX100202:7:2:15287:105342, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 146, Read name 20FUKAAXX100202:7:2:15287:105342, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 147, Read name 20FUKAAXX100202:2:61:15800:106937, Mate Alignment start (9999698) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 147, Read name 20FUKAAXX100202:2:61:15800:106937, Mate Alignment start (9999698) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 148, Read name 20GAVAAXX100126:8:41:3599:9555, Mate Alignment start (9999698) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 148, Read name 20GAVAAXX100126:8:41:3599:9555, Mate Alignment start (9999698) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 149, Read name 20FUKAAXX100202:1:44:3588:13144, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 149, Read name 20FUKAAXX100202:1:44:3588:13144, Mate Alignment start (10000326) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 150, Read name 20GAVAAXX100126:2:8:6126:168407, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 150, Read name 20GAVAAXX100126:2:8:6126:168407, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 151, Read name 20GAVAAXX100126:2:8:6143:168418, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 151, Read name 20GAVAAXX100126:2:8:6143:168418, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 152, Read name 20FUKAAXX100202:3:28:12160:117165, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 152, Read name 20FUKAAXX100202:3:28:12160:117165, Mate Alignment start (9999722) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 153, Read name 20GAVAAXX100126:4:45:8053:140082, Mate Alignment start (9999604) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 153, Read name 20GAVAAXX100126:4:45:8053:140082, Mate Alignment start (9999604) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 154, Read name 20GAVAAXX100126:6:28:11134:174564, Mate Alignment start (9999697) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 154, Read name 20GAVAAXX100126:6:28:11134:174564, Mate Alignment start (9999697) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 155, Read name 20GAVAAXX100126:6:28:11146:174578, Mate Alignment start (9999697) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 155, Read name 20GAVAAXX100126:6:28:11146:174578, Mate Alignment start (9999697) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 156, Read name 20FUKAAXX100202:8:2:10382:194128, Mate Alignment start (10000347) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 156, Read name 20FUKAAXX100202:8:2:10382:194128, Mate Alignment start (10000347) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 157, Read name 20FUKAAXX100202:3:61:14021:185070, Mate Alignment start (9999731) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 157, Read name 20FUKAAXX100202:3:61:14021:185070, Mate Alignment start (9999731) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 158, Read name 20FUKAAXX100202:5:62:19690:9570, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 158, Read name 20FUKAAXX100202:5:62:19690:9570, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 159, Read name 20GAVAAXX100126:1:63:20142:132241, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 159, Read name 20GAVAAXX100126:1:63:20142:132241, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 160, Read name 20GAVAAXX100126:5:5:16399:184379, Mate Alignment start (9999725) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 160, Read name 20GAVAAXX100126:5:5:16399:184379, Mate Alignment start (9999725) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 161, Read name 20GAVAAXX100126:2:8:11075:186130, Mate Alignment start (10000336) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 161, Read name 20GAVAAXX100126:2:8:11075:186130, Mate Alignment start (10000336) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 162, Read name 20FUKAAXX100202:3:64:18891:180836, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 162, Read name 20FUKAAXX100202:3:64:18891:180836, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 163, Read name 20GAVAAXX100126:6:41:1651:77368, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 163, Read name 20GAVAAXX100126:6:41:1651:77368, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 164, Read name 20FUKAAXX100202:4:24:12641:3924, Mate Alignment start (9999704) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 164, Read name 20FUKAAXX100202:4:24:12641:3924, Mate Alignment start (9999704) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 165, Read name 20GAVAAXX100126:1:67:21027:67363, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 165, Read name 20GAVAAXX100126:1:67:21027:67363, Mate Alignment start (9999730) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 166, Read name 20GAVAAXX100126:6:23:2944:66430, Mate Alignment start (9999718) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 166, Read name 20GAVAAXX100126:6:23:2944:66430, Mate Alignment start (9999718) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 167, Read name 20FUKAAXX100202:5:27:9785:178062, Mate Alignment start (10000338) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 167, Read name 20FUKAAXX100202:5:27:9785:178062, Mate Alignment start (10000338) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 168, Read name 20FUKAAXX100202:7:25:3261:114933, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 168, Read name 20FUKAAXX100202:7:25:3261:114933, Mate Alignment start (9999772) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 169, Read name 20FUKAAXX100202:7:68:14596:106064, Mate Alignment start (9999731) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 169, Read name 20FUKAAXX100202:7:68:14596:106064, Mate Alignment start (9999731) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 170, Read name 20GAVAAXX100126:3:27:20408:42852, Mate Alignment start (9999751) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 170, Read name 20GAVAAXX100126:3:27:20408:42852, Mate Alignment start (9999751) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 171, Read name 20GAVAAXX100126:5:27:19872:165078, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 171, Read name 20GAVAAXX100126:5:27:19872:165078, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 172, Read name 20GAVAAXX100126:8:46:5544:82405, Mate Alignment start (9999696) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 172, Read name 20GAVAAXX100126:8:46:5544:82405, Mate Alignment start (9999696) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 173, Read name 20FUKAAXX100202:6:5:13733:127380, Mate Alignment start (10000378) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 173, Read name 20FUKAAXX100202:6:5:13733:127380, Mate Alignment start (10000378) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 174, Read name 20FUKAAXX100202:6:61:9436:123634, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 174, Read name 20FUKAAXX100202:6:61:9436:123634, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 175, Read name 20FUKAAXX100202:1:4:6802:198636, Mate Alignment start (9999734) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 175, Read name 20FUKAAXX100202:1:4:6802:198636, Mate Alignment start (9999734) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 176, Read name 20FUKAAXX100202:3:61:2345:190213, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 176, Read name 20FUKAAXX100202:3:61:2345:190213, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 177, Read name 20FUKAAXX100202:7:66:18422:38530, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 177, Read name 20FUKAAXX100202:7:66:18422:38530, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 178, Read name 20FUKAAXX100202:1:1:11716:63554, Mate Alignment start (10000217) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 178, Read name 20FUKAAXX100202:1:1:11716:63554, Mate Alignment start (10000217) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 179, Read name 20FUKAAXX100202:7:2:20791:62084, Mate Alignment start (10000415) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 179, Read name 20FUKAAXX100202:7:2:20791:62084, Mate Alignment start (10000415) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 180, Read name 20FUKAAXX100202:8:7:11983:56692, Mate Alignment start (10000329) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 180, Read name 20FUKAAXX100202:8:7:11983:56692, Mate Alignment start (10000329) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 181, Read name 20GAVAAXX100126:4:62:3221:106888, Mate Alignment start (9999712) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 181, Read name 20GAVAAXX100126:4:62:3221:106888, Mate Alignment start (9999712) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 182, Read name 20GAVAAXX100126:4:8:17348:119983, Mate Alignment start (9999711) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 182, Read name 20GAVAAXX100126:4:8:17348:119983, Mate Alignment start (9999711) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 183, Read name 20FUKAAXX100202:4:5:8921:109860, Mate Alignment start (10000352) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 183, Read name 20FUKAAXX100202:4:5:8921:109860, Mate Alignment start (10000352) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 184, Read name 20FUKAAXX100202:3:61:5334:12201, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 184, Read name 20FUKAAXX100202:3:61:5334:12201, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 185, Read name 20FUKAAXX100202:6:25:20343:31574, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 185, Read name 20FUKAAXX100202:6:25:20343:31574, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 186, Read name 20FUKAAXX100202:6:25:20360:31581, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 186, Read name 20FUKAAXX100202:6:25:20360:31581, Mate Alignment start (9999767) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 187, Read name 20GAVAAXX100126:3:7:12571:28928, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 187, Read name 20GAVAAXX100126:3:7:12571:28928, Mate Alignment start (9999729) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 188, Read name 20GAVAAXX100126:7:45:8702:45252, Mate Alignment start (10000303) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 188, Read name 20GAVAAXX100126:7:45:8702:45252, Mate Alignment start (10000303) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 189, Read name 20FUKAAXX100202:4:26:8462:86912, Mate Alignment start (10000373) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 189, Read name 20FUKAAXX100202:4:26:8462:86912, Mate Alignment start (10000373) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 190, Read name 20GAVAAXX100126:8:45:6375:103133, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 190, Read name 20GAVAAXX100126:8:45:6375:103133, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 191, Read name 20FUKAAXX100202:4:23:21082:72960, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 191, Read name 20FUKAAXX100202:4:23:21082:72960, Mate Alignment start (9999741) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 192, Read name 20FUKAAXX100202:4:5:5992:35455, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 192, Read name 20FUKAAXX100202:4:5:5992:35455, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 193, Read name 20GAVAAXX100126:6:4:12978:135278, Mate Alignment start (10000348) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 193, Read name 20GAVAAXX100126:6:4:12978:135278, Mate Alignment start (10000348) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 194, Read name 20GAVAAXX100126:2:5:1838:180237, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 194, Read name 20GAVAAXX100126:2:5:1838:180237, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 195, Read name 20GAVAAXX100126:7:63:11003:164288, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 195, Read name 20GAVAAXX100126:7:63:11003:164288, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 196, Read name 20FUKAAXX100202:3:48:15406:75661, Mate Alignment start (10000347) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 196, Read name 20FUKAAXX100202:3:48:15406:75661, Mate Alignment start (10000347) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 197, Read name 20GAVAAXX100126:8:65:18514:117061, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 197, Read name 20GAVAAXX100126:8:65:18514:117061, Mate Alignment start (9999703) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 200, Read name 20FUKAAXX100202:4:46:4678:167193, Mate Alignment start (9999725) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 200, Read name 20FUKAAXX100202:4:46:4678:167193, Mate Alignment start (9999725) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 201, Read name 20GAVAAXX100126:4:27:15355:60703, Mate Alignment start (9999746) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 201, Read name 20GAVAAXX100126:4:27:15355:60703, Mate Alignment start (9999746) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 202, Read name 20FUKAAXX100202:4:63:3107:142967, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 202, Read name 20FUKAAXX100202:4:63:3107:142967, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 203, Read name 20GAVAAXX100126:1:46:17524:10808, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 203, Read name 20GAVAAXX100126:1:46:17524:10808, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 204, Read name 20GAVAAXX100126:2:45:9532:172440, Mate Alignment start (10000366) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 204, Read name 20GAVAAXX100126:2:45:9532:172440, Mate Alignment start (10000366) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 205, Read name 20FUKAAXX100202:4:43:4771:2441, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 205, Read name 20FUKAAXX100202:4:43:4771:2441, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 206, Read name 20FUKAAXX100202:1:23:16512:3262, Mate Alignment start (9999728) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 206, Read name 20FUKAAXX100202:1:23:16512:3262, Mate Alignment start (9999728) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 207, Read name 20GAVAAXX100126:6:66:6108:99558, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 207, Read name 20GAVAAXX100126:6:66:6108:99558, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 208, Read name 20FUKAAXX100202:3:23:19248:42689, Mate Alignment start (10000341) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 208, Read name 20FUKAAXX100202:3:23:19248:42689, Mate Alignment start (10000341) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 209, Read name 20FUKAAXX100202:4:67:19946:84115, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 209, Read name 20FUKAAXX100202:4:67:19946:84115, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 210, Read name 20FUKAAXX100202:4:67:19957:84130, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 210, Read name 20FUKAAXX100202:4:67:19957:84130, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 211, Read name 20GAVAAXX100126:8:46:6721:107141, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 211, Read name 20GAVAAXX100126:8:46:6721:107141, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 212, Read name 20FUKAAXX100202:2:44:11476:56122, Mate Alignment start (10000402) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 212, Read name 20FUKAAXX100202:2:44:11476:56122, Mate Alignment start (10000402) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 213, Read name 20FUKAAXX100202:2:62:3370:172539, Mate Alignment start (10000406) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 213, Read name 20FUKAAXX100202:2:62:3370:172539, Mate Alignment start (10000406) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 214, Read name 20FUKAAXX100202:5:27:20510:84577, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 214, Read name 20FUKAAXX100202:5:27:20510:84577, Mate Alignment start (9999762) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 215, Read name 20FUKAAXX100202:5:43:10418:69609, Mate Alignment start (10000351) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 215, Read name 20FUKAAXX100202:5:43:10418:69609, Mate Alignment start (10000351) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 216, Read name 20FUKAAXX100202:8:22:10804:10935, Mate Alignment start (10000400) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 216, Read name 20FUKAAXX100202:8:22:10804:10935, Mate Alignment start (10000400) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 217, Read name 20FUKAAXX100202:8:28:12970:89358, Mate Alignment start (10000394) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 217, Read name 20FUKAAXX100202:8:28:12970:89358, Mate Alignment start (10000394) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 218, Read name 20GAVAAXX100126:1:3:9885:16197, Mate Alignment start (10000221) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 218, Read name 20GAVAAXX100126:1:3:9885:16197, Mate Alignment start (10000221) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 219, Read name 20GAVAAXX100126:5:41:2927:129979, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 219, Read name 20GAVAAXX100126:5:41:2927:129979, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 220, Read name 20FUKAAXX100202:6:3:13871:76745, Mate Alignment start (9999759) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 220, Read name 20FUKAAXX100202:6:3:13871:76745, Mate Alignment start (9999759) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 221, Read name 20GAVAAXX100126:8:8:9677:53860, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 221, Read name 20GAVAAXX100126:8:8:9677:53860, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 222, Read name 20GAVAAXX100126:2:7:6406:190923, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 222, Read name 20GAVAAXX100126:2:7:6406:190923, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 225, Read name 20GAVAAXX100126:5:45:7084:89817, Mate Alignment start (9999773) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 225, Read name 20GAVAAXX100126:5:45:7084:89817, Mate Alignment start (9999773) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 226, Read name 20FUKAAXX100202:2:8:8921:13714, Mate Alignment start (9999637) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 226, Read name 20FUKAAXX100202:2:8:8921:13714, Mate Alignment start (9999637) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 227, Read name 20FUKAAXX100202:3:25:5393:174013, Mate Alignment start (9999699) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 227, Read name 20FUKAAXX100202:3:25:5393:174013, Mate Alignment start (9999699) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 228, Read name 20GAVAAXX100126:4:61:19483:178175, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 228, Read name 20GAVAAXX100126:4:61:19483:178175, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 229, Read name 20FUKAAXX100202:6:61:13597:167016, Mate Alignment start (9999733) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 229, Read name 20FUKAAXX100202:6:61:13597:167016, Mate Alignment start (9999733) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 230, Read name 20GAVAAXX100126:2:46:9819:189801, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 230, Read name 20GAVAAXX100126:2:46:9819:189801, Mate Alignment start (9999723) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 231, Read name 20GAVAAXX100126:1:47:11960:43085, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 231, Read name 20GAVAAXX100126:1:47:11960:43085, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 232, Read name 20FUKAAXX100202:8:61:8547:37887, Mate Alignment start (10000431) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 232, Read name 20FUKAAXX100202:8:61:8547:37887, Mate Alignment start (10000431) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 233, Read name 20GAVAAXX100126:1:64:13278:136055, Mate Alignment start (10000387) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 233, Read name 20GAVAAXX100126:1:64:13278:136055, Mate Alignment start (10000387) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 234, Read name 20GAVAAXX100126:8:8:10069:1815, Mate Alignment start (10000360) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 234, Read name 20GAVAAXX100126:8:8:10069:1815, Mate Alignment start (10000360) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 235, Read name 20FUKAAXX100202:6:43:12464:95867, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 235, Read name 20FUKAAXX100202:6:43:12464:95867, Mate Alignment start (9999715) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 236, Read name 20GAVAAXX100126:8:4:3360:104730, Mate Alignment start (9999724) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 236, Read name 20GAVAAXX100126:8:4:3360:104730, Mate Alignment start (9999724) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 237, Read name 20GAVAAXX100126:7:23:5527:173596, Mate Alignment start (10000333) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 237, Read name 20GAVAAXX100126:7:23:5527:173596, Mate Alignment start (10000333) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 238, Read name 20FUKAAXX100202:3:63:15601:87681, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 238, Read name 20FUKAAXX100202:3:63:15601:87681, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 239, Read name 20GAVAAXX100126:8:7:19780:99577, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 239, Read name 20GAVAAXX100126:8:7:19780:99577, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 240, Read name 20FUKAAXX100202:7:64:11274:28663, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 240, Read name 20FUKAAXX100202:7:64:11274:28663, Mate Alignment start (10000350) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 241, Read name 20FUKAAXX100202:5:46:7034:130269, Mate Alignment start (9999775) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 241, Read name 20FUKAAXX100202:5:46:7034:130269, Mate Alignment start (9999775) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 242, Read name 20FUKAAXX100202:6:42:13864:97949, Mate Alignment start (9999770) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 242, Read name 20FUKAAXX100202:6:42:13864:97949, Mate Alignment start (9999770) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 243, Read name 20FUKAAXX100202:7:63:12812:59167, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 243, Read name 20FUKAAXX100202:7:63:12812:59167, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 244, Read name 20FUKAAXX100202:3:42:10889:9286, Mate Alignment start (9999781) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 244, Read name 20FUKAAXX100202:3:42:10889:9286, Mate Alignment start (9999781) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 245, Read name 20FUKAAXX100202:7:44:10464:154941, Mate Alignment start (9999777) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 245, Read name 20FUKAAXX100202:7:44:10464:154941, Mate Alignment start (9999777) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 246, Read name 20GAVAAXX100126:2:62:9149:111864, Mate Alignment start (10000382) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 246, Read name 20GAVAAXX100126:2:62:9149:111864, Mate Alignment start (10000382) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 247, Read name 20GAVAAXX100126:3:6:21157:147419, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 247, Read name 20GAVAAXX100126:3:6:21157:147419, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 248, Read name 20FUKAAXX100202:2:6:7367:104244, Mate Alignment start (10000408) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 248, Read name 20FUKAAXX100202:2:6:7367:104244, Mate Alignment start (10000408) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 249, Read name 20GAVAAXX100126:8:23:12150:79883, Mate Alignment start (10000363) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 249, Read name 20GAVAAXX100126:8:23:12150:79883, Mate Alignment start (10000363) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 250, Read name 20GAVAAXX100126:2:66:8843:33721, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 250, Read name 20GAVAAXX100126:2:66:8843:33721, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 251, Read name 20GAVAAXX100126:2:66:8848:33740, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 251, Read name 20GAVAAXX100126:2:66:8848:33740, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 252, Read name 20GAVAAXX100126:2:66:8861:33717, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 252, Read name 20GAVAAXX100126:2:66:8861:33717, Mate Alignment start (10000388) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 253, Read name 20FUKAAXX100202:6:24:9789:119768, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 253, Read name 20FUKAAXX100202:6:24:9789:119768, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 254, Read name 20GAVAAXX100126:4:48:13006:180541, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 254, Read name 20GAVAAXX100126:4:48:13006:180541, Mate Alignment start (9999739) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 255, Read name 20FUKAAXX100202:4:61:14645:192554, Mate Alignment start (10000352) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 255, Read name 20FUKAAXX100202:4:61:14645:192554, Mate Alignment start (10000352) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 256, Read name 20GAVAAXX100126:2:27:18806:87123, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 256, Read name 20GAVAAXX100126:2:27:18806:87123, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 257, Read name 20GAVAAXX100126:2:66:8554:80197, Mate Alignment start (9999742) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 257, Read name 20GAVAAXX100126:2:66:8554:80197, Mate Alignment start (9999742) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 258, Read name 20FUKAAXX100202:5:44:18607:97922, Mate Alignment start (10000375) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 258, Read name 20FUKAAXX100202:5:44:18607:97922, Mate Alignment start (10000375) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 259, Read name 20FUKAAXX100202:6:7:20029:86575, Mate Alignment start (9999724) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 259, Read name 20FUKAAXX100202:6:7:20029:86575, Mate Alignment start (9999724) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 262, Read name 20GAVAAXX100126:7:28:19343:119692, Mate Alignment start (10000324) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 262, Read name 20GAVAAXX100126:7:28:19343:119692, Mate Alignment start (10000324) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 263, Read name 20GAVAAXX100126:8:3:19154:172785, Mate Alignment start (10000444) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 263, Read name 20GAVAAXX100126:8:3:19154:172785, Mate Alignment start (10000444) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 264, Read name 20FUKAAXX100202:4:2:11323:157919, Mate Alignment start (9999727) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 264, Read name 20FUKAAXX100202:4:2:11323:157919, Mate Alignment start (9999727) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 265, Read name 20FUKAAXX100202:4:24:20755:63383, Mate Alignment start (10000420) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 265, Read name 20FUKAAXX100202:4:24:20755:63383, Mate Alignment start (10000420) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 266, Read name 20GAVAAXX100126:6:41:12737:140458, Mate Alignment start (10000391) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 266, Read name 20GAVAAXX100126:6:41:12737:140458, Mate Alignment start (10000391) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 267, Read name 20FUKAAXX100202:1:41:8855:77865, Mate Alignment start (10000406) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 267, Read name 20FUKAAXX100202:1:41:8855:77865, Mate Alignment start (10000406) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 268, Read name 20FUKAAXX100202:2:7:20289:162172, Mate Alignment start (10000401) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 268, Read name 20FUKAAXX100202:2:7:20289:162172, Mate Alignment start (10000401) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 269, Read name 20FUKAAXX100202:3:5:15184:151247, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 269, Read name 20FUKAAXX100202:3:5:15184:151247, Mate Alignment start (10000349) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 270, Read name 20GAVAAXX100126:5:8:18245:6953, Mate Alignment start (10000327) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 270, Read name 20GAVAAXX100126:5:8:18245:6953, Mate Alignment start (10000327) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 271, Read name 20FUKAAXX100202:3:24:9989:45675, Mate Alignment start (9999781) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 271, Read name 20FUKAAXX100202:3:24:9989:45675, Mate Alignment start (9999781) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 272, Read name 20FUKAAXX100202:3:25:21206:43648, Mate Alignment start (9999754) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 272, Read name 20FUKAAXX100202:3:25:21206:43648, Mate Alignment start (9999754) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 273, Read name 20GAVAAXX100126:8:7:10416:22501, Mate Alignment start (9999744) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 273, Read name 20GAVAAXX100126:8:7:10416:22501, Mate Alignment start (9999744) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 274, Read name 20GAVAAXX100126:8:7:10417:22480, Mate Alignment start (9999744) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 274, Read name 20GAVAAXX100126:8:7:10417:22480, Mate Alignment start (9999744) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 275, Read name 20FUKAAXX100202:2:23:12195:137492, Mate Alignment start (10000417) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 275, Read name 20FUKAAXX100202:2:23:12195:137492, Mate Alignment start (10000417) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 276, Read name 20FUKAAXX100202:2:68:14803:9019, Mate Alignment start (10000435) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 276, Read name 20FUKAAXX100202:2:68:14803:9019, Mate Alignment start (10000435) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 277, Read name 20FUKAAXX100202:2:68:1649:5921, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 277, Read name 20FUKAAXX100202:2:68:1649:5921, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 278, Read name 20GAVAAXX100126:6:67:14138:53447, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 278, Read name 20GAVAAXX100126:6:67:14138:53447, Mate Alignment start (10000369) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 279, Read name 20GAVAAXX100126:6:27:17917:125886, Mate Alignment start (10000392) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 279, Read name 20GAVAAXX100126:6:27:17917:125886, Mate Alignment start (10000392) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 280, Read name 20GAVAAXX100126:6:27:17919:125864, Mate Alignment start (10000392) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 280, Read name 20GAVAAXX100126:6:27:17919:125864, Mate Alignment start (10000392) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 281, Read name 20GAVAAXX100126:4:23:11820:142520, Mate Alignment start (9999792) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 281, Read name 20GAVAAXX100126:4:23:11820:142520, Mate Alignment start (9999792) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 282, Read name 20FUKAAXX100202:3:22:1789:82621, Mate Alignment start (10000372) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 282, Read name 20FUKAAXX100202:3:22:1789:82621, Mate Alignment start (10000372) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 283, Read name 20GAVAAXX100126:6:21:6652:178712, Mate Alignment start (10000425) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 283, Read name 20GAVAAXX100126:6:21:6652:178712, Mate Alignment start (10000425) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 284, Read name 20FUKAAXX100202:4:43:6140:91204, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 284, Read name 20FUKAAXX100202:4:43:6140:91204, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 285, Read name 20FUKAAXX100202:4:43:6159:91203, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 285, Read name 20FUKAAXX100202:4:43:6159:91203, Mate Alignment start (9999747) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 288, Read name 20GAVAAXX100126:4:28:9009:173490, Mate Alignment start (10000424) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 288, Read name 20GAVAAXX100126:4:28:9009:173490, Mate Alignment start (10000424) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 289, Read name 20FUKAAXX100202:8:45:1884:47673, Mate Alignment start (9999784) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 289, Read name 20FUKAAXX100202:8:45:1884:47673, Mate Alignment start (9999784) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 290, Read name 20FUKAAXX100202:8:45:1902:47680, Mate Alignment start (9999784) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 290, Read name 20FUKAAXX100202:8:45:1902:47680, Mate Alignment start (9999784) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 293, Read name 20FUKAAXX100202:5:26:19959:88445, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 293, Read name 20FUKAAXX100202:5:26:19959:88445, Mate Alignment start (9999764) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 294, Read name 20FUKAAXX100202:6:26:12485:190127, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 294, Read name 20FUKAAXX100202:6:26:12485:190127, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 295, Read name 20FUKAAXX100202:6:26:12497:190143, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 295, Read name 20FUKAAXX100202:6:26:12497:190143, Mate Alignment start (9999750) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 296, Read name 20FUKAAXX100202:7:67:18360:176157, Mate Alignment start (10000361) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 296, Read name 20FUKAAXX100202:7:67:18360:176157, Mate Alignment start (10000361) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 297, Read name 20GAVAAXX100126:3:7:6468:165793, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 297, Read name 20GAVAAXX100126:3:7:6468:165793, Mate Alignment start (10000368) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 298, Read name 20FUKAAXX100202:3:63:14607:69414, Mate Alignment start (10000374) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 298, Read name 20FUKAAXX100202:3:63:14607:69414, Mate Alignment start (10000374) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 299, Read name 20FUKAAXX100202:4:66:18078:75058, Mate Alignment start (10000422) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 299, Read name 20FUKAAXX100202:4:66:18078:75058, Mate Alignment start (10000422) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 300, Read name 20FUKAAXX100202:4:66:18086:75040, Mate Alignment start (10000422) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 300, Read name 20FUKAAXX100202:4:66:18086:75040, Mate Alignment start (10000422) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 301, Read name 20GAVAAXX100126:6:62:12722:64586, Mate Alignment start (10000424) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 301, Read name 20GAVAAXX100126:6:62:12722:64586, Mate Alignment start (10000424) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 304, Read name 20FUKAAXX100202:2:65:8299:177086, Mate Alignment start (10000414) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 304, Read name 20FUKAAXX100202:2:65:8299:177086, Mate Alignment start (10000414) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 305, Read name 20FUKAAXX100202:5:1:12372:198214, Mate Alignment start (10000442) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 305, Read name 20FUKAAXX100202:5:1:12372:198214, Mate Alignment start (10000442) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 306, Read name 20GAVAAXX100126:7:44:13710:11047, Mate Alignment start (10000383) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 306, Read name 20GAVAAXX100126:7:44:13710:11047, Mate Alignment start (10000383) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 309, Read name 20FUKAAXX100202:6:27:15343:160627, Mate Alignment start (9999796) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 309, Read name 20FUKAAXX100202:6:27:15343:160627, Mate Alignment start (9999796) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 310, Read name 20FUKAAXX100202:8:21:1790:48091, Mate Alignment start (9999943) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 310, Read name 20FUKAAXX100202:8:21:1790:48091, Mate Alignment start (9999943) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 311, Read name 20GAVAAXX100126:4:67:14214:45473, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 311, Read name 20GAVAAXX100126:4:67:14214:45473, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 312, Read name 20GAVAAXX100126:7:45:7524:110161, Mate Alignment start (9999815) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 312, Read name 20GAVAAXX100126:7:45:7524:110161, Mate Alignment start (9999815) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 313, Read name 20GAVAAXX100126:5:27:11481:127142, Mate Alignment start (10000390) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 313, Read name 20GAVAAXX100126:5:27:11481:127142, Mate Alignment start (10000390) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 314, Read name 20GAVAAXX100126:6:41:19998:100609, Mate Alignment start (10000440) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 314, Read name 20GAVAAXX100126:6:41:19998:100609, Mate Alignment start (10000440) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 315, Read name 20GAVAAXX100126:2:41:5807:152808, Mate Alignment start (10000365) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 315, Read name 20GAVAAXX100126:2:41:5807:152808, Mate Alignment start (10000365) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 316, Read name 20GAVAAXX100126:5:67:8769:184399, Mate Alignment start (10000413) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 316, Read name 20GAVAAXX100126:5:67:8769:184399, Mate Alignment start (10000413) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 317, Read name 20GAVAAXX100126:1:1:8996:5944, Mate Alignment start (9999798) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 317, Read name 20GAVAAXX100126:1:1:8996:5944, Mate Alignment start (9999798) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 318, Read name 20GAVAAXX100126:5:42:12694:142155, Mate Alignment start (10000420) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 318, Read name 20GAVAAXX100126:5:42:12694:142155, Mate Alignment start (10000420) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 319, Read name 20GAVAAXX100126:7:44:8840:83089, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 319, Read name 20GAVAAXX100126:7:44:8840:83089, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 320, Read name 20FUKAAXX100202:7:26:12026:80165, Mate Alignment start (10000385) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 320, Read name 20FUKAAXX100202:7:26:12026:80165, Mate Alignment start (10000385) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 321, Read name 20GAVAAXX100126:1:4:21009:20022, Mate Alignment start (10000385) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 321, Read name 20GAVAAXX100126:1:4:21009:20022, Mate Alignment start (10000385) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 322, Read name 20FUKAAXX100202:2:68:3792:94879, Mate Alignment start (10000432) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 322, Read name 20FUKAAXX100202:2:68:3792:94879, Mate Alignment start (10000432) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 323, Read name 20GAVAAXX100126:8:25:12361:154123, Mate Alignment start (9999756) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 323, Read name 20GAVAAXX100126:8:25:12361:154123, Mate Alignment start (9999756) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 324, Read name 20GAVAAXX100126:8:25:12382:154125, Mate Alignment start (9999756) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 324, Read name 20GAVAAXX100126:8:25:12382:154125, Mate Alignment start (9999756) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 325, Read name 20GAVAAXX100126:3:65:18493:115113, Mate Alignment start (10000436) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 325, Read name 20GAVAAXX100126:3:65:18493:115113, Mate Alignment start (10000436) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 326, Read name 20FUKAAXX100202:7:67:21244:6474, Mate Alignment start (10000458) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 326, Read name 20FUKAAXX100202:7:67:21244:6474, Mate Alignment start (10000458) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 327, Read name 20FUKAAXX100202:4:46:2349:67300, Mate Alignment start (9999771) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 327, Read name 20FUKAAXX100202:4:46:2349:67300, Mate Alignment start (9999771) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 328, Read name 20FUKAAXX100202:4:64:17702:39209, Mate Alignment start (9999785) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 328, Read name 20FUKAAXX100202:4:64:17702:39209, Mate Alignment start (9999785) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 329, Read name 20FUKAAXX100202:1:43:15726:132914, Mate Alignment start (10000377) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 329, Read name 20FUKAAXX100202:1:43:15726:132914, Mate Alignment start (10000377) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 330, Read name 20FUKAAXX100202:6:64:3811:167383, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 330, Read name 20FUKAAXX100202:6:64:3811:167383, Mate Alignment start (10000412) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 331, Read name 20FUKAAXX100202:8:27:7323:75566, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 331, Read name 20FUKAAXX100202:8:27:7323:75566, Mate Alignment start (10000393) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 332, Read name 20GAVAAXX100126:2:28:15360:131557, Mate Alignment start (10000418) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 332, Read name 20GAVAAXX100126:2:28:15360:131557, Mate Alignment start (10000418) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 333, Read name 20GAVAAXX100126:2:66:5383:81213, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 333, Read name 20GAVAAXX100126:2:66:5383:81213, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 334, Read name 20GAVAAXX100126:6:22:11440:95696, Mate Alignment start (9999766) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 334, Read name 20GAVAAXX100126:6:22:11440:95696, Mate Alignment start (9999766) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 335, Read name 20GAVAAXX100126:6:67:12425:123302, Mate Alignment start (9999799) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 335, Read name 20GAVAAXX100126:6:67:12425:123302, Mate Alignment start (9999799) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 336, Read name 20FUKAAXX100202:1:41:1662:13912, Mate Alignment start (10000331) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 336, Read name 20FUKAAXX100202:1:41:1662:13912, Mate Alignment start (10000331) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 337, Read name 20FUKAAXX100202:3:21:19677:162487, Mate Alignment start (10000332) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 337, Read name 20FUKAAXX100202:3:21:19677:162487, Mate Alignment start (10000332) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 340, Read name 20FUKAAXX100202:6:46:13213:95672, Mate Alignment start (10000321) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 340, Read name 20FUKAAXX100202:6:46:13213:95672, Mate Alignment start (10000321) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 341, Read name 20GAVAAXX100126:2:67:11830:144272, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 341, Read name 20GAVAAXX100126:2:67:11830:144272, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 342, Read name 20GAVAAXX100126:6:25:11700:156967, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 342, Read name 20GAVAAXX100126:6:25:11700:156967, Mate Alignment start (10000423) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 343, Read name 20GAVAAXX100126:8:2:1530:90452, Mate Alignment start (10000415) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 343, Read name 20GAVAAXX100126:8:2:1530:90452, Mate Alignment start (10000415) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 344, Read name 20FUKAAXX100202:1:41:15735:31577, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 344, Read name 20FUKAAXX100202:1:41:15735:31577, Mate Alignment start (9999745) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 345, Read name 20FUKAAXX100202:7:67:19743:72886, Mate Alignment start (10000397) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 345, Read name 20FUKAAXX100202:7:67:19743:72886, Mate Alignment start (10000397) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 346, Read name 20GAVAAXX100126:2:62:5242:113457, Mate Alignment start (10000452) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 346, Read name 20GAVAAXX100126:2:62:5242:113457, Mate Alignment start (10000452) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 347, Read name 20FUKAAXX100202:7:41:10114:15727, Mate Alignment start (9999528) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 347, Read name 20FUKAAXX100202:7:41:10114:15727, Mate Alignment start (9999528) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 348, Read name 20FUKAAXX100202:5:27:14631:113616, Mate Alignment start (10000394) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 348, Read name 20FUKAAXX100202:5:27:14631:113616, Mate Alignment start (10000394) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 349, Read name 20FUKAAXX100202:8:26:8051:103852, Mate Alignment start (10000399) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 349, Read name 20FUKAAXX100202:8:26:8051:103852, Mate Alignment start (10000399) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 350, Read name 20GAVAAXX100126:4:1:11639:105967, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 350, Read name 20GAVAAXX100126:4:1:11639:105967, Mate Alignment start (9999769) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 351, Read name 20GAVAAXX100126:8:6:11303:64367, Mate Alignment start (9999780) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 351, Read name 20GAVAAXX100126:8:6:11303:64367, Mate Alignment start (9999780) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 352, Read name 20GAVAAXX100126:8:6:11319:64357, Mate Alignment start (9999780) must be <= reference sequence length (200) on reference 21
    Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Record 352, Read name 20GAVAAXX100126:8:6:11319:64357, Mate Alignment start (9999780) must be <= reference sequence length (200) on reference 21

