Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/m/microbiomeutil/microbiomeutil_20101212+dfsg1-4_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/microbiomeutil-20101212+dfsg1-4482c4o3c/microbiomeutil_20101212+dfsg1-4_amd64.buildinfo Get source package info: microbiomeutil=20101212+dfsg1-4 Source URL: http://snapshot.notset.fr/mr/package/microbiomeutil/20101212+dfsg1-4/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-14 automake=1:1.16.3-2 autopoint=0.21-3 autotools-dev=20180224.1+nmu1 base-files=11 base-passwd=3.5.48 bash=5.1-2 binutils=2.35.1-7 binutils-common=2.35.1-7 binutils-x86-64-linux-gnu=2.35.1-7 bsdextrautils=2.36.1-4 bsdutils=1:2.36.1-4 build-essential=12.9 bzip2=1.0.8-4 cdbfasta=1.00+git20181005.014498c+dfsg-1+b1 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.1-3 dash=0.5.11+git20200708+dd9ef66-5 debconf=1.5.74 debhelper=13.3.1 debianutils=4.11.2 dh-autoreconf=19 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-5 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13+20201015-2 file=1:5.39-3 findutils=4.7.0+git20201010-2 g++=4:10.2.0-1 g++-10=10.2.1-3 gcc=4:10.2.0-1 gcc-10=10.2.1-3 gcc-10-base=10.2.1-3 gettext=0.21-3 gettext-base=0.21-3 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-9 libarchive-zip-perl=1.68-1 libasan6=10.2.1-3 libatomic1=10.2.1-3 libattr1=1:2.4.48-6 libaudit-common=1:3.0-2 libaudit1=1:3.0-2 libbinutils=2.35.1-7 libblkid1=2.36.1-4 libbz2-1.0=1.0.8-4 libc-bin=2.31-9 libc-dev-bin=2.31-9 libc6=2.31-9 libc6-dev=2.31-9 libcap-ng0=0.7.9-2.2+b1 libcc1-0=10.2.1-3 libcom-err2=1.45.6-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-7 libctf0=2.35.1-7 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.256 libdebhelper-perl=13.3.1 libdpkg-perl=1.20.5 libelf1=0.182-3 libexpat1=2.2.10-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.1-3 libgcc-s1=10.2.1-3 libgclib2=0.11.10+ds-2 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgmp10=2:6.2.1+dfsg-1 libgomp1=10.2.1-3 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-4 libicu67=67.1-5 libisl23=0.23-1 libitm1=10.2.1-3 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 liblmdb0=0.9.24-1 liblsan0=10.2.1-3 liblz4-1=1.9.3-1 liblzma5=5.2.5-1.0 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmbedcrypto3=2.16.9-0.1 libmbedtls12=2.16.9-0.1 libmbedx509-0=2.16.9-0.1 libmount1=2.36.1-4 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncursesw6=6.2+20201114-2 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libpam-modules=1.4.0-2 libpam-modules-bin=1.4.0-2 libpam-runtime=1.4.0-2 libpam0g=1.4.0-2 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libperl5.32=5.32.0-6 libpipeline1=1.5.3-1 libpython3-stdlib=3.9.1-1 libpython3.9-minimal=3.9.1-1 libpython3.9-stdlib=3.9.1-1 libquadmath0=10.2.1-3 libreadline8=8.1-1 libseccomp2=2.5.1-1 libselinux1=3.1-2+b2 libsigsegv2=2.12-3 libsmartcols1=2.36.1-4 libsqlite3-0=3.34.0-1 libssl1.1=1.1.1i-1 libstdc++-10-dev=10.2.1-3 libstdc++6=10.2.1-3 libsub-override-perl=0.09-2 libsystemd0=247.2-4 libtinfo6=6.2+20201114-2 libtirpc-common=1.3.1-1 libtirpc-dev=1.3.1-1 libtirpc3=1.3.1-1 libtool=2.4.6-14 libtsan0=10.2.1-3 libubsan1=10.2.1-3 libuchardet0=0.0.7-1 libudev1=247.2-4 libunistring2=0.9.10-4 libuuid1=2.36.1-4 libxml2=2.9.10+dfsg-6.3+b1 libzstd1=1.4.8+dfsg-1 linux-libc-dev=5.10.4-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 mailcap=3.68 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 media-types=3.0.0 mime-support=3.66 ncbi-blast+=2.10.1+ds-1 ncbi-blast+-legacy=2.10.1+ds-1 ncbi-data=6.1.20170106+dfsg1-9 ncurses-base=6.2+20201114-2 ncurses-bin=6.2+20201114-2 patch=2.7.6-6 perl=5.32.0-6 perl-base=5.32.0-6 perl-modules-5.32=5.32.0-6 po-debconf=1.0.21+nmu1 python3=3.9.1-1 python3-minimal=3.9.1-1 python3.9=3.9.1-1 python3.9-minimal=3.9.1-1 readline-common=8.1-1 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-5 tar=1.32+dfsg-1 tzdata=2020f-1 util-linux=2.36.1-4 xz-utils=5.2.5-1.0 zlib1g=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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210108T025743Z/ unstable 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 microbiomeutil=20101212+dfsg1-4 && mkdir -p /build/microbiomeutil-JGF0Pr && dpkg-source --no-check -x /*.dsc /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1 && chown -R builduser:builduser /build/microbiomeutil-JGF0Pr" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1610090750" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/microbiomeutil-JGF0Pr /tmp/microbiomeutil-20101212+dfsg1-4482c4o3c bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20210108T025743Z unstable 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.QDamlAhuae 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.QDamlAhuae Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-4). 