Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/v/vcfanno/vcfanno_0.3.3+ds-1+b1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/vcfanno-0.3.3+ds-1+b1r7xxq7tj/vcfanno_0.3.3+ds-1+b1_amd64.buildinfo Get source package info: vcfanno=0.3.3+ds-1 Source URL: http://snapshot.notset.fr/mr/package/vcfanno/0.3.3+ds-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.3 autopoint=0.21-6 autotools-dev=20220109.1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6 binutils=2.38-3 binutils-common=2.38-3 binutils-x86-64-linux-gnu=2.38-3 bsdextrautils=2.38-4 bsdutils=1:2.38-4 build-essential=12.9 bzip2=1.0.8-5 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.3.0-1 dash=0.5.11+git20210903+057cd650a4ed-8 debconf=1.5.79 debhelper=13.7.1 debianutils=5.7-0.2 dh-autoreconf=20 dh-golang=1.55 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.7 dpkg-dev=1.21.7 dwz=0.14-1 file=1:5.41-4 findutils=4.9.0-3 g++=4:11.2.0-2 g++-11=11.3.0-1 gcc=4:11.2.0-2 gcc-11=11.3.0-1 gcc-11-base=11.3.0-1 gcc-12-base=12-20220428-1 gettext=0.21-6 gettext-base=0.21-6 golang-1.18-go=1.18.1-1 golang-1.18-src=1.18.1-1 golang-any=2:1.18~3 golang-github-biogo-hts-dev=1.4.3+dfsg1-1 golang-github-brentp-bix-dev=0.0~git20190718.00aa7a7+ds-2 golang-github-brentp-goluaez-dev=0.0~git20160116.dd35d08-2 golang-github-brentp-irelate-dev=0.0.1+ds-1 golang-github-brentp-vcfgo-dev=0.0~git20190824.654ed2e-2 golang-github-burntsushi-toml-dev=1.0.0-2 golang-github-cespare-xxhash-dev=2.1.1-2 golang-github-creack-pty-dev=1.1.17-1 golang-github-klauspost-compress-dev=1.13.6+ds1-2 golang-github-klauspost-pgzip-dev=1.2.5-1 golang-github-kr-pretty-dev=0.3.0-1 golang-github-kr-text-dev=0.2.0-1 golang-github-pkg-diff-dev=0.0~git20210226.20ebb0f-1 golang-github-pkg-errors-dev=0.9.1-2 golang-github-rogpeppe-go-internal-dev=1.8.1-1 golang-github-shenwei356-xopen-dev=0.0~git20181203.f4f16dd-2 golang-github-ulikunitz-xz-dev=0.5.6-2 golang-github-yuin-gluare-dev=0.0~git20170607.d7c94f1-2 golang-github-yuin-gopher-lua-dev=0.0~git20170915.0.eb1c729-4 golang-go=2:1.18~3 golang-golang-x-net-dev=1:0.0+git20220225.27dd868+dfsg-1 golang-golang-x-sys-dev=0.0~git20220422.9388b58-1 golang-golang-x-text-dev=0.3.7-1 golang-gopkg-check.v1-dev=0.0+git20200902.038fdea-1 golang-gopkg-errgo.v2-dev=2.1.0-2 golang-src=2:1.18~3 grep=3.7-1 groff-base=1.22.4-8 gzip=1.12-1 hostname=3.23 init-system-helpers=1.62 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libarchive-zip-perl=1.68-1 libasan6=11.3.0-1 libatomic1=12-20220428-1 libattr1=1:2.5.1-1 libaudit-common=1:3.0.7-1 libaudit1=1:3.0.7-1+b1 libbinutils=2.38-3 libblkid1=2.38-4 libbrotli1=1.0.9-2+b3 libbz2-1.0=1.0.8-5 libc-bin=2.33-7 libc-dev-bin=2.33-7 libc6=2.33-7 libc6-dev=2.33-7 libcap-ng0=0.7.9-2.2+b2 libcap2=1:2.44-1 libcc1-0=12-20220428-1 libcom-err2=1.46.5-2 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.38-3 libctf0=2.38-3 libcurl3-gnutls=7.83.0-1 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.262 libdebhelper-perl=13.7.1 libdeflate0=1.10-2 libdpkg-perl=1.21.7 libelf1=0.186-1 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libgcc-11-dev=11.3.0-1 libgcc-s1=12-20220428-1 libgcrypt20=1.10.1-2 libgdbm-compat4=1.23-1 libgdbm6=1.23-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.4-2 libgomp1=12-20220428-1 libgpg-error0=1.45-2 libgssapi-krb5-2=1.19.2-2+b1 libhogweed6=3.7.3-1 libhts3=1.13+ds-2 libhtscodecs2=1.2.1-1 libicu71=71.1-2 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=12-20220428-1 libk5crypto3=1.19.2-2+b1 libkeyutils1=1.6.1-3 libkrb5-3=1.19.2-2+b1 libkrb5support0=1.19.2-2+b1 libldap-2.5-0=2.5.11+dfsg-1 liblsan0=12-20220428-1 liblz4-1=1.9.3-2 liblzma5=5.2.5-2.1 libmagic-mgc=1:5.41-4 libmagic1=1:5.41-4 libmount1=2.38-4 libmpc3=1.2.1-2 libmpfr6=4.1.0-3 libncurses6=6.3+20220423-1 libnettle8=3.7.3-1 libnghttp2-14=1.47.