Source: vcfanno Version: 0.3.5+ds-1 Severity: minor Tags: trixie sid ftbfs User: [email protected] Usertags: ftbfs-binary-20230816 ftbfs-binary-after-build User: [email protected] Usertags: qa-doublebuild
Hi, This package fails to do build a binary-only build (not source) after a successful build (dpkg-buildpackage ; dpkg-buildpackage -b). This is probably a clear violation of Debian Policy section 4.9 (clean target), but this is filed as severity:minor for now, because a discussion on debian-devel showed that we might want to revisit the requirement of a working 'clean' target. More information about this class of issues, included common problems and solutions, is available at https://wiki.debian.org/qa.debian.org/FTBFS/DoubleBuild Relevant part of the build log: > cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage --sanitize-env > -us -uc -rfakeroot -b > ------------------------------------------------------------------------------------------------------------------------ > > dpkg-buildpackage: info: source package vcfanno > dpkg-buildpackage: info: source version 0.3.5+ds-1 > dpkg-buildpackage: info: source distribution unstable > dpkg-buildpackage: info: source changed by Nilesh Patra <[email protected]> > 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 > dh binary --buildsystem=golang --with=golang > dh_update_autotools_config -O--buildsystem=golang > dh_autoreconf -O--buildsystem=golang > dh_auto_configure -O--buildsystem=golang > dh_auto_build -O--buildsystem=golang > cd obj-x86_64-linux-gnu && go install -trimpath -v -p 8 > github.com/brentp/vcfanno github.com/brentp/vcfanno/api > github.com/brentp/vcfanno/shared > encoding > internal/goarch > internal/unsafeheader > runtime/internal/math > internal/goexperiment > internal/goos > internal/coverage/rtcov > internal/cpu > internal/abi > internal/itoa > runtime/internal/atomic > runtime/internal/sys > runtime/internal/syscall > math/bits > unicode/utf8 > internal/race > sync/atomic > unicode > unicode/utf16 > container/list > internal/bytealg > math > crypto/internal/alias > crypto/subtle > crypto/internal/boring/sig > vendor/golang.org/x/crypto/cryptobyte/asn1 > internal/nettrace > vendor/golang.org/x/crypto/internal/alias > runtime > internal/reflectlite > sync > internal/testlog > internal/godebug > internal/singleflight > runtime/cgo > math/rand > internal/intern > errors > sort > io > strconv > internal/oserror > internal/safefilepath > path > crypto/internal/nistec/fiat > container/heap > syscall > vendor/golang.org/x/net/dns/dnsmessage > bytes > hash > strings > hash/crc32 > crypto/internal/randutil > vendor/golang.org/x/text/transform > crypto > reflect > crypto/rc4 > net/netip > github.com/brentp/irelate/interfaces > bufio > regexp/syntax > net/http/internal/ascii > regexp > internal/syscall/unix > time > internal/syscall/execenv > io/fs > github.com/BurntSushi/toml/internal > context > internal/poll > embed > internal/fmtsort > encoding/binary > os > encoding/base64 > crypto/cipher > crypto/internal/edwards25519/field > crypto/internal/nistec > crypto/md5 > vendor/golang.org/x/crypto/internal/poly1305 > encoding/pem > crypto/des > crypto/internal/boring > vendor/golang.org/x/crypto/chacha20 > crypto/aes > crypto/sha512 > crypto/hmac > crypto/internal/edwards25519 > crypto/sha1 > crypto/sha256 > io/ioutil > fmt > path/filepath > net > vendor/golang.org/x/sys/cpu > vendor/golang.org/x/crypto/hkdf > vendor/golang.org/x/crypto/chacha20poly1305 > os/exec > crypto/ecdh > encoding/json > encoding/hex > net/url > compress/flate > encoding/csv > log > flag > github.com/pkg/errors > github.com/yuin/gopher-lua/ast > github.com/brentp/vcfgo > github.com/yuin/gopher-lua/pm > math/big > github.com/yuin/gopher-lua/parse > vendor/golang.org/x/text/unicode/bidi > compress/gzip > github.com/klauspost/compress/flate > github.com/biogo/hts/bgzf > vendor/golang.org/x/text/unicode/norm > github.com/BurntSushi/toml > github.com/biogo/hts/bgzf/index > vendor/golang.org/x/text/secure/bidirule > github.com/biogo/hts/csi > github.com/biogo/hts/internal > github.com/yuin/gopher-lua > vendor/golang.org/x/net/http2/hpack > github.com/biogo/hts/tabix > github.com/biogo/hts/sam > mime > vendor/golang.org/x/net/idna > github.com/klauspost/pgzip > mime/quotedprintable > net/http/internal > os/user > crypto/elliptic > crypto/rand > crypto/internal/bigmod > github.com/biogo/hts/bam > crypto/internal/boring/bbig > encoding/asn1 > crypto/ed25519 > crypto/rsa > github.com/brentp/irelate/parsers > crypto/dsa > vendor/golang.org/x/crypto/cryptobyte > crypto/x509/pkix > github.com/brentp/bix > crypto/ecdsa > github.com/brentp/irelate > github.com/yuin/gluare > github.com/brentp/goluaez > github.com/brentp/vcfanno/api > net/textproto > vendor/golang.org/x/net/http/httpproxy > crypto/x509 > mime/multipart > vendor/golang.org/x/net/http/httpguts > crypto/tls > net/http/httptrace > net/http > github.com/shenwei356/xopen > github.com/brentp/vcfanno/shared > github.com/brentp/vcfanno > dh_auto_test -O--buildsystem=golang > cd obj-x86_64-linux-gnu && go test -vet=off -v -p 8 > github.com/brentp/vcfanno github.com/brentp/vcfanno/api > github.com/brentp/vcfanno/shared > ? github.com/brentp/vcfanno/shared [no test files] > testing: warning: no tests to run > PASS > ok github.com/brentp/vcfanno 0.017s [no tests to run] > === RUN Test > OK: 13 passed > --- PASS: Test (0.06s) > === RUN TestHandleA > --- PASS: TestHandleA (0.00s) > === RUN TestHandlAMulti > --- PASS: TestHandlAMulti (0.00s) > === RUN TestByAlt > --- PASS: TestByAlt (0.00s) > PASS > ok github.com/brentp/vcfanno/api 0.072s > create-stamp debian/debhelper-build-stamp > dh_testroot -O--buildsystem=golang > dh_prep -O--buildsystem=golang > debian/rules override_dh_auto_install > make[1]: Entering directory '/<<PKGBUILDDIR>>' > dh_auto_install -- --no-source > cd obj-x86_64-linux-gnu && mkdir -p > /<<BUILDDIR>>/vcfanno-0.3.5\+ds/debian/tmp/usr > cd obj-x86_64-linux-gnu && cp -r bin > /<<BUILDDIR>>/vcfanno-0.3.5\+ds/debian/tmp/usr > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_install -O--buildsystem=golang > debian/rules override_dh_installdocs > make[1]: Entering directory '/<<PKGBUILDDIR>>' > # 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] the index file exists. Please use '-f' to overwrite. > make[1]: *** [debian/rules:17: override_dh_installdocs] Error 1 > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > make: *** [debian/rules:5: binary] Error 2 > dpkg-buildpackage: error: debian/rules binary subprocess returned exit status > 2 > > E: Command 'cd /<<PKGBUILDDIR>> && runuser -u user42 -- dpkg-buildpackage > --sanitize-env -us -uc -rfakeroot -b' failed to run. The full build log is available from: http://qa-logs.debian.net/2023/08/16/vcfanno_0.3.5+ds-1_unstable.log If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