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/20210108T025743Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210108T025743Z unstable/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 (1116 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4647 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 (2.31-9) ... 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210108T025743Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.QDamlAhuae Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20210108T025743Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 22s (1024 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.QDamlAhuae I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d microbiomeutil=20101212+dfsg1-4 && mkdir -p /build/microbiomeutil-JGF0Pr && dpkg-source --no-check -x /*.dsc /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1 && chown -R builduser:builduser /build/microbiomeutil-JGF0Pr"' exec /tmp/mmdebstrap.QDamlAhuae Reading package lists... NOTICE: 'microbiomeutil' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/microbiomeutil.git Please use: git clone https://salsa.debian.org/med-team/microbiomeutil.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 1623 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main microbiomeutil 20101212+dfsg1-4 (dsc) [2402 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main microbiomeutil 20101212+dfsg1-4 (tar) [1610 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main microbiomeutil 20101212+dfsg1-4 (diff) [10.2 kB] Fetched 1623 kB in 1s (1208 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'microbiomeutil_20101212+dfsg1-4.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting microbiomeutil in /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1 dpkg-source: info: unpacking microbiomeutil_20101212+dfsg1.orig.tar.xz dpkg-source: info: unpacking microbiomeutil_20101212+dfsg1-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix_perl_interpreter.patch dpkg-source: info: applying find_relocated_resources.patch dpkg-source: info: applying find_relocated_libraries.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying enable_tests_in_local_dir.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1610090750" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.QDamlAhuae dpkg-buildpackage: info: source package microbiomeutil dpkg-buildpackage: info: source version 20101212+dfsg1-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_auto_clean make -j4 clean make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ do echo '<<<' $i '>>>'; cd $X/$i; make clean; done <<< NAST-iEr >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cd ./sample_data; make clean make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' rm -f tmp.* make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' rm -f NAST-iEr make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' <<< ChimeraSlayer >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cd ./sample_data; make clean make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' rm -f chims.NAST.* rm -f sample_DB.NAST.cidx rm -f sample_DB.fasta.* rm -f tmp.* rm -f formatdb.log make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' <<< WigeoN >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cd ./sample_data; make clean make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' rm -f tmp.* rm -f chims.NAST.* make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' <<< RESOURCES >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/RESOURCES' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. rm -f *fasta.* make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/RESOURCES' make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' rm -f RESOURCES/rRNA16S.gold.fasta.n* RESOURCES/*.cidx rm -f formatdb.log make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a dh_auto_configure -a debian/rules override_dh_auto_build make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_auto_build make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' X=`pwd`; \ for i in NAST-iEr ChimeraSlayer WigeoN RESOURCES; \ do echo '<<<' $i '>>>'; cd $X/$i; make all; done <<< NAST-iEr >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now NAST-iEr.c -o NAST-iEr NAST-iEr.c: In function ‘main’: NAST-iEr.c:106:8: warning: implicit declaration of function ‘isprint’ [-Wimplicit-function-declaration] 106 | if (isprint (optopt)) { | ^~~~~~~ make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' <<< ChimeraSlayer >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' <<< WigeoN >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' <<< RESOURCES >>> make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/RESOURCES' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/RESOURCES' make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' #Pre-make indexes for