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.1-1 libpam-modules=1.4.0-13 libpam-modules-bin=1.4.0-13 libpam-runtime=1.4.0-13 libpam0g=1.4.0-13 libpcre2-8-0=10.40-1 libpcre3=2:8.39-14 libperl5.34=5.34.0-4 libpipeline1=1.5.6-1 libpsl5=0.21.0-1.2 libquadmath0=12-20220428-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.28+dfsg-4 libsasl2-modules-db=2.1.28+dfsg-4 libseccomp2=2.5.4-1 libselinux1=3.3-1+b2 libsigsegv2=2.14-1 libsmartcols1=2.38-4 libssh2-1=1.10.0-3 libssl1.1=1.1.1n-1 libstdc++-11-dev=11.3.0-1 libstdc++6=12-20220428-1 libsub-override-perl=0.09-2 libsystemd0=250.4-1 libtasn1-6=4.18.0-4 libtinfo6=6.3+20220423-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.7-3 libtsan0=11.3.0-1 libubsan1=12-20220428-1 libuchardet0=0.0.7-1 libudev1=250.4-1 libunistring2=1.0-1 libuuid1=2.38-4 libxml2=2.9.13+dfsg-1+b1 libzstd1=1.5.2+dfsg-1 linux-libc-dev=5.17.3-1 login=1:4.11.1+dfsg1-2 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.10.2-1 mawk=1.3.4.20200120-3+b1 ncurses-base=6.3+20220423-1 ncurses-bin=6.3+20220423-1 patch=2.7.6-7 perl=5.34.0-4 perl-base=5.34.0-4 perl-modules-5.34=5.34.0-4 po-debconf=1.0.21+nmu1 rpcsvc-proto=1.4.2-4 samtools=1.13-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.03-1 tabix=1.13+ds-2 tar=1.34+dfsg-1 util-linux=2.38-4 util-linux-extra=2.38-4 xz-utils=5.2.5-2.1 zlib1g=1:1.2.11.dfsg-4 --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/20211104T025430Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211104T025430Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220501T215056Z/ 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 vcfanno=0.3.3+ds-1 && mkdir -p /build/vcfanno-aawDxH && dpkg-source --no-check -x /*.dsc /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && cd /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && { printf '%s' 'vcfanno (0.3.3+ds-1+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for outdated Built-Using -- all / amd64 / i386 Build Daemon (x86-conova-01) Sun, 01 May 2022 23:52:50 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/vcfanno-aawDxH" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1651449170" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/vcfanno-aawDxH /tmp/vcfanno-0.3.3+ds-1+b1r7xxq7tj bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220501T215056Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.qJ7BEAm7N6 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.qJ7BEAm7N6 Reading package lists... Building dependency tree... util-linux is already the newest version (2.38-4). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 135 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220501T215056Z unstable/main amd64 libfakeroot amd64 1.28-1 [48.2 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220501T215056Z unstable/main amd64 fakeroot amd64 1.28-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 135 kB in 0s (997 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 ... 