Gradle suite > Gradle test > htsjdk.samtools.util.CoordSpanInputSteamTest.test_3_ranges_byte_single_read STANDARD_ERROR
    Adding chunk: 0 - 100
    Adding chunk: 10 - 20
    Adding chunk: 100 - 200
    Adding chunk: 1048575 - 1048576

Gradle suite > Gradle test > htsjdk.samtools.util.CoordSpanInputSteamTest.test_first_3_bytes STANDARD_ERROR
    Adding chunk: 0 - 1
    Adding chunk: 1 - 2
    Adding chunk: 2 - 3

Gradle suite > Gradle test > htsjdk.samtools.util.CoordSpanInputSteamTest.test_range_read STANDARD_ERROR
    Adding chunk: 0 - 100
    Adding chunk: 10 - 20
    Adding chunk: 100 - 200
    Adding chunk: 1048575 - 1048576
    Adding chunk: 0 - 100
    Adding chunk: 10 - 20
    Adding chunk: 100 - 200
    Adding chunk: 1048575 - 1048576

Gradle suite > Gradle test > htsjdk.samtools.cram.build.CramIOTest.testCheckHeaderAndEOF SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.cram.build.CramIOTest.testRejectUnknownCRAMVersion SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.util.DiskBackedQueueTest STANDARD_ERROR
    Resetting tmpdir

Gradle suite > Gradle test STANDARD_ERROR
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir

Gradle suite > Gradle test > htsjdk.samtools.util.DiskBackedQueueTest.spillToDiskTest STANDARD_ERROR
    Could not delete file /tmp/builduser/DiskBackedQueueTest/diskbackedqueue.17201102422465982386.tmp