ChimeraSlayer, otherwise it tries to write them #to the non-writeable dir on first run and blows up formatdb -p F -i RESOURCES/rRNA16S.gold.fasta 2>/dev/null Building a new DB, current time: 10/14/2021 07:36:58 New DB name: /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/RESOURCES/rRNA16S.gold.fasta New DB title: RESOURCES/rRNA16S.gold.fasta Sequence type: Nucleotide Keep MBits: T Maximum file size: 1000000000B Adding sequences from FASTA; added 5181 sequences in 0.777751 seconds. cdbfasta -C RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta 5181 entries from file RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta were indexed in file RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta.cidx make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' debian/rules override_dh_auto_test make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_auto_test make -j4 test make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' cd NAST-iEr; make test make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cd ./sample_data; make test cd WigeoN; make test cd ChimeraSlayer; make test make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. cd ./sample_data; make test make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' # make[3]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. #*************** TESTING NAST-iEr *********************** cd ./sample_data; make test # ./testForUtils.pl make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' # #********** TESTING Chimera Slayer *************" # make[4]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' # ./runMe.sh #************* TESTING WigeoN ********************" # ./runMe.sh ./runMe.sh query to NAST format ../NAST-iEr template_seqs.NAST query_seq.fasta > tmp.query.NAST Can't locate Fasta_reader.pm in @INC (you may need to install the Fasta_reader module) (@INC contains: /usr/lib/WigeoN/PerlLib /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.0 /usr/local/share/perl/5.32.0 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at ../run_WigeoN.pl line 13. BEGIN failed--compilation aborted at ../run_WigeoN.pl line 13. make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN' CMD: ../../ChimeraSlayer/ChimeraParentSelector/run_chimeraParentSelector.pl --query_NAST chims.NAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta --db_FASTA ../../RESOURCES/rRNA16S.gold.fasta -n 15 -P 90 -R 1.007 > chims.NAST.CPS query and template (profile) to query NAST and template consensus NAST ../NAST-iEr -b template_seqs.NAST query_seq.fasta > tmp.both.NAST converting NAST mfasta to multi-alignment output highlighting differences ../show_malign_no_gap.pl --IGNOREGAPS tmp.both.NAST > tmp.both.NAST.malign Run via the megablast wrapper /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 Num template seqs to align to: 2 Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 11681 make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr' T(1)=2 s ChimeraParentSelector(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=1 s ChimeraParentSelector(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 1 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=1 s ChimeraParentSelector(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 1 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 2 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraParentSelector/chimeraParentSelector.pl --query_NAST /tmp/tmp.1127780.query --db_NAST /tmp/tmp.1127780.db -R 1.007 T(1)=2 s ChimeraParentSelector(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 2 seconds CMD: ../../ChimeraSlayer/ChimeraParentSelector/CPS_to_RENAST.pl --CPS_output chims.NAST.CPS --query_NAST chims.NAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta > chims.NAST.CPS_RENAST processing: ChimeraParentSelector chmraD24_7000004128191580_1-4580:4581-7682_S000428666 YES 100.00[(7000004128191580, NAST:164-4593, ECO:36-940, RawLen:876, G:90.90, L:100.00, 1.100);(S000428666, NAST:4594-6747, ECO:940-1470, RawLen:531, G:84.36, L:100.00, 1.185)] 10 entries from file chims.NAST were indexed in file chims.NAST.cidx Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 10945 processing: ChimeraParentSelector chmraD19_S000378387_1-5075:5076-7682_S000016146 YES 100.00[(S000378387, NAST:443-5077, ECO:94-1125, RawLen:1041, G:96.08, L:100.00, 1.041);(S000016146, NAST:5079-6498, ECO:1126-1424, RawLen:301, G:85.08, L:100.00, 1.175)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 12151 processing: ChimeraParentSelector chmraD12_7000004131500344_1-4694:4695-7682_S000127669 YES 100.00[(7000004131500344, NAST:426-4710, ECO:86-999, RawLen:914, G:96.38, L:100.00, 1.038);(S000127669, NAST:4711-6711, ECO:999-1451, RawLen:453, G:92.52, L:100.00, 1.081)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 12852 processing: ChimeraParentSelector