4627 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.28-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.28-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.28-1_amd64.deb ... Unpacking fakeroot (1.28-1) ... Setting up libfakeroot:amd64 (1.28-1) ... Setting up fakeroot (1.28-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-7) ... 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/20211104T025430Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211104T025430Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220501T215056Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.qJ7BEAm7N6 Get:1 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm InRelease [128 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20220501T215056Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main Sources [11.7 MB] Get:4 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main amd64 Packages [11.2 MB] Fetched 23.0 MB in 19s (1213 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.qJ7BEAm7N6 I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d vcfanno=0.3.3+ds-1 && mkdir -p /build/vcfanno-aawDxH && dpkg-source --no-check -x /*.dsc /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && cd /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && { printf '%s' 'vcfanno (0.3.3+ds-1+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for outdated Built-Using -- all / amd64 / i386 Build Daemon (x86-conova-01) Sun, 01 May 2022 23:52:50 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/vcfanno-aawDxH"' exec /tmp/mmdebstrap.qJ7BEAm7N6 Reading package lists... NOTICE: 'vcfanno' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/vcfanno.git Please use: git clone https://salsa.debian.org/med-team/vcfanno.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 2773 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main vcfanno 0.3.3+ds-1 (dsc) [2432 B] Get:2 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main vcfanno 0.3.3+ds-1 (tar) [502 kB] Get:3 http://snapshot.notset.fr/archive/debian/20211104T025430Z bookworm/main vcfanno 0.3.3+ds-1 (diff) [2269 kB] Fetched 2773 kB in 2s (1233 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'vcfanno_0.3.3+ds-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting vcfanno in /build/vcfanno-aawDxH/vcfanno-0.3.3+ds dpkg-source: info: unpacking vcfanno_0.3.3+ds.orig.tar.xz dpkg-source: info: unpacking vcfanno_0.3.3+ds-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use-archive-xopen.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/vcfanno-aawDxH/vcfanno-0.3.3+ds && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1651449170" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.qJ7BEAm7N6 dpkg-buildpackage: info: source package vcfanno dpkg-buildpackage: info: source version 0.3.3+ds-1+b1 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by all / amd64 / i386 Build Daemon (x86-conova-01) dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=golang --with=golang dh_auto_clean -O--buildsystem=golang dh_autoreconf_clean -O--buildsystem=golang dh_clean -O--buildsystem=golang debian/rules binary-arch dh binary-arch --buildsystem=golang --with=golang dh_update_autotools_config -a -O--buildsystem=golang dh_autoreconf -a -O--buildsystem=golang dh_auto_configure -a -O--buildsystem=golang dh_auto_build -a -O--buildsystem=golang cd obj-x86_64-linux-gnu && go install -trimpath -v -p 10 github.com/brentp/vcfanno github.com/brentp/vcfanno/api github.com/brentp/vcfanno/shared internal/goos internal/goexperiment internal/goarch math/bits unicode/utf8 internal/itoa internal/unsafeheader