Gradle suite > Gradle test STANDARD_ERROR
    Resetting tmpdir

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testBuildFromFasta[0](src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testBuildFromFasta[1](src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testBuildFromFasta[2](src/test/resources/htsjdk/samtools/reference/header_with_white_space.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testBuildFromFasta[3](src/test/resources/htsjdk/samtools/reference/crlf.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testCreate[0](src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testCreate[1](src/test/resources/htsjdk/samtools/reference/Homo_sapiens_assembly18.trimmed.fasta.gz) STANDARD_ERROR
    WARNING	2021-11-28 12:05:00	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testCreate[2](src/test/resources/htsjdk/samtools/reference/header_with_white_space.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:01	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.samtools.reference.FastaSequenceIndexCreatorTest.testCreate[3](src/test/resources/htsjdk/samtools/reference/crlf.fasta) STANDARD_ERROR
    WARNING	2021-11-28 12:05:01	AsciiLineReader	Creating an indexable source for an AsciiFeatureCodec using a stream that is neither a PositionalBufferedStream nor a BlockCompressedInputStream

Gradle suite > Gradle test > htsjdk.tribble.gff.Gff3CodecTest.basicDecodeTest[2](src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3, 185) STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200

Gradle suite > Gradle test > htsjdk.tribble.gff.Gff3CodecTest.basicShallowDecodeTest[2](src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3, 185) STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200

Gradle suite > Gradle test > htsjdk.tribble.gff.Gff3CodecTest.testGZipped[2](src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3, src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3.gz) STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200

Gradle suite > Gradle test > htsjdk.tribble.gff.Gff3CodecTest.testGZippedShallow[2](src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3, src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3.gz) STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200

Gradle suite > Gradle test > htsjdk.tribble.gff.Gff3WriterTest.testRoundTrip[2](src/test/resources/htsjdk/tribble/gff/ref_ASM69900v1_top_level.small.gff3) STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200
    WARNING	2021-11-28 12:05:03	Gff3Codec	ignoring directive ##species http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=118200

Gradle suite > Gradle test > htsjdk.samtools.cram.encoding.core.GolombLongEncodingTest.testToString STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	ExperimentalEncoding	Using the experimental encoding htsjdk.samtools.cram.encoding.core.experimental.GolombLongEncoding which is untested and scheduled for removal from the CRAM spec

Gradle suite > Gradle test > htsjdk.samtools.cram.encoding.core.GolombRiceIntegerEncodingTest.testToString STANDARD_ERROR
    WARNING	2021-11-28 12:05:03	ExperimentalEncoding	Using the experimental encoding htsjdk.samtools.cram.encoding.core.experimental.GolombRiceIntegerEncoding which is untested and scheduled for removal from the CRAM spec
some stuff
Gradle suite > Gradle test > htsjdk.samtools.util.IOUtilTest.testDeleteSingleWithDeletePaths STANDARD_ERROR
    Could not delete file tmp
    Could not delete file file14167929421736781394.bad

Gradle suite > Gradle test > htsjdk.samtools.util.IntervalTreeTest.performanceTest STANDARD_OUT
    Time to construct a tree with 50000 nodes: 24 milliseconds
    Queried for the same 100-length mapping 17318207 times in 10 seconds.

Gradle suite > Gradle test > htsjdk.samtools.filter.JavascriptSamRecordFilterTest.testJavascriptFilters[0](unsorted.sam, samFilter01.js, 8) STANDARD_ERROR
    Warning: Nashorn engine is planned to be removed from a future JDK release

Gradle suite > Gradle test > htsjdk.samtools.filter.JavascriptSamRecordFilterTest.testJavascriptFilters[1](unsorted.sam, samFilter02.js, 10) STANDARD_ERROR
    Warning: Nashorn engine is planned to be removed from a future JDK release

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[0](chr3:50911035-50911051	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 16 < minMatchSize 16.15 (0.9411765 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[279](chr2:111013693-111013832	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 53 because intersection length 91 < minMatchSize 133.0 (0.65 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 310 because intersection length 49 < minMatchSize 133.0 (0.35 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[280](chr3:14174511-14175398	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 814 < minMatchSize 843.5999999999999 (0.9166667 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[281](chr3:50911035-50911051	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 16 < minMatchSize 16.15 (0.9411765 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[282](chr6:32071709-32071869	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 144 < minMatchSize 152.95 (0.89440995 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[283](chr6:32072183-32072358	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 160 < minMatchSize 167.2 (0.90909094 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[284](chr6:32104446-32104606	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 144 < minMatchSize 152.95 (0.89440995 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[285](chr6:32104920-32105095	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 160 < minMatchSize 167.2 (0.90909094 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[286](chr7:101995561-101995739	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 7 because intersection length 146 < minMatchSize 170.04999999999998 (0.8156425 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[288](chr7:142179850-142180013	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 31548103 because intersection length 8 < minMatchSize 155.79999999999998 (0.048780486 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 30171758 because intersection length 64 < minMatchSize 155.79999999999998 (0.3902439 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[292](chr15:19335778-19336302	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 16 because intersection length 414 < minMatchSize 498.75 (0.7885714 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[293](chr17:33364376-33364428	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 18 because intersection length 17 < minMatchSize 50.349999999999994 (0.3207547 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 363 because intersection length 36 < minMatchSize 50.349999999999994 (0.6792453 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[294](chr17:33546162-33546214	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 363 because intersection length 17 < minMatchSize 50.349999999999994 (0.3207547 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 1571 because intersection length 36 < minMatchSize 50.349999999999994 (0.6792453 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.loadLiftOverFromInputStream[295](chr17:33706667-33706736	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 18 because intersection length 53 < minMatchSize 66.5 (0.75714284 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[0](chr3:50911035-50911051	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 16 < minMatchSize 16.15 (0.9411765 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[279](chr2:111013693-111013832	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 53 because intersection length 91 < minMatchSize 133.0 (0.65 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 310 because intersection length 49 < minMatchSize 133.0 (0.35 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[280](chr3:14174511-14175398	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 814 < minMatchSize 843.5999999999999 (0.9166667 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[281](chr3:50911035-50911051	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 16 < minMatchSize 16.15 (0.9411765 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[282](chr6:32071709-32071869	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 144 < minMatchSize 152.95 (0.89440995 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[283](chr6:32072183-32072358	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 160 < minMatchSize 167.2 (0.90909094 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[284](chr6:32104446-32104606	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 144 < minMatchSize 152.95 (0.89440995 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[285](chr6:32104920-32105095	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 6 because intersection length 160 < minMatchSize 167.2 (0.90909094 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[286](chr7:101995561-101995739	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 7 because intersection length 146 < minMatchSize 170.04999999999998 (0.8156425 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[288](chr7:142179850-142180013	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 31548103 because intersection length 8 < minMatchSize 155.79999999999998 (0.048780486 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 30171758 because intersection length 64 < minMatchSize 155.79999999999998 (0.3902439 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[292](chr15:19335778-19336302	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 16 because intersection length 414 < minMatchSize 498.75 (0.7885714 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[293](chr17:33364376-33364428	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 18 because intersection length 17 < minMatchSize 50.349999999999994 (0.3207547 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 363 because intersection length 36 < minMatchSize 50.349999999999994 (0.6792453 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[294](chr17:33546162-33546214	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 363 because intersection length 17 < minMatchSize 50.349999999999994 (0.3207547 < 0.95)
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 1571 because intersection length 36 < minMatchSize 50.349999999999994 (0.6792453 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testBasic[295](chr17:33706667-33706736	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 18 because intersection length 53 < minMatchSize 66.5 (0.75714284 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[0](chr3:50911035-50911051	+	.) STANDARD_OUT
    Diagnosing chr3:50911035-50911051	+	. (len 17)
    chr3:50911035-50911051	+	null intersection null (len 17)=>chr3:50936014-50936030	+	.(+) using chain 3 ; pct matched 0.9411765

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[1](chr2:111013693-111013832	+	.) STANDARD_OUT
    Diagnosing chr2:111013693-111013832	+	. (len 140)
    chr2:111013693-111013832	+	null intersection null (len 140)=>null using chain 1
    chr2:111013693-111013832	+	null intersection null (len 140)=>chr2:108482693-108482783	-	.(-) using chain 53 ; pct matched 0.65
    chr2:111013693-111013832	+	null intersection null (len 140)=>chr2:113152284-113152332	+	.(+) using chain 310 ; pct matched 0.35

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[2](chr3:14174511-14175398	+	.) STANDARD_OUT
    Diagnosing chr3:14174511-14175398	+	. (len 888)
    chr3:14174511-14175398	+	null intersection null (len 888)=>chr3:14199509-14200394	+	.(+) using chain 3 ; pct matched 0.9166667

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[3](chr3:50911035-50911051	+	.) STANDARD_OUT
    Diagnosing chr3:50911035-50911051	+	. (len 17)
    chr3:50911035-50911051	+	null intersection null (len 17)=>chr3:50936014-50936030	+	.(+) using chain 3 ; pct matched 0.9411765

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[4](chr6:32071709-32071869	+	.) STANDARD_OUT
    Diagnosing chr6:32071709-32071869	+	. (len 161)
    chr6:32071709-32071869	+	null intersection null (len 161)=>chr6:31963730-31963890	+	.(+) using chain 6 ; pct matched 0.89440995

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[5](chr6:32072183-32072358	+	.) STANDARD_OUT
    Diagnosing chr6:32072183-32072358	+	. (len 176)
    chr6:32072183-32072358	+	null intersection null (len 176)=>chr6:31964204-31964379	+	.(+) using chain 6 ; pct matched 0.90909094

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[6](chr6:32104446-32104606	+	.) STANDARD_OUT
    Diagnosing chr6:32104446-32104606	+	. (len 161)
    chr6:32104446-32104606	+	null intersection null (len 161)=>chr6:31996468-31996628	+	.(+) using chain 6 ; pct matched 0.89440995

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[7](chr6:32104920-32105095	+	.) STANDARD_OUT
    Diagnosing chr6:32104920-32105095	+	. (len 176)
    chr6:32104920-32105095	+	null intersection null (len 176)=>chr6:31996942-31997117	+	.(+) using chain 6 ; pct matched 0.90909094

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[8](chr7:101995561-101995739	+	.) STANDARD_OUT
    Diagnosing chr7:101995561-101995739	+	. (len 179)
    chr7:101995561-101995739	+	null intersection null (len 179)=>chr7:102208488-102208633	+	.(+) using chain 7 ; pct matched 0.8156425

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[9](chr7:142178782-142178825	+	.) STANDARD_OUT
    Diagnosing chr7:142178782-142178825	+	. (len 44)
    chr7:142178782-142178825	+	null intersection null (len 44)=>null using chain 7

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[10](chr7:142179850-142180013	+	.) STANDARD_OUT
    Diagnosing chr7:142179850-142180013	+	. (len 164)
    chr7:142179850-142179857	+	null intersection null (len 8)=>chr7:142479907-142479914	+	.(+) using chain 31548103 ; pct matched 0.048780486
    chr7:142179946-142180009	+	null intersection null (len 64)=>chr7:142480003-142480066	+	.(+) using chain 30171758 ; pct matched 0.3902439
    chr7:142179850-142180013	+	null intersection null (len 164)=>null using chain 7

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[11](chr7:142181067-142181324	+	.) STANDARD_OUT
    Diagnosing chr7:142181067-142181324	+	. (len 258)
    chr7:142181067-142181324	+	null intersection null (len 258)=>null using chain 7

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[12](chr7:142181720-142181860	+	.) STANDARD_OUT
    Diagnosing chr7:142181720-142181860	+	. (len 141)
    chr7:142181720-142181860	+	null intersection null (len 141)=>null using chain 7

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[13](chr7:142182157-142182313	+	.) STANDARD_OUT
    Diagnosing chr7:142182157-142182313	+	. (len 157)
    chr7:142182157-142182313	+	null intersection null (len 157)=>null using chain 7

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[14](chr15:19335778-19336302	+	.) STANDARD_OUT
    Diagnosing chr15:19335778-19336302	+	. (len 525)
    chr15:19335778-19336302	+	null intersection null (len 525)=>chr15:21071199-21071612	+	.(+) using chain 16 ; pct matched 0.7885714
    chr15:19335778-19336302	+	null intersection null (len 525)=>null using chain 110

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[15](chr17:33364376-33364428	+	.) STANDARD_OUT
    Diagnosing chr17:33364376-33364428	+	. (len 53)
    chr17:33364376-33364428	+	null intersection null (len 53)=>chr17:36289992-36290044	+	.(+) using chain 18 ; pct matched 0.3207547
    chr17:33364385-33364428	+	null intersection null (len 44)=>chr17:36342590-36342625	-	.(-) using chain 363 ; pct matched 0.6792453

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[16](chr17:33546162-33546214	+	.) STANDARD_OUT
    Diagnosing chr17:33546162-33546214	+	. (len 53)
    chr17:33546162-33546214	+	null intersection null (len 53)=>null using chain 18
    chr17:33546162-33546214	+	null intersection null (len 53)=>null using chain 1564
    chr17:33546162-33546214	+	null intersection null (len 53)=>chr17:36289992-36290044	-	.(-) using chain 363 ; pct matched 0.3207547
    chr17:33546162-33546214	+	null intersection null (len 53)=>chr17:36342590-36342625	+	.(+) using chain 1571 ; pct matched 0.6792453