chmraD13_S000004801_1-4690:4691-7682_S000437365 YES 100.00[(S000004801, NAST:455-4707, ECO:101-997, RawLen:913, G:96.34, L:100.00, 1.038);(S000437365, NAST:4708-6424, ECO:997-1382, RawLen:391, G:90.85, L:100.00, 1.101)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 12579 processing: ChimeraParentSelector chmraD9_S000437007_1-4525:4526-7682_S000437299 YES 100.00[(S000437007, NAST:164-4657, ECO:36-982, RawLen:903, G:96.21, L:100.00, 1.039);(S000437299, NAST:4658-6422, ECO:983-1380, RawLen:401, G:94.45, L:100.00, 1.059)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 13167 processing: ChimeraParentSelector chmraD17_S000414109_1-4650:4651-7682_S000253432 YES 100.00[(S000414109, NAST:153-4671, ECO:31-990, RawLen:907, G:94.16, L:100.00, 1.062);(S000253432, NAST:4673-6716, ECO:991-1453, RawLen:462, G:88.62, L:100.00, 1.128)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 11650 processing: ChimeraParentSelector chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963 YES 100.00[(7000004131502379, NAST:489-4623, ECO:115-959, RawLen:851, G:92.66, L:100.00, 1.079);(7000004128198963, NAST:4625-6422, ECO:961-1380, RawLen:422, G:84.94, L:100.00, 1.177)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 11807 processing: ChimeraParentSelector chmraD8_S000004272_1-3794:3795-7682_S000503167 YES 100.00[(S000004272, NAST:162-3829, ECO:35-701, RawLen:668, G:95.64, L:100.00, 1.046);(S000503167, NAST:3831-6464, ECO:702-1405, RawLen:705, G:95.81, L:100.00, 1.044)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 13234 processing: ChimeraParentSelector chmraD11_S000436014_1-5755:5756-7682_7000004128189973 YES 100.00[(S000436014, NAST:428-5920, ECO:88-1237, RawLen:1122, G:97.80, L:100.00, 1.022);(7000004128189973, NAST:5921-6521, ECO:1238-1435, RawLen:200, G:91.75, L:100.00, 1.090)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 12609 processing: ChimeraParentSelector chmraD23_S000009720_1-5056:5057-7682_S000437236 YES 100.00[(S000009720, NAST:184-5057, ECO:47-1116, RawLen:1079, G:96.18, L:100.00, 1.040);(S000437236, NAST:5058-6474, ECO:1117-1411, RawLen:296, G:81.53, L:100.00, 1.227)] Alignment parameters: MATCH: 5 MISMATCH: -4 GAP: -4 Highest score: 11227 CMD: ../../ChimeraSlayer/ChimeraPhyloChecker/CPS_to_CPC.pl --CPS_output chims.NAST.CPS --query_NAST chims.NAST.CPS_RENAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta -P 90 -R 1.007 --minBS 90 --printAlignments > chims.NAST.CPS.CPC 10 entries from file chims.NAST.CPS_RENAST were indexed in file chims.NAST.CPS_RENAST.cidx /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (7000004128191580, S000428666) or (0, 1) took 6 seconds ChimeraSlayer(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 17 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000378387, S000016146) or (0, 1) took 6 seconds ChimeraSlayer(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 13 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (7000004131500344, S000127669) or (0, 1) took 6 seconds ChimeraSlayer(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 12 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000004801, S000437365) or (0, 1) took 6 seconds ChimeraSlayer(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 13 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000437007, S000437299) or (0, 1) took 6 seconds ChimeraSlayer(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 12 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000414109, S000253432) or (0, 1) took 5 seconds ChimeraSlayer(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 12 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (7000004131502379, 7000004128198963) or (0, 1) took 7 seconds ChimeraSlayer(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 18 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000503167, S000004272) or (0, 1) took 5 seconds ChimeraSlayer(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 8 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000436014, 7000004128189973) or (0, 1) took 5 seconds ChimeraSlayer(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 8 seconds /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/ChimeraPhyloChecker/ChimeraPhyloChecker.pl --query_NAST /tmp/tmp.1128500.query --db_NAST /tmp/tmp.1128500.db -P 90 -R 1.007 --minBS 90 --printAlignments examined parents (S000009720, S000437236) or (0, 1) took 6 seconds ChimeraSlayer(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 13 seconds CMD: ../../ChimeraSlayer/util/CS_add_taxonomy.pl < chims.NAST.CPS.CPC > chims.NAST.CPS.CPC.wTaxons CMD: ../../ChimeraSlayer/ChimeraParentSelector/CPC_to_CPS.pl --CPC_output chims.NAST.CPS.CPC --query_NAST chims.NAST.CPS_RENAST --db_NAST ../../RESOURCES/rRNA16S.gold.NAST_ALIGNED.fasta > chims.NAST.CPS.CPC.align T(1)=0 s