internal/cpu runtime/internal/atomic internal/race sync/atomic internal/abi runtime/internal/syscall runtime/internal/math runtime/internal/sys unicode encoding container/list crypto/internal/subtle crypto/subtle unicode/utf16 vendor/golang.org/x/crypto/cryptobyte/asn1 internal/nettrace vendor/golang.org/x/crypto/internal/subtle internal/bytealg math runtime sync internal/reflectlite internal/singleflight internal/testlog math/rand runtime/cgo errors sort io internal/oserror path strconv crypto/elliptic/internal/fiat vendor/golang.org/x/net/dns/dnsmessage syscall container/heap hash bytes strings crypto/internal/randutil hash/crc32 crypto/hmac vendor/golang.org/x/crypto/hkdf crypto/rc4 reflect crypto vendor/golang.org/x/text/transform github.com/brentp/irelate/interfaces net/http/internal/ascii regexp/syntax bufio crypto/elliptic/internal/nistec time internal/syscall/execenv internal/syscall/unix regexp github.com/BurntSushi/toml/internal io/fs context internal/poll embed internal/fmtsort encoding/binary os crypto/cipher crypto/sha512 crypto/sha1 crypto/sha256 vendor/golang.org/x/crypto/curve25519/internal/field vendor/golang.org/x/crypto/internal/poly1305 encoding/base64 crypto/md5 crypto/ed25519/internal/edwards25519/field fmt io/ioutil path/filepath encoding/pem internal/godebug crypto/aes crypto/des vendor/golang.org/x/crypto/chacha20 vendor/golang.org/x/sys/cpu crypto/ed25519/internal/edwards25519 internal/intern net/netip vendor/golang.org/x/crypto/chacha20poly1305 os/exec flag encoding/hex net/url encoding/csv compress/flate github.com/BurntSushi/toml log github.com/pkg/errors github.com/yuin/gopher-lua/ast github.com/yuin/gopher-lua/pm math/big net vendor/golang.org/x/crypto/curve25519 vendor/golang.org/x/text/unicode/norm github.com/brentp/vcfgo vendor/golang.org/x/text/unicode/bidi github.com/yuin/gopher-lua/parse vendor/golang.org/x/net/http2/hpack mime compress/gzip github.com/klauspost/compress/flate mime/quotedprintable github.com/biogo/hts/bgzf net/http/internal os/user vendor/golang.org/x/text/secure/bidirule github.com/biogo/hts/bgzf/index github.com/yuin/gopher-lua vendor/golang.org/x/net/idna github.com/biogo/hts/csi github.com/biogo/hts/internal github.com/biogo/hts/tabix github.com/biogo/hts/sam github.com/klauspost/pgzip crypto/rand encoding/asn1 crypto/dsa crypto/ed25519 crypto/rsa crypto/elliptic vendor/golang.org/x/crypto/cryptobyte crypto/x509/pkix github.com/biogo/hts/bam github.com/brentp/irelate/parsers crypto/ecdsa github.com/brentp/bix github.com/yuin/gluare github.com/brentp/goluaez github.com/brentp/irelate github.com/brentp/vcfanno/api vendor/golang.org/x/net/http/httpproxy net/textproto crypto/x509 vendor/golang.org/x/net/http/httpguts mime/multipart crypto/tls net/http/httptrace net/http github.com/shenwei356/xopen github.com/brentp/vcfanno/shared github.com/brentp/vcfanno dh: command-omitted: The call to "dh_auto_test -a -O--buildsystem=golang" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=golang dh_prep -a -O--buildsystem=golang debian/rules override_dh_auto_install make[1]: Entering directory '/build/vcfanno-aawDxH/vcfanno-0.3.3+ds' dh_auto_install -- --no-source cd obj-x86_64-linux-gnu && mkdir -p /build/vcfanno-aawDxH/vcfanno-0.3.3\+ds/debian/tmp/usr cd obj-x86_64-linux-gnu && cp -r bin /build/vcfanno-aawDxH/vcfanno-0.3.3\+ds/debian/tmp/usr make[1]: Leaving directory '/build/vcfanno-aawDxH/vcfanno-0.3.3+ds' dh_install -a -O--buildsystem=golang debian/rules override_dh_installdocs make[1]: Entering directory '/build/vcfanno-aawDxH/vcfanno-0.3.3+ds' # Regenerate bam and bam index file cat debian/missing-sources/ex.sam| samtools view -Sb - > example/ex.bam samtools index example/ex.bam example/ex.bam.bai # Remove corrupt gz file rm -rf tests/notbgz/notbgz.vcf.gz # Regenerate all .tbi files tabix example/exac.vcf.gz tabix example/fitcons.bed.gz tabix tests/astar/astar.anno.vcf.gz tabix tests/by_alt_float/annotation.tsv.