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[17](chr17:33706667-33706736	+	.) STANDARD_OUT
    Diagnosing chr17:33706667-33706736	+	. (len 70)
    chr17:33706667-33706736	+	null intersection null (len 70)=>chr17:36453148-36453217	+	.(+) using chain 18 ; pct matched 0.75714284

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[18](chr17:59772721-59772781	+	.) STANDARD_OUT
    Diagnosing chr17:59772721-59772781	+	. (len 61)
    chr17:59772721-59772781	+	null intersection null (len 61)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[19](chr17:59779355-59779421	+	.) STANDARD_OUT
    Diagnosing chr17:59779355-59779421	+	. (len 67)
    chr17:59779355-59779421	+	null intersection null (len 67)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[20](chr17:59781483-59781540	+	.) STANDARD_OUT
    Diagnosing chr17:59781483-59781540	+	. (len 58)
    chr17:59781483-59781540	+	null intersection null (len 58)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[21](chr17:59783488-59783565	+	.) STANDARD_OUT
    Diagnosing chr17:59783488-59783565	+	. (len 78)
    chr17:59783488-59783565	+	null intersection null (len 78)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[22](chr17:59784584-59784615	+	.) STANDARD_OUT
    Diagnosing chr17:59784584-59784615	+	. (len 32)
    chr17:59784584-59784615	+	null intersection null (len 32)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[23](chr17:59786025-59786136	+	.) STANDARD_OUT
    Diagnosing chr17:59786025-59786136	+	. (len 112)
    chr17:59786025-59786136	+	null intersection null (len 112)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[24](chr17:59787203-59787494	+	.) STANDARD_OUT
    Diagnosing chr17:59787203-59787494	+	. (len 292)
    chr17:59787203-59787494	+	null intersection null (len 292)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[25](chr17:59791235-59791514	+	.) STANDARD_OUT
    Diagnosing chr17:59791235-59791514	+	. (len 280)
    chr17:59791235-59791514	+	null intersection null (len 280)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[26](chr17:59794247-59794502	+	.) STANDARD_OUT
    Diagnosing chr17:59794247-59794502	+	. (len 256)
    chr17:59794247-59794502	+	null intersection null (len 256)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[27](chr17:59801884-59802193	+	.) STANDARD_OUT
    Diagnosing chr17:59801884-59802193	+	. (len 310)
    chr17:59801884-59802193	+	null intersection null (len 310)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[28](chr17:59804685-59804982	+	.) STANDARD_OUT
    Diagnosing chr17:59804685-59804982	+	. (len 298)
    chr17:59804685-59804982	+	null intersection null (len 298)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[29](chr17:59817352-59817382	+	.) STANDARD_OUT
    Diagnosing chr17:59817352-59817382	+	. (len 31)
    chr17:59817352-59817382	+	null intersection null (len 31)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[30](chr17:59817465-59817532	+	.) STANDARD_OUT
    Diagnosing chr17:59817465-59817532	+	. (len 68)
    chr17:59817465-59817532	+	null intersection null (len 68)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[31](chr17:59875754-59875812	+	.) STANDARD_OUT
    Diagnosing chr17:59875754-59875812	+	. (len 59)
    chr17:59875754-59875812	+	null intersection null (len 59)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[32](chr17:59875899-59875944	+	.) STANDARD_OUT
    Diagnosing chr17:59875899-59875944	+	. (len 46)
    chr17:59875899-59875944	+	null intersection null (len 46)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[33](chr17:59879183-59879456	+	.) STANDARD_OUT
    Diagnosing chr17:59879183-59879456	+	. (len 274)
    chr17:59879183-59879456	+	null intersection null (len 274)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[34](chr17:59883988-59884276	+	.) STANDARD_OUT
    Diagnosing chr17:59883988-59884276	+	. (len 289)
    chr17:59883988-59884276	+	null intersection null (len 289)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[35](chr17:59887398-59887512	+	.) STANDARD_OUT
    Diagnosing chr17:59887398-59887512	+	. (len 115)
    chr17:59887398-59887512	+	null intersection null (len 115)=>null using chain 18

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testDiagnosticLiftover[36](chrX:48774611-48775058	+	.) STANDARD_OUT
    Diagnosing chrX:48774611-48775058	+	. (len 448)
    chrX:48774611-48775058	+	null intersection null (len 448)=>null using chain 8

Gradle suite > Gradle test > htsjdk.samtools.liftover.LiftOverTest.testLiftoverCounter[0](chr3:50911035-50911051	+	., null) STANDARD_ERROR
    INFO	2021-11-28 12:05:16	LiftOver	Interval null failed to match chain 3 because intersection length 16 < minMatchSize 16.15 (0.9411765 < 0.95)

Gradle suite > Gradle test > htsjdk.samtools.MergingSamRecordIteratorTest.testVanillaCoordinateMultiIterator STANDARD_OUT
    read_28833_29006_6945	0	chr21	28833	255	36M	*	0	0	AAGCTGGAGATTACCATACTTAGGCTCATGTAGCCA	?.QC5:&34LA#;K;A'5L*!.;.LJ?)FO?'?D2<	RG:Z:1

    read_28833_29006_6945	0	chr21	30000	255	36M	*	0	0	AAGCTGGAGATTACCATACTTAGGCTCATGTAGCCA	?.QC5:&34LA#;K;A'5L*!.;.LJ?)FO?'?D2<	RG:Z:1

    read_28701_28881_323b	0	chrX	28834	255	36M	*	0	0	GCCCTATCGCCAGATCAATCGTCGCTGTGGAACTAG	$>8BE+:L!M$K(L*MQ>PO8N*8>;;=5IA>B,*O	RG:Z:1

    read_28701_28881_323b	0	chrX	28835	255	36M	*	0	0	GCCCTATCGCCAGATCAATCGTCGCTGTGGAACTAG	$>8BE+:L!M$K(L*MQ>PO8N*8>;;=5IA>B,*O	RG:Z:1

    read_28701_28881_323c	0	chrX	28835	255	36M	*	0	0	CTCAACGTATTCATACAGGCCCTTTTCGAATAGCTG	%$=LPJ?D6&@R!"KJCOI+05?>>J9CJ)'@-O>K	RG:Z:1


Gradle suite > Gradle test > htsjdk.samtools.MergingSamRecordIteratorTest.testVanillaReadOrderMultiIterator STANDARD_OUT
    a
    b
    c
    d
    e

Gradle suite > Gradle test > htsjdk.samtools.MergingSamRecordIteratorTest.testVanillaUnsortedMultiIterator STANDARD_OUT
    d
    e
    c
    b
    a

Gradle suite > Gradle test > htsjdk.samtools.SAMFileHeaderTest.testValidationStringencyLenientAndSilent[0](@HD	VN:1.0	SO:UNSORTED
) STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMTextHeaderCodec	Found non-conforming header SO tag: UNSORTED. Treating as 'unknown'.

Gradle suite > Gradle test > htsjdk.samtools.SAMFileHeaderTest.testValidationStringencyLenientAndSilent[1](@HD	VN:1.0	SO:FALSE
) STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMTextHeaderCodec	Found non-conforming header SO tag: FALSE. Treating as 'unknown'.

Gradle suite > Gradle test > htsjdk.samtools.SAMFileHeaderTest.testValidationStringencyLenientAndSilent[2](@HD	VN:1.0	SO:COORDINATE
) STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMTextHeaderCodec	Found non-conforming header SO tag: COORDINATE. Treating as 'unknown'.

Gradle suite > Gradle test > htsjdk.samtools.SAMFileHeaderTest.testValidationStringencyLenientAndSilent[3](@HD	VN:1.0	SO:uNknOWn
) STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMTextHeaderCodec	Found non-conforming header SO tag: uNknOWn. Treating as 'unknown'.

Gradle suite > Gradle test > htsjdk.samtools.SAMFileHeaderTest.testValidationStringencyLenientAndSilent[4](@HD	VN:1.0	SO:cOoRdinate
) STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMTextHeaderCodec	Found non-conforming header SO tag: cOoRdinate. Treating as 'unknown'.

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.specialFileWriterTest STANDARD_ERROR
    WARNING	2021-11-28 12:05:41	SAMFileWriterFactory	Cannot create MD5 file for BAM because output file is not a regular file: file:///dev/null
    WARNING	2021-11-28 12:05:41	SAMFileWriterFactory	Cannot create index for BAM because output file is not a regular file: file:///dev/null

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeCRAMWriterWithNoReference STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Reference fasta is not provided when writing CRAM file file:///tmp/tmp.9963124832581450715..cram
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Will attempt to use a default reference or download as set by defaults:
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Default REFERENCE_FASTA (-Dsamjdk.reference_fasta): null
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Default USE_CRAM_REF_DOWNLOAD (-Dsamjdk.use_cram_ref_download): false

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeSamOrBamForCramExtension STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: file:///tmp/testMakeSamOrBamForCramExtension7192540914152213561.cram

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriter[0](sam) STANDARD_ERROR
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriter[1](bam) STANDARD_ERROR
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /tmp/tmp.13622895209076264840.bam, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterForCramExtensionNoReference STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Reference fasta is not provided when writing CRAM file file:///tmp/testMakeWriterForCramExtension1409228244417666383.cram
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Will attempt to use a default reference or download as set by defaults:
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Default REFERENCE_FASTA (-Dsamjdk.reference_fasta): null
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Default USE_CRAM_REF_DOWNLOAD (-Dsamjdk.use_cram_ref_download): false

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterForNoExtension STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: file:///tmp/testMakeWriterForNoExtension18297609731149913789

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterForUnknownFileExtension STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: file:///tmp/testMakeWriterForUnknownFileExtension2343627987031413379.png

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPath[0](sam) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://a5ded25a-c76a-435d-8658-8b553de79061/work/testMakeWriterPathsam
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathsam, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPath[1](bam) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://c736d142-3c7e-4611-acf1-d2392c8bbcac/work/testMakeWriterPathbam
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathbam, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPath[2](cram) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://2c8dfdb3-5805-43f0-b9cc-539f267d1ada/work/testMakeWriterPathcram
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathcram, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPathAndReferencePath[0](sam) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://d6bd8e6a-fc72-415f-87a3-48de14a97fb2/work/testMakeWriterPathsam
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathsam, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPathAndReferencePath[1](bam) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://12582bc7-05b1-4024-b8bd-9a93a17afebb/work/testMakeWriterPathbam
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathbam, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMFileWriterFactoryTest.testMakeWriterPathAndReferencePath[2](cram) STANDARD_ERROR
    INFO	2021-11-28 12:05:41	SAMFileWriterFactory	Unknown file extension, assuming BAM format when writing file: jimfs://83932ac1-618c-4687-b4af-e479387c1abc/work/testMakeWriterPathcram
    Ignoring SAM validation error: ERROR::HEADER_RECORD_MISSING_REQUIRED_TAG:File /work/testMakeWriterPathcram, Error parsing SAM header. @RG line missing SM tag. Line:
    @RG	ID:1

Gradle suite > Gradle test > htsjdk.samtools.SAMSequenceDictionaryTest.testMergeDictionaries[7](SAMSequenceRecord(name=chr1,length=101,dict_index=0,assembly=null,alternate_names=[]), SAMSequenceRecord(name=chr1,length=0,dict_index=0,assembly=null,alternate_names=[]), false) STANDARD_ERROR
    ERROR	2021-11-28 12:05:56	SAMSequenceDictionary	Cannot merge dictionaries. Found sequence entry for which tags differ: chr1 and tag M5 has the two values: dummy and dummy2.

Gradle suite > Gradle test > htsjdk.samtools.SamFilesTest.testIndexSymlinking[2](src/test/resources/htsjdk/samtools/BAMFileIndexTest/symlink_without_linked_index.bam, /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam.bai) STANDARD_ERROR
    WARNING	2021-11-28 12:05:56	SamFiles	The index file /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam.bai was found by resolving the canonical path of a symlink: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/symlink_without_linked_index.bam -> /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam
    WARNING	2021-11-28 12:05:56	SamFiles	The index file /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam.bai was found by resolving the canonical path of a symlink: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/symlink_without_linked_index.bam -> /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.customReaderFactoryTest STANDARD_ERROR
    INFO	2021-11-28 12:05:58	CustomReaderFactory	Attempting to open https://www.googleapis.com/genomics/v1beta/reads/?uncompressed.sam with custom factory
    INFO	2021-11-28 12:05:58	CustomReaderFactory	Attempting to load factory class htsjdk.samtools.SamReaderFactoryTest$TestReaderFactory
    INFO	2021-11-28 12:05:58	CustomReaderFactory	Created custom factory for https://www.googleapis.com/genomics/v1beta/reads/ from htsjdk.samtools.SamReaderFactoryTest$TestReaderFactory loaded from  this jar
    INFO	2021-11-28 12:05:58	SamReaderFactoryTest	Opening customr reader for src/test/resources/htsjdk/samtools/uncompressed.sam

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.exhaustInputResourcePermutation SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.openPath STANDARD_ERROR
    INFO	2021-11-28 12:05:58	SamReaderFactoryTest	Reading from src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam ...