ChimeraParentSelector(chmraD24_7000004128191580_1-4580:4581-7682_S000428666) took 0 seconds T(1)=0 s ChimeraParentSelector(chmraD19_S000378387_1-5075:5076-7682_S000016146) took 0 seconds T(1)=0 s ChimeraParentSelector(chmraD12_7000004131500344_1-4694:4695-7682_S000127669) took 0 seconds T(1)=1 s ChimeraParentSelector(chmraD13_S000004801_1-4690:4691-7682_S000437365) took 1 seconds T(1)=0 s ChimeraParentSelector(chmraD9_S000437007_1-4525:4526-7682_S000437299) took 0 seconds T(1)=1 s ChimeraParentSelector(chmraD17_S000414109_1-4650:4651-7682_S000253432) took 1 seconds T(1)=0 s ChimeraParentSelector(chmraD22_7000004131502379_1-4625:4626-7682_7000004128198963) took 0 seconds T(1)=0 s ChimeraParentSelector(chmraD8_S000004272_1-3794:3795-7682_S000503167) took 0 seconds T(1)=0 s ChimeraParentSelector(chmraD11_S000436014_1-5755:5756-7682_7000004128189973) took 0 seconds T(1)=0 s ChimeraParentSelector(chmraD23_S000009720_1-5056:5057-7682_S000437236) took 0 seconds make[4]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' make[3]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer' make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' cd /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data && /usr/bin/make clean make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' rm -f chims.NAST.* rm -f sample_DB.NAST.cidx rm -f sample_DB.fasta.* rm -f tmp.* rm -f formatdb.log make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/ChimeraSlayer/sample_data' cd /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data && /usr/bin/make clean make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' rm -f tmp.* make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/NAST-iEr/sample_data' cd /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data && /usr/bin/make clean make[2]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' rm -f tmp.* rm -f chims.NAST.* make[2]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/WigeoN/sample_data' rm -f RESOURCES/rRNA16S.gold.fasta.n* RESOURCES/*.cidx rm -f formatdb.log make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' create-stamp debian/debhelper-build-stamp dh_prep -a dh_auto_install -a debian/rules override_dh_install make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_install -XMakefile -Xsample_data -XLICENSE -XNAST-iEr.c find debian -name '*.pl' -o -name '*.pm' | xargs sed -i 's|/usr/bin/env perl|/usr/bin/perl|g' make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_installexamples for mod in ChimeraSlayer NAST-iEr WigeoN ; do \ mkdir -p /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/debian/microbiomeutil-data/usr/share/doc/microbiomeutil-data/examples/${mod} ; \ cp -a ${mod}/sample_data/* /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/debian/microbiomeutil-data/usr/share/doc/microbiomeutil-data/examples/${mod} ; \ sed -i -e "s?../${mod}?${mod}?" \ -e "s?^.*\(/util/show_malign_no_gap.pl\)?/usr/lib/NAST-iEr\1?" \ -e "s?^.*\(/run_NAST-iEr.pl\)?/usr/lib/NAST-iEr\1?" \ -e "s?^.*\(ChimeraSlayer.pl\)?/usr/lib/ChimeraSlayer/\1?" \ -e "s?^.*\(/run_WigeoN.pl\)?/usr/lib/WigeoN\1?" \ /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/debian/microbiomeutil-data/usr/share/doc/microbiomeutil-data/examples/${mod}/runMe.sh ; \ done sed -i '1i #!/bin/sh' /build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1/debian/microbiomeutil-data/usr/share/doc/microbiomeutil-data/examples/WigeoN/runMe.sh make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a debian/rules override_dh_fixperms make[1]: Entering directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_fixperms find debian -type f -name '*.pm' -print0 | xargs -0r chmod a-x find debian -type f -name 'genus_counter.pl' -print0 | xargs -0r chmod a+x make[1]: Leaving directory '/build/microbiomeutil-JGF0Pr/microbiomeutil-20101212+dfsg1' dh_missing -a dh_dwz -a -a dh_strip -a -a dh_makeshlibs -a -a dh_shlibdeps -a -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package nast-ier: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package nast-ier: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'nast-ier' in '../nast-ier_20101212+dfsg1-4_amd64.deb'. dpkg-deb: building package 'nast-ier-dbgsym' in '../nast-ier-dbgsym_20101212+dfsg1-4_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../microbiomeutil_20101212+dfsg1-4_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/microbiomeutil-JGF0Pr /tmp/microbiomeutil-20101212+dfsg1-4482c4o3c I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.QDamlAhuae... I: success in 521.1310 seconds md5: nast-ier-dbgsym_20101212+dfsg1-4_amd64.deb: OK md5: nast-ier_20101212+dfsg1-4_amd64.deb: OK sha1: nast-ier-dbgsym_20101212+dfsg1-4_amd64.deb: OK sha1: nast-ier_20101212+dfsg1-4_amd64.deb: OK sha256: nast-ier-dbgsym_20101212+dfsg1-4_amd64.deb: OK sha256: nast-ier_20101212+dfsg1-4_amd64.deb: OK Checksums: OK