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "2 41647 A G 0.591814 8.493" tabix tests/citest/at/testexon.bed.gz tabix tests/citest/dummyexons.bed.gz tabix tests/data/multiple-alts.vcf.gz tabix tests/data/number.vcf.gz tabix tests/dbnsfp/dbNSFP_example.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072303 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072306 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/dbnsfp/dbNSFP_ex.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G A A V . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.01 0.56404 D Q96SF2 TCPQM_HUMAN 380 0.789 0.42612 P 0.542 0.47084 P 0.904520 0.08589 U 0.938783 0.885143 0.27956 N simple_aae A380V TCPQL_HUMAN A380V 2.93 0.84781 M 2.34 0.16357 T -3.1 0.63513 D NM_014406.4 A380V 0.141 0.16484 -1.0168 0.24741 T 0.0721 0.29265 T 10 5.216332 0.70443 25.6 0.99874441920417656 0.95120 0.57787 0.30213 DAEFGBI 0.140898394235071 3.051114 0.48442 0.0299346018802206 0.41293 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G C A G . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.033 0.44307 D Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 U 0.938783 0.903476 0.27629 N simple_aae A380G TCPQL_HUMAN A380G 2.93 0.84781 M 2.51 0.14293 T -2.32 0.51437 N NM_014406.4 A380G 0.103 0.10746 -0.8882 0.49115 T 0.0370 0.15942 T 10 3.370940 0.46354 22.9 0.99354601284678379 0.60415 0.63209 0.31754 DAEFGBI -0.422298261850935 1.3349 0.24762 -0.399121413419092 0.24558 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072301 17072302 G T A D . 22 16591412 22 15452302 CCT8L2 - GCC 2 0 g G/G G/G ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.004 0.65363 D Q96SF2 TCPQM_HUMAN 380 0.992 0.62897 D 0.889 0.61317 P 0.904520 0.08589 U 0.938783 0.641363 0.30591 N simple_aae A380D TCPQL_HUMAN A380D 2.93 0.84781 M 2.38 0.15849 T -3.02 0.62590 D NM_014406.4 A380D 0.399 0.45798 -0.9564 0.39865 T 0.0994 0.37051 T 10 5.077183 0.68398 25.3 0.99680235566444375 0.79002 0.61538 0.31252 DAEFGBI 0.302961726972868 3.794568 0.56349 0.143990621275748 0.47151 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 4.018000 0.56642 0.572000 0.28477 0.997000 0.39909 0.411000 0.25598 0.0:0.0:1.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C A A S . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 1.0 0.00963 T Q96SF2 TCPQM_HUMAN 380 0.09 0.23627 B 0.07 0.26378 B 0.904520 0.08589 N 0.938783 0.988396 0.24389 N simple_aae A380S TCPQL_HUMAN A380S 0.93 0.23636 L 2.52 0.14169 T -0.05 0.07751 N NM_014406.4 A380S 0.072 0.06067 -0.9413 0.42435 T 0.0190 0.07938 T 10 0.328585 0.12563 5.967 0.75658077739943641 0.10790 0.01742 0.05435 NAEFGBI -0.952241553466705 0.4572448 0.09664 -0.959672568167129 0.10513 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C G A P . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.168 0.22973 T Q96SF2 TCPQM_HUMAN 380 0.231 0.28914 B 0.179 0.34149 B 0.904520 0.08589 N 0.938783 0.910584 0.27489 N simple_aae A380P TCPQL_HUMAN A380P 1.83 0.48223 L 2.43 0.15268 T -2.6 0.55938 D NM_014406.4 A380P 0.246 0.30065 -0.9532 0.40439 T 0.0355 0.15290 T 10 1.588787 0.25254 13.79 0.97019856529327109 0.31467 0.02096 0.06147 NAEFGBI -0.653690275480882 0.8922109 0.17411 -0.724371843784986 0.16073 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072302 17072303 C T A T . 22 16591413 22 15452303 CCT8L2 - GCC 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 380 0.011 0.55478 D Q96SF2 TCPQM_HUMAN 380 0.62 0.38009 P 0.42 0.43281 B 0.904520 0.08589 U 0.938783 0.974599 0.25456 N simple_aae A380T TCPQL_HUMAN A380T 2.93 0.84781 M 2.38 0.15849 T -1.63 0.39092 N NM_014406.4 A380T 0.116 0.12740 -0.9890 0.32851 T 0.0565 0.23792 T 10 4.977856 0.66957 25.1 0.99619336564501015 0.75088 0.02107 0.06169 NAEFGBI -0.366914589131182 1.4564 0.26729 -0.531429606692027 0.20917 0.00151714177988376 0.08643 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 -0.865 0.10073 0.035000 0.13577 0.514000 0.28085 0.097000 0.22520 0.417000 0.25698 0.2835:0.437:0.2795:0.0 3.6701 0.07747 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C A G V . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.997 0.85043 D 0.001429 0.39031 U 0.000000 0.999999 0.58814 D simple_aae G379V TCPQL_HUMAN G379V 3.235 0.89818 M 0.17 0.60507 T -8.34 0.97032 D NM_014406.4 G379V 0.823 0.81093 -0.3590 0.73312 T 0.3588 0.72112 T 10 5.317930 0.71958 25.8 0.99597950363474697 0.73827 0.12361 0.17034 NAEFGBI 0.180546234526767 3.218253 0.50322 -0.032189250061603 0.38380 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C G G A . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.027 0.46462 D Q96SF2 TCPQM_HUMAN 379 0.967 0.54448 D 0.893 0.61563 P 0.001429 0.39031 U 0.000000 0.96704 0.38563 D simple_aae G379A TCPQL_HUMAN G379A 2.085 0.57921 M 0.23 0.59737 T -5.51 0.85890 D NM_014406.4 G379A 0.638 0.65489 -0.5215 0.67883 T 0.2845 0.65659 T 10 1.587093 0.25234 13.78 0.95704074870341493 0.27016 0.10995 0.16155 N AEFGBI 0.0767559827490708 2.795521 0.45442 -0.102097947215648 0.35323 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072304 17072305 C T G E . 22 16591415 22 15452305 CCT8L2 - GGA 2 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.001 0.78421 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.998 0.87503 D 0.001429 0.39031 U 0.000000 0.987014 0.40521 D simple_aae G379E TCPQL_HUMAN G379E 3.235 0.89818 M 0.19 0.60258 T -7.3 0.94470 D NM_014406.4 G379E 0.87 0.85752 -0.3469 0.73662 T 0.3588 0.72112 T 10 4.934483 0.66331 25.0 0.99672190146911999 0.78475 0.09552 0.15110 NAEFGBI 0.180844068315063 3.219533 0.50337 -0.0319789254027045 0.38387 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 0.304000 0.18840 0.514000 0.28085 0.101000 0.22602 0.430000 0.25913 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C A G X . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 . . . . . . . . . . . . 0.001429 0.39031 U 0.000000 1 0.81033 D complex_aae G379* TCPQL_HUMAN G379* . . . . . . . . . . . . . . . . . . . . 10.820180 0.97019 36 0.99023181097119439 0.50228 0.42257 0.26601 N AEFGBI 0.602300241062557 5.946894 0.73340 0.306416110176004 0.56174 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C G G R . 