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.queryInputResourcePermutation SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.queryStreamingPathBamWithFileIndex STANDARD_ERROR
    INFO	2021-11-28 12:05:58	SamReaderFactoryTest	Query from data=PATH:src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam;index=FILE:src/test/resources/htsjdk/samtools/BAMFileIndexTest/index_test.bam.bai ...
    INFO	2021-11-28 12:05:58	SamReaderFactoryTest	Finished queries in 42ms

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.testSamReaderFromMalformedSeekableStream STANDARD_ERROR
    WARNING	2021-11-28 12:05:58	SamReaderFactory	Unable to detect file format from input URL or stream, assuming SAM format.

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.testSamReaderFromSeekableStream STANDARD_ERROR
    WARNING	2021-11-28 12:05:58	SamReaderFactory	Unable to detect file format from input URL or stream, assuming SAM format.

Gradle suite > Gradle test > htsjdk.samtools.SamReaderFactoryTest.testSamReaderFromURL STANDARD_ERROR
    WARNING	2021-11-28 12:05:58	SamReaderFactory	Unable to detect file format from input URL or stream, assuming SAM format.

Gradle suite > Gradle test > htsjdk.samtools.SamSpecIntTest.testBamIntegers[1](inttest_large_coordinates.bam) STANDARD_ERROR
    WARNING	2021-11-28 12:05:58	BAMRecordCodec	Reference length is too large for BAM bin field.
    WARNING	2021-11-28 12:05:58	BAMRecordCodec	Reads on references longer than 536870912bp will have bin set to 0.

Gradle suite > Gradle test > htsjdk.samtools.SamSpecIntTest.testSamIntegers[1](inttest_large_coordinates.sam) STANDARD_ERROR
    WARNING	2021-11-28 12:05:58	BAMRecordCodec	Reference length is too large for BAM bin field.
    WARNING	2021-11-28 12:05:58	BAMRecordCodec	Reads on references longer than 536870912bp will have bin set to 0.

Gradle suite > Gradle test > htsjdk.utils.SamtoolsTestUtilsTest.testCRAMConversion SKIPPED

Gradle suite > Gradle test > htsjdk.utils.SamtoolsTestUtilsTest.testSamtoolsIsAvailable SKIPPED

Gradle suite > Gradle test > htsjdk.utils.SamtoolsTestUtilsTest.testSamtoolsVersion SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceBlockReadStreamTest.testSliceBlocksReadStreamsRoundTrip SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceBlocksTest.testSliceBlocksRoundTrip SKIPPED

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceTests STANDARD_ERROR
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@2b20529d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cfe1c3c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@eedbe5db] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@d0b9af7a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@b2977919] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@947542b8] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@76530c57] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@5830d5f6] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@3a0e9f95] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1bec6934] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@2b20529d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cfe1c3c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@eedbe5db] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@d0b9af7a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@b2977919] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@947542b8] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@76530c57] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@5830d5f6] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@3a0e9f95] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1bec6934] has an valid alignment start but not a valid reference index.

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceTests.sliceStateTest[6]([htsjdk.samtools.cram.structure.CRAMCompressionRecord@a1a5772, htsjdk.samtools.cram.structure.CRAMCompressionRecord@ebf82111, htsjdk.samtools.cram.structure.CRAMCompressionRecord@cdd5eab0, htsjdk.samtools.cram.structure.CRAMCompressionRecord@afb3b44f, htsjdk.samtools.cram.structure.CRAMCompressionRecord@91917dee, htsjdk.samtools.cram.structure.CRAMCompressionRecord@736f478d, htsjdk.samtools.cram.structure.CRAMCompressionRecord@554d112c, htsjdk.samtools.cram.structure.CRAMCompressionRecord@372adacb, htsjdk.samtools.cram.structure.CRAMCompressionRecord@1908a46a, htsjdk.samtools.cram.structure.CRAMCompressionRecord@fae66e09], true, UNMAPPED_UNPLACED, 0, 0) STANDARD_ERROR
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@a1a5772] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@ebf82111] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cdd5eab0] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@afb3b44f] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@91917dee] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@736f478d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@554d112c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@372adacb] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1908a46a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@fae66e09] has an valid alignment start but not a valid reference index.

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceTests.sliceStateTest[7]([htsjdk.samtools.cram.structure.CRAMCompressionRecord@a1a5772, htsjdk.samtools.cram.structure.CRAMCompressionRecord@ebf82111, htsjdk.samtools.cram.structure.CRAMCompressionRecord@cdd5eab0, htsjdk.samtools.cram.structure.CRAMCompressionRecord@afb3b44f, htsjdk.samtools.cram.structure.CRAMCompressionRecord@91917dee, htsjdk.samtools.cram.structure.CRAMCompressionRecord@736f478d, htsjdk.samtools.cram.structure.CRAMCompressionRecord@554d112c, htsjdk.samtools.cram.structure.CRAMCompressionRecord@372adacb, htsjdk.samtools.cram.structure.CRAMCompressionRecord@1908a46a, htsjdk.samtools.cram.structure.CRAMCompressionRecord@fae66e09], false, UNMAPPED_UNPLACED, 0, 0) STANDARD_ERROR
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@a1a5772] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@ebf82111] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@cdd5eab0] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@afb3b44f] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@91917dee] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@736f478d] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@554d112c] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@372adacb] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@1908a46a] has an valid alignment start but not a valid reference index.
    WARNING	2021-11-28 12:06:02	CRAMCompressionRecord	CRAMRecord [htsjdk.samtools.cram.structure.CRAMCompressionRecord@fae66e09] has an valid alignment start but not a valid reference index.

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SliceTests.testValidateReferenceMD5Fails STANDARD_ERROR
    WARNING	2021-11-28 12:06:02	Slice	Slice mapped outside of reference: seqID=SINGLE_REFERENCE: 0, start=1, span=20, counter=0.

Gradle suite > Gradle test > htsjdk.samtools.util.SortingCollectionTest STANDARD_ERROR
    Resetting tmpdir

Gradle suite > Gradle test STANDARD_ERROR
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir
    Resetting tmpdir

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[0](A, 0, 0, 0, 0, 0, [B@4ff3c460) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[1](A, 0, 0, 0, 1, 0, [B@1afb4205) STANDARD_OUT
    A:TCGN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:TCGN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[2](A, 0, 1, 2, 3, 4, [B@6031497) STANDARD_OUT
    A:NTGC	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:NTGC	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[3](A, 0, 4, 3, 2, 1, [B@39e6aead) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[4](C, 0, 0, 0, 0, 0, [B@60cc6bb5) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[5](C, 0, 0, 0, 1, 0, [B@7c090e46) STANDARD_OUT
    A:CGTN	C:TAGN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:TAGN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[6](C, 1, 0, 2, 3, 4, [B@2a4126a4) STANDARD_OUT
    A:CGTN	C:NTGA	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:NTGA	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[7](C, 4, 0, 3, 2, 1, [B@5cf3e911) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[8](G, 0, 0, 0, 0, 0, [B@4dca6027) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[9](G, 0, 0, 0, 1, 0, [B@3884ddf) STANDARD_OUT
    A:CGTN	C:AGTN	G:TACN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:TACN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[10](G, 1, 2, 0, 3, 4, [B@1bbc0605) STANDARD_OUT
    A:CGTN	C:AGTN	G:NTCA	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:NTCA	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[11](G, 4, 3, 0, 2, 1, [B@1e525750) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[12](T, 0, 0, 0, 0, 0, [B@2cab1630) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[13](T, 0, 0, 0, 0, 1, [B@57b39333) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:NACG	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:NACG	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[14](T, 1, 2, 3, 0, 4, [B@11441c08) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:NGCA	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:NGCA	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[15](T, 4, 3, 2, 0, 1, [B@3c2a1f68) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[16](N, 0, 0, 0, 0, 0, [B@7e195266) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[17](N, 0, 0, 0, 1, 0, [B@605d112d) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:TACG	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:TACG	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[18](N, 1, 2, 3, 4, 0, [B@60035dd6) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:TGCA	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:TGCA	

Gradle suite > Gradle test > htsjdk.samtools.cram.structure.SubstitutionMatrixTest.testSingleReferenceBaseSubstitution[19](N, 4, 3, 2, 1, 0, [B@5665c463) STANDARD_OUT
    A:CGTN	C:AGTN	G:ACTN	T:ACGN	N:ACGT	a:CGTN	c:AGTN	g:ACTN	t:ACGN	n:ACGT	
Gradle Test Executor 1 finished executing tests.
Finished generating test XML results (0.324 secs) into: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/test-results/test
Generating HTML test report...
Finished generating test html results (0.35 secs) into: /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/build/reports/tests/test
:test (Thread[main,5,main]) completed. Took 15 mins 34.937 secs.