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.462289 0.74129 26.1 0.99854462032636349 0.93313 0.43619 0.26900 NAEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . TCP-1-like chaperonin intermediate domain . ." [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "22 17072305 17072306 C T G R rs764133439 22 16591416 22 15452306 CCT8L2 - GGA 1 0 c C/C C/C ENSG00000198445 ENST00000359963 ENSP00000353048 379 0.0 0.91219 D Q96SF2 TCPQM_HUMAN 379 1.0 0.89865 D 0.999 0.91584 D 0.001429 0.39031 U 0.000000 0.988568 0.40787 D simple_aae G379R TCPQL_HUMAN G379R 3.235 0.89818 M 0.18 0.60383 T -7.44 0.94858 D NM_014406.4 G379R 0.835 0.82245 -0.3469 0.73662 T 0.3588 0.72112 T 10 5.691531 0.77646 26.8 0.9985436076811024 0.93313 0.36787 0.25383 N AEFGBI 0.317324963236638 3.869725 0.57083 0.12440239999813 0.46107 0.00799435000615469 0.11615 0.487112 0.13308 0 0.573888 0.26071 0 0.547309 0.14640 0 0.564101 0.26208 0 1.98 1.98 0.25231 3.203000 0.50530 0.514000 0.28085 0.341000 0.25456 0.437000 0.26030 0.0:1.0:0.0:0.0 7.4423 0.26198 . . . . . . . . . . . . . . . . . . . . 2 1.647e-05 2 1.647e-05 0 0 2 1.727e-04 0 0 0 0 0 0 0 0 21.883e-05 2 1.883e-05 0 0 2 1.783e-04 0 0 0 0 0 0 0 0 2 2.204e-05 2 2.204e-05 0 0 2 1.729e-04 0 0 0 0 0 0 0 0 . . . . TCP-1-like chaperonin intermediate domain . ." tabix tests/id-test/cosmic.small.vcf.gz tabix tests/id-test/dbsnp.small.vcf.gz tabix tests/id-test/small.vcf.gz tabix tests/multiple-alts/ma-db.vcf.gz tabix tests/notbgz/gno.vcf.gz tabix tests/overwrite-multiple-alts/a/whole.vcf.gz tabix tests/overwrite-multiple-alts/b/cadd_indels.vcf.gz tabix tests/overwrite-multiple-alts/b/whole_genome_snv_slice.vcf.gz tabix tests/ref-alt-test/tmp_annotation.txt.gz [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT C 530 71 0.1340 194 71 0 460 59 0.1283 171 59 0 304 36 0.1184 116 36 0 94 11 0.1170 36 11 0" [E::get_intv] Failed to parse TBX_GENERIC, was wrong -p [type] used? The offending line was: "1 14397 rs756427959 CTGT CT 530 0 0.0000 265 0 0 460 0 0.0000 230 0 0 304 0 0.0000 152 0 0 94 0 0.0000 47 0 0" tabix tests/ref-alt-test/tmp_calls.vcf.gz tabix tests/testVA/test-gnomad.vcf.gz tabix docs/examples/gff_sv/genes.gff3.gz dh_installdocs make[1]: Leaving directory '/build/vcfanno-aawDxH/vcfanno-0.3.3+ds' dh_installchangelogs -a -O--buildsystem=golang dh_installman -a -O--buildsystem=golang dh_installsystemduser -a -O--buildsystem=golang dh_perl -a -O--buildsystem=golang dh_link -a -O--buildsystem=golang dh_strip_nondeterminism -a -O--buildsystem=golang dh_compress -a -O--buildsystem=golang dh_fixperms -a -O--buildsystem=golang dh_missing -a -O--buildsystem=golang dh_dwz -a -O--buildsystem=golang dwz: debian/vcfanno/usr/bin/vcfanno: .debug_info section not present dh_strip -a -O--buildsystem=golang dh_strip: warning: Could not find the BuildID in debian/vcfanno/usr/bin/vcfanno dh_makeshlibs -a -O--buildsystem=golang dh_shlibdeps -a -O--buildsystem=golang dh_installdeb -a -O--buildsystem=golang dh_golang -a -O--buildsystem=golang dh_gencontrol -a -O--buildsystem=golang dpkg-gencontrol: warning: package vcfanno: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -a -O--buildsystem=golang dh_builddeb -a -O--buildsystem=golang dpkg-deb: building package 'vcfanno' in '../vcfanno_0.3.3+ds-1+b1_amd64.deb'. dpkg-genbuildinfo --build=any -O../vcfanno_0.3.3+ds-1+b1_amd64.buildinfo dpkg-genchanges --build=any -O../vcfanno_0.3.3+ds-1+b1_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/vcfanno-aawDxH /tmp/vcfanno-0.3.3+ds-1+b1r7xxq7tj I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.qJ7BEAm7N6... I: success in 449.8040 seconds md5: vcfanno_0.3.3+ds-1+b1_amd64.deb: OK sha1: vcfanno_0.3.3+ds-1+b1_amd64.deb: OK sha256: vcfanno_0.3.3+ds-1+b1_amd64.deb: OK Checksums: OK