BUILD SUCCESSFUL in 16m 45s
6 actionable tasks: 5 executed, 1 up-to-date
make[1]: Leaving directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
   create-stamp debian/debhelper-build-stamp
   dh_testroot -i -O--buildsystem=gradle
   dh_prep -i -O--buildsystem=gradle
	rm -f -- debian/libhtsjdk-java.substvars debian/libhtsjdk-java-doc.substvars
	rm -fr -- debian/.debhelper/generated/libhtsjdk-java/ debian/libhtsjdk-java/ debian/tmp/ debian/.debhelper/generated/libhtsjdk-java-doc/ debian/libhtsjdk-java-doc/
   dh_auto_install -i -O--buildsystem=gradle
	install -d /build/htsjdk-meg1tw/htsjdk-2.24.1\+dfsg/debian/tmp
   dh_install -i -O--buildsystem=gradle
	install -d debian/libhtsjdk-java/usr/share/libhtsjdk-java
	cp --reflink=auto -a ./scripts/explain_sam_flags.py debian/libhtsjdk-java/usr/share/libhtsjdk-java/
	install -d debian/.debhelper/generated/libhtsjdk-java
	install -d debian/.debhelper/generated/libhtsjdk-java-doc
   jh_installjavadoc -i -O--buildsystem=gradle
	Installing javadoc from build/docs/javadoc into package libhtsjdk-java-doc
	install -d debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc
	cp -r build/docs/javadoc debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/
	cat > debian/libhtsjdk-java-doc.doc-base.javadoc
   dh_installdocs -i -O--buildsystem=gradle
	install -d debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java
	install -p -m0644 debian/libhtsjdk-java.README.Debian debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/README.Debian
	install -p -m0644 debian/copyright debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/copyright
	install -p -m0644 debian/copyright debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/copyright
	install -d debian/libhtsjdk-java-doc/usr/share/doc-base/
	install -p -m0644 debian/libhtsjdk-java-doc.doc-base.javadoc debian/libhtsjdk-java-doc/usr/share/doc-base/libhtsjdk-java-doc.libhtsjdk-java-doc
   dh_installchangelogs -i -O--buildsystem=gradle
	install -p -m0644 debian/changelog debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/changelog.Debian
	install -p -m0644 debian/changelog debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/changelog.Debian
   dh_installsystemduser -i -O--buildsystem=gradle
   dh_lintian -i -O--buildsystem=gradle
	install -d debian/libhtsjdk-java-doc/usr/share/lintian/overrides
	install -p -m0644 debian/libhtsjdk-java-doc.lintian-overrides debian/libhtsjdk-java-doc/usr/share/lintian/overrides/libhtsjdk-java-doc
   dh_perl -i -O--buildsystem=gradle
   dh_link -i -O--buildsystem=gradle
	rm -f debian/libhtsjdk-java-doc.debhelper.log debian/libhtsjdk-java.debhelper.log
   debian/rules override_jh_installlibs
make[1]: Entering directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
jh_installlibs --version-strip='[+]dfsg[.0-9]*'
	install -d debian/libhtsjdk-java/usr/share/java
	install -p -m0644 ./build/libs/htsjdk-2.24.1.jar debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar
	rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	ln -s htsjdk-2.24.1.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar
make[1]: Leaving directory '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
   jh_classpath -i -O--buildsystem=gradle
	jh_manifest -plibhtsjdk-java "--classpath=/usr/share/java/commons-compress.jar /usr/share/java/commons-jexl2.jar /usr/share/java/json-simple.jar /usr/share/java/ngs-java.jar /usr/share/java/snappy-java.jar" debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	Updating symlinked /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar (via debian/libhtsjdk-java/usr/share/java/htsjdk.jar)
	Reading manifest from /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar
	Updating manifest in /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar
   jh_manifest -i -O--buildsystem=gradle
	find debian/libhtsjdk-java  -name '*.jar'
	Found symlink usr/share/java/htsjdk.jar
	Found usr/share/java/htsjdk-2.24.1.jar
	Reading manifest from debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar
	No update of debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar required.
	find debian/libhtsjdk-java-doc  -name '*.jar'
   jh_exec -i -O--buildsystem=gradle
   jh_depends -i -O--buildsystem=gradle
Searching /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java for libhtsjdk-java
Searching /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar
Found Jars: /usr/share/java/commons-compress.jar /usr/share/java/commons-jexl2.jar /usr/share/java/json-simple.jar /usr/share/java/ngs-java.jar /usr/share/java/snappy-java.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/commons-compress.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc/usr/share/java/commons-compress.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/commons-jexl2.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc/usr/share/java/commons-jexl2.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/json-simple.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc/usr/share/java/json-simple.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/ngs-java-2.11.2.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc/usr/share/java/ngs-java-2.11.2.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java/usr/share/java/snappy-java.jar
Checking:  /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc/usr/share/java/snappy-java.jar
Found Debs: libcommons-compress-java libcommons-jexl2-java libjson-simple-java libngs-java libsnappy-java
Adding substvars: java:Depends=libcommons-compress-java,  libcommons-jexl2-java,  libjson-simple-java,  libngs-java,  libsnappy-java java:Recommends=
Searching /build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg/debian/libhtsjdk-java-doc for libhtsjdk-java-doc
Searching
Found Jars:
Found Debs:
Adding substvars: java:Depends= java:Recommends=
   mh_installpoms -i -O--buildsystem=gradle
	mh_installpom   --package=libhtsjdk-java            --has-package-version --usj-name=htsjdk         debian/htsjdk.pom
	mh_cleanpom   --package=libhtsjdk-java    --has-package-version   --rules=debian/maven.rules      debian/htsjdk.pom debian/.mh/pom.xml debian/.mh/pom.properties
	mv debian/.mh/pom.xml debian/.mh/htsjdk-debian.pom
	install -m 644 -D debian/.mh/htsjdk-2.23.0.pom debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.pom
	install -m 644 -D debian/.mh/htsjdk-debian.pom debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.pom
   mh_linkjars --skip-clean-poms -i -O--buildsystem=gradle
	mh_linkjar --has-package-version            --package=libhtsjdk-java    --skip-clean-pom debian/htsjdk.pom /usr/share/java/htsjdk.jar
	dh_link   -plibhtsjdk-java /usr/share/javahtsjdk.jar usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.jar
	rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	ln -s htsjdk-2.24.1.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.jar
	ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.jar
	dh_link   -plibhtsjdk-java /usr/share/javahtsjdk.jar usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar
	rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.jar
	ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.23.0/htsjdk-2.23.0.jar
	rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	ln -s htsjdk-2.24.1.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar
	rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar
	ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar
   dh_strip_nondeterminism -i -O--buildsystem=gradle
	Using 1637701405 as canonical time
	Normalizing debian/libhtsjdk-java/usr/share/java/htsjdk-2.24.1.jar using File::StripNondeterminism::handlers::jar
	Using 1637701405 as canonical time
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.Accessor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.ADAccessor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.DPAccessor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.GQAccessor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.PLAccessor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/Options.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/SortingVariantContextWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/VariantContextWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/VariantContextWriterBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/VariantContextWriterBuilder.OutputType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/AbstractVCFCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCF3Codec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFAltHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFCompoundHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFCompoundHeaderLine.SupportedHeaderLineType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFConstants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFContigHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFEncoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFileReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFilterHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFormatHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeader.HEADER_FIELDS.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineCount.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineTranslator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderVersion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFIDHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFInfoHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFIteratorBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFMetaHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFPassThruTextTransformer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFPedigreeHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFPercentEncodedTextTransformer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFRecordCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFSampleHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFSimpleHeaderLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFStandardHeaderLines.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFTextTransformer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaSequenceIndexEntry.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/IndexedFastaSequenceFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/ReferenceSequence.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/ReferenceSequenceFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/ReferenceSequenceFileFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/ReferenceSequenceFileWalker.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/SamLocusAndReferenceIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/SamLocusAndReferenceIterator.SAMLocusAndReference.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/AsyncFastqWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/BasicFastqWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqConstants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqConstants.FastqExtensions.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqEncoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqReader.LineType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqWriterFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractAsyncWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractLocusInfo.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractLocusIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractProgressLogger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractRecordAndOffset.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AbstractRecordAndOffset.AlignmentType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AsciiWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AsyncBlockCompressedInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/AsyncBufferedIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BinaryCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedFilePointerUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedInputStream.DecompressedBlock.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedInputStream.FileTermination.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockCompressedStreamConstants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BlockGunzipper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/BufferedLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CigarUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CloseableIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CloserUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CodeUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CollectionUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/C	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/constant-values.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/serialized-form.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/overview-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/package-search-index.zip using File::StripNondeterminism::handlers::zip
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/type-search-index.zip using File::StripNondeterminism::handlers::zip
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/member-search-index.zip using File::StripNondeterminism::handlers::zip
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/index-all.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/allclasses-index.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/allpackages-index.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/deprecated-list.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/allclasses.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/index.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/overview-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/help-doc.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/AbstractFeatureCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/AbstractFeatureReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/AbstractFeatureReader.ComponentMethods.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/AsciiFeatureCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/BinaryFeatureCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/CloseableTribbleIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/Feature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/FeatureCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/FeatureCodecHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/FeatureReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/MutableFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/NameAwareCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/SimpleFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TabixFeatureReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/Tribble.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.CorruptedIndexFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.FeatureFileDoesntExist.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.InternalCodecException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.InvalidDecodeLine.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.InvalidHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.MalformedFeatureFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.TabixReaderFailure.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.UnableToCreateCorrectIndexType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleException.UnableToReadIndexFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/TribbleIndexedFeatureReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/AbstractIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/AbstractIndex.IndexType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/Block.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/ChrIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/DynamicIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/Index.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/AbstractIndex.BlockStats.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/IndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normal	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/TextTagCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/ValidationStringency.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/Header.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/MetricBase.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/MetricsFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/StringHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/VersionHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/metrics/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/apps/TimeChannel.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/apps/TimeRandomAccessFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/apps/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/apps/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/BAIEntry.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/CRAIEntry.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/CRAIIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/CRAIIndexMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/CRAMException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/common/CRAMVersion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/common/CramVersions.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/common/MutableInt.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/common/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/common/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/digest/ContentDigests.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/digest/ContentDigests.KNOWN_DIGESTS.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/digest/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/digest/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/BitInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/BitOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/CountingInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/CramInt.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/CramIntArray.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/CRC32InputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/CRC32OutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/DefaultBitInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/DefaultBitOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/InputStreamUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/ITF8.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/LTF8.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/CRAMLazyReferenceSource.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/CRAMReferenceSource.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/EnaRefService.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdoc/api/htsjdk/variant/vcf/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Codec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Codec.LazyData.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Codec.SitesInfoForDecoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Decoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2GenotypeFieldDecoders.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2GenotypeFieldDecoders.Decoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2LazyGenotypesDecoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Type.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCF2Utils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/BCFVersion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/bcf2/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/example/PrintVariantsExample.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/example/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/example/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/AsyncWriterPool.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/HtsPath.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/IOPath.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/Writer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/io/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/AbstractBAMFileIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/AbstractSAMHeaderRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/AlignmentBlock.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BamFileIoUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMFileReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMFileReader.BAMQueryFilteringIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMFileSpan.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMFileWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMIndexMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMIndexMetaData.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BamIndexValidator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BamIndexValidator.IndexValidationStringency.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMQueryMultipleIntervalsIteratorFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMRecordCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMSBIIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMStartingAtIteratorFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BAMStreamWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/Bin.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinaryTagCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinList.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinningIndexBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinningIndexBuilder.FeatureToBeIndexed.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinningIndexContent.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinningIndexConteollectionUtil.DefaultingMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CollectionUtil.DefaultingMap.Factory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CollectionUtil.MultiMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CollectionUtil.Partitioner.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ComparableTuple.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CoordMath.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CoordSpanInputSteam.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/CustomGzipOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/DateParser.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/DateParser.InvalidDateException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/DelegatingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/DiskBackedQueue.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/EdgeReadIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/EdgingRecordAndOffset.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/EdgingRecordAndOffset.Type.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/FastLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/FastqQualityFormat.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/FileAppendStreamLRUCache.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/FileExtensions.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/FormatUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/GZIIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/GZIIndex.GZIIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/GZIIndex.IndexEntry.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Histogram.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Histogram.Bin.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/HttpUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Interval.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalCoordinateComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalList.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalList.IntervalMergerIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalListReferenceSequenceMask.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalListWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.FwdIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.Node.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.OverlapIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.RevIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTree.ValuesIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalTreeMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IntervalUtil.IntervalCombiner.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IOUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Iso8601Date.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IterableAdapter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/IterableOnceIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Iterables.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Lazy.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/IndexFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/IndexFactory.IndexBalanceApproach.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/IndexFactory.IndexType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/MutableIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/TribbleIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/Interval.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalTree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalTreeIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalTreeIndex.ChrIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/AllRefsTabixIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/StreamBasedTabixIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/TabixFormat.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/TabixIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/TabixIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/TabixIndexMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/tabix/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/linear/LinearIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/linear/LinearIndex.ChrIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/linear/LinearIndexCreator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/linear/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/linear/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/exception/CodecLineParsingException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/exception/UnsortedFileException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/exception/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/exception/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3BaseData.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Codec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Codec.DecodeDepth.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Codec.Gff3Directive.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Constants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Feature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3FeatureImpl.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/Gff3Writer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/SequenceRegion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/gff/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/annotation/Strand.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/annotation/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/annotation/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/CountRecords.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/ExampleBinaryCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-javadk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/GaveUpException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/ReferenceContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/ReferenceContextType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/ReferenceSource.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/ref/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/AlignmentContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/AlignmentSpan.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CompressionHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CompressionHeaderEncodingMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CompressorCache.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/Container.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/ContainerHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CRAMCompressionRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CramHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/CRAMRecordReadFeatures.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/DataSeries.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/DataSeriesType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/EncodingDescriptor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/EncodingID.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/ReadTag.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/Slice.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/SliceBlocks.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/SliceBlocksReadStreams.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/SliceBlocksWriteStreams.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/SubstitutionMatrix.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/block/Block.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/block/BlockCompressionMethod.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/block/BlockContentType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/block/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/structure/block/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/BZIP2ExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/ExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/GZIPExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/LZMAExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/RANSExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/RAWExternalCompressor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/RANS.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/RANS.ORDER.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rnt.BinList.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BinWithOffset.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/BrowseableBAMIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/Chunk.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/Cigar.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CigarElement.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CigarOperator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CoordinateSortedPairInfoMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CoordinateSortedPairInfoMap.Codec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMBAIIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMContainerStreamWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMCRAIIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMFileReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMFileWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMIndexer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CRAMIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CSIIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CustomReaderFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/CustomReaderFactory.ICustomReaderFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/Defaults.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DefaultSAMRecordFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DiskBasedBAMFileIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DownsamplingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DownsamplingIteratorFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DownsamplingIteratorFactory.Strategy.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DuplicateScoringStrategy.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DuplicateScoringStrategy.ScoringStrategy.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DuplicateSet.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/DuplicateSetIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/FileTruncatedException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/GenomicIndexUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/HtsgetBAMFileReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/IndexMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/LinearIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/MergingSamRecordIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/NotPrimarySkippingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/QueryInterval.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/ReservedTagConstants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMBinaryTagAndUnsignedArrayValue.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMBinaryTagAndValue.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileHeader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileHeader.GroupOrder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileHeader.PgIdGenerator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileHeader.SortOrder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamFileHeaderMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamFiles.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileSource.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileSpan.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Lazy.LazyInitializer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/LineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ListMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Locatable.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/LocationAware.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Locus.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/LocusComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/LocusImpl.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Log.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Log.LogLevel.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Md5CalculatingInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Md5CalculatingOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/MergingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Murmur3.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/OverlapDetector.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/PeekableIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/PeekIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/PositionalOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ProcessExecutor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ProcessExecutor.ExitStatusAndOutput.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ProgressLogger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ProgressLoggerInterface.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/QualityEncodingDetector.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/QualityEncodingDetector.FileContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/QualityUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ReferenceSequenceMask.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/RelativeIso8601Date.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ResourceLimitedMap.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ResourceLimitedMapFunctor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/RuntimeEOFException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/RuntimeIOException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/RuntimeScriptException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamConstants.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamLocusIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamLocusIterator.LocusInfo.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamLocusIterator.RecordAndOffset.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamRecordIntervalIteratorFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SAMRecordPrefetchingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamRecordTrackingBuffer.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SamRecordWithOrdinal.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SequenceUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SequenceUtil.SequenceListsDifferException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SnappyLoader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SolexaQualityConverter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SortingCollection.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SortingCollection.Codec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/SortingLongCollection.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/StopWatans/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/ByteArrayLenEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/CRAMCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/CRAMEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/EncodingFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/BaseQualityScore.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Bases.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Deletion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/HardClip.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/InsertBase.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Insertion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Padding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/ReadBase.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/ReadFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/RefSkip.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Scores.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/SoftClip.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/Substitution.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/readfeatures/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/reader/CramRecordReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/reader/DataSeriesReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/reader/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/reader/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/CramRecordWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/DataSeriesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ByteArrayStopEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteArrayCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteArrayEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalLongEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/BetaIntegerCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/BetaIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CanonicalHuffmanByteEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CanonicalHuffmanIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CoreCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/GammaIntegerEncoding.h-doc/api/htsjdk/tribble/example/IndexToTable.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/IndicesAreEqual.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/ProfileIndexReading.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/example/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/IntervalList/IntervalListCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/IntervalList/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/IntervalList/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/FTPHelper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/HTTPHelper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/LittleEndianInputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/LittleEndianOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/MathUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/MathUtils.RunningStat.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/ParsingUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/RemoteURLHelper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/TabixUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/TabixUtils.TIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/TabixUtils.TIntv.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/TabixUtils.TPair64.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/URLHelper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/URLHelperFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/popgen/HardyWeinbergCalculation.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/popgen/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/util/popgen/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/BEDCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/BEDCodec.StartOffset.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/BEDFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/FullBEDFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/FullBEDFeature.Exon.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/FullBEDFeature.Exon2.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/SimpleBEDFeature.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/bed/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/AsciiLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/AsciiLineReaderIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/LineIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/LineIteratorImpl.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/LineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/LongLineBufferedReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/Positional.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/PositionalBufferedStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/SynchronousLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/TabixIteratorLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/TabixReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/TabixReader.Iterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/jdk/samtools/SamFileValidator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamFileValidator.ValidationMetrics.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileWriterFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFileWriterImpl.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFlag.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamFlagField.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMFormatException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMHeaderRecordComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamIndexes.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamInputResource.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMLineParser.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamPairUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamPairUtil.PairOrientation.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamPairUtil.SetMateInfoIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMProgramRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.AssertingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.Indexing.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.PrimitiveSamReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.PrimitiveSamReaderToSamReaderAdapter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.ReaderImplementation.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReader.Type.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReaderFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamReaderFactory.Option.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMReadGroupRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMReadGroupRecord.PlatformValue.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecord.SAMTagAndValue.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordCoordinateComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordDuplicateComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordQueryHashComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordQueryNameComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMRecordSetBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMSequenceDictionary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMSequenceDictionaryCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMSequenceRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMSortOrderChecker.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SamStreams.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTag.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTagUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTestUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTestUtil.SanityCheckFailedException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTextHeaderCodec.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMTextWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizch.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/StringLineReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/StringUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/TempStreamFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/TerminatorlessBlockCompressedOutputStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/TestUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/TrimmingUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/Tuple.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/WholeGenomeReferenceSequenceMask.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/zip/DeflaterFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/zip/InflaterFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/zip/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/zip/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/FTPClient.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/FTPReply.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/FTPStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/FTPUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/ftp/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/nio/DeleteOnExitPathHook.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/nio/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/nio/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetClass.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetErrorResponse.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetFormat.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetMalformedResponseException.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetRequest.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetRequestField.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetResponse.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/HtsgetResponse.Block.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/util/htsget/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/ByteArraySeekableStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/ISeekableStreamFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/ReadableSeekableStreamByteChannel.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableBufferedStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableFileStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableFTPStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableFTPStreamHelper.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableHTTPStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableMemoryStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekablePathStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableStream.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/SeekableStreamFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/UserPasswordInput.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-jaing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMValidationError.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMValidationError.Severity.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SAMValidationError.Type.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SBIIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SBIIndex.Header.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SBIIndexMerger.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SBIIndexWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SecondaryAlignmentSkippingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SecondaryOrSupplementarySkippingIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SQTagUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SQTagUtil.SQBase.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SRAFileReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SRAIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SRAIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/SRAIterator.RecordRangeInfo.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/TagValueAndUnsignedArrayFlag.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/TextCigarCodec.html using File::StripNondeterminism::handlers::javadoc
va-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/seekablestream/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/utils/ClassFinder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/utils/ValidationUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/utils/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/utils/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/resources/glass.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/resources/x.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_65_dadada_1x400.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_454545_256x240.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_95_fef1ec_1x400.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_75_dadada_1x400.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_highlight-soft_75_cccccc_1x100.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_888888_256x240.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_2e83ff_256x240.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_cd0a0a_256x240.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_55_fbf9ee_1x400.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_222222_256x240.png using File::StripNondeterminism::handlers::png
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_75_e6e6e6_1x400.png using File::StripNondeterminism::handlers::png
tml using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/SubexponentialIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombLongEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombRiceIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanBitCode.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanCanoncialCodeGenerator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanParams.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanParamsCalculator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CompressionHeaderFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/ContainerFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CramContainerHeaderIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CramContainerIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CramIO.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CRAMReferenceRegion.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CramSpanContainerIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/SliceFactory.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/Utils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/AbstractJavascriptFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/AggregateFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/AlignedFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/DuplicateReadFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/FailsVendorReadQualityFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/FilteringIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/FilteringSamIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/InsertSizeFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/IntervalFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/IntervalKeepPairFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/InvertFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/JavascriptSamRecordFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/MappingQualityFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/NotPrimaryAlignmentFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/OverclippedReadFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/ReadNameFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/SamRecordFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/SecondaryAlignmentFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/SecondaryOrSupplementaryFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/SolexaNoistribble/readers/TabixReader.TIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/TabixReader.TPair64.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/readers/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/BinomialCoefficientUtil.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/GeneralUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/SAMSequenceDictionaryExtractor.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/VCFHeaderReader.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/utils/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/Allele.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/CommonInfo.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/FastGenotype.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/Genotype.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeJEXLContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeLikelihoods.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeLikelihoods.GenotypeLikelihoodsAllelePair.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypesContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/JexlMissingValueTreatment.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.LazyData.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.LazyParser.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/StructuralVariantType.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.Type.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.Validation.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextComparator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextUtils.JexlVCMatchExp.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/CompoundFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/FilteringIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/FilteringVariantContextIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/GenotypeQualityFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/HeterozygosityFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/JavascriptVariantFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/PassingVariantFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/SnpFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/VariantContextFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/varianeFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/TagFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/WholeReadClippedFilter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/filter/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/ReferenceCache.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRAAccession.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRAAlignmentIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRAIndexedSequenceFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRALazyRecord.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRAUnalignmentIterator.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/SRAUtils.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/sra/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/ExampleSamUsage.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/PrintReadsExample.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/liftover/LiftOver.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/liftover/LiftOver.PartialLiftover.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/liftover/package-summary.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/liftover/package-tree.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/BlockCompressedIndexedFastaSequenceFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaReferenceWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaReferenceWriterBuilder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaSequenceFile.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaSequenceIndex.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/reference/FastaSequenceIndexCreator.html using File::StripNondeterminism::handlers::javadoc
tcontext/writer/AsyncVariantContextWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2Encoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.AtomicInt.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.Flag.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.Float.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.GenericInts.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.IntArray.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldEncoder.StringOrCharacter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.FTGenotypesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.GenericSiteWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.GenotypesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.GTWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.IGFGenotypesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.IntegerTypeGenotypesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.SiteWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.StaticallyTypeGenotypesWriter.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriterManager.html using File::StripNondeterminism::handlers::javadoc
	Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/IntGenotypeFieldAccessors.html using File::StripNondeterminism::handlers::javadoc
   dh_compress -i -O--buildsystem=gradle
	cd debian/libhtsjdk-java
	cd debian/libhtsjdk-java-doc
	chmod a-x usr/share/doc/libhtsjdk-java/changelog.Debian
	gzip -9nf usr/share/doc/libhtsjdk-java/changelog.Debian
	cd '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
	chmod a-x usr/share/doc/libhtsjdk-java-doc/changelog.Debian
	gzip -9nf usr/share/doc/libhtsjdk-java-doc/changelog.Debian
	cd '/build/htsjdk-meg1tw/htsjdk-2.24.1+dfsg'
   dh_fixperms -i -O--buildsystem=gradle
	find debian/libhtsjdk-java ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/libhtsjdk-java-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
	find debian/libhtsjdk-java/usr/share/doc -type f -a -true -a ! -regex 'debian/libhtsjdk-java/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libhtsjdk-java/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/libhtsjdk-java -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libhtsjdk-java-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/libhtsjdk-java-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libhtsjdk-java-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755
	find debian/libhtsjdk-java-doc/usr/share/lintian/overrides -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
	find debian/libhtsjdk-java-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644
   dh_missing -i -O--buildsystem=gradle
   dh_installdeb -i -O--buildsystem=gradle
	install -d debian/libhtsjdk-java/DEBIAN
	install -d debian/libhtsjdk-java-doc/DEBIAN
   dh_gencontrol -i -O--buildsystem=gradle
	echo misc:Depends= >> debian/libhtsjdk-java.substvars
	echo misc:Pre-Depends= >> debian/libhtsjdk-java.substvars
	dpkg-gencontrol -plibhtsjdk-java -ldebian/changelog -Tdebian/libhtsjdk-java.substvars -Pdebian/libhtsjdk-java
	echo misc:Depends= >> debian/libhtsjdk-java-doc.substvars
	echo misc:Pre-Depends= >> debian/libhtsjdk-java-doc.substvars
	dpkg-gencontrol -plibhtsjdk-java-doc -ldebian/changelog -Tdebian/libhtsjdk-java-doc.substvars -Pdebian/libhtsjdk-java-doc
	chmod 0644 -- debian/libhtsjdk-java/DEBIAN/control
	chmod 0644 -- debian/libhtsjdk-java-doc/DEBIAN/control
   dh_md5sums -i -O--buildsystem=gradle
	cd debian/libhtsjdk-java >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	cd debian/libhtsjdk-java-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums
	chmod 0644 -- debian/libhtsjdk-java/DEBIAN/md5sums
	chmod 0644 -- debian/libhtsjdk-java-doc/DEBIAN/md5sums
   dh_builddeb -i -O--buildsystem=gradle
	dpkg-deb --root-owner-group --build debian/libhtsjdk-java ..
	dpkg-deb --root-owner-group --build debian/libhtsjdk-java-doc ..
dpkg-deb: building package 'libhtsjdk-java-doc' in '../libhtsjdk-java-doc_2.24.1+dfsg-1_all.deb'.
dpkg-deb: building package 'libhtsjdk-java' in '../libhtsjdk-java_2.24.1+dfsg-1_all.deb'.
 dpkg-genbuildinfo --build=all
 dpkg-genchanges --build=all >../htsjdk_2.24.1+dfsg-1_all.changes
dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included)
 dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
I: running special hook: sync-out /build/htsjdk-meg1tw /tmp/htsjdk-2.24.1+dfsg-1nkb5uakn
I: cleaning package lists and apt cache...
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I: creating tarball...
I: done
I: removing tempdir /tmp/mmdebstrap.FqIVzlvQhR...
I: success in 3088.5999 seconds
md5: libhtsjdk-java-doc_2.24.1+dfsg-1_all.deb: OK
md5: libhtsjdk-java_2.24.1+dfsg-1_all.deb: OK
sha1: libhtsjdk-java-doc_2.24.1+dfsg-1_all.deb: OK
sha1: libhtsjdk-java_2.24.1+dfsg-1_all.deb: OK
sha256: libhtsjdk-java-doc_2.24.1+dfsg-1_all.deb: OK
sha256: libhtsjdk-java_2.24.1+dfsg-1_all.deb: OK
Checksums: OK