Your message dated Sun, 21 Aug 2022 11:34:12 +0000
with message-id <[email protected]>
and subject line Bug#1017270: fixed in golang-github-biogo-hts 1.4.3+dfsg1-2
has caused the Debian Bug report #1017270,
regarding golang-github-biogo-hts: FTBFS: dh_auto_test: error: cd
obj-x86_64-linux-gnu && go test -vet=off -v -p 8 github.com/biogo/hts/bam
github.com/biogo/hts/bgzf github.com/biogo/hts/bgzf/cache
github.com/biogo/hts/bgzf/index github.com/biogo/hts/cram
github.com/biogo/hts/cram/encoding/itf8 github.com/biogo/hts/cram/encoding/ltf8
github.com/biogo/hts/csi github.com/biogo/hts/fai github.com/biogo/hts/internal
github.com/biogo/hts/sam github.com/biogo/hts/tabix returned exit code 1
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
1017270: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1017270
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: golang-github-biogo-hts
Version: 1.4.3+dfsg1-1
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: [email protected]
Usertags: ftbfs-20220813 ftbfs-bookworm
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[1]: Entering directory '/<<PKGBUILDDIR>>'
> rm -f bgzf/line_example_test.go
> make[1]: Leaving directory '/<<PKGBUILDDIR>>'
> 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/biogo/hts/bam github.com/biogo/hts/bgzf
> github.com/biogo/hts/bgzf/cache github.com/biogo/hts/bgzf/index
> github.com/biogo/hts/cram github.com/biogo/hts/cram/encoding/itf8
> github.com/biogo/hts/cram/encoding/ltf8 github.com/biogo/hts/csi
> github.com/biogo/hts/fai github.com/biogo/hts/internal
> github.com/biogo/hts/sam github.com/biogo/hts/tabix
> internal/unsafeheader
> internal/goexperiment
> internal/goarch
> internal/race
> internal/goos
> runtime/internal/atomic
> sync/atomic
> runtime/internal/syscall
> internal/cpu
> unicode
> unicode/utf8
> internal/itoa
> internal/abi
> runtime/internal/math
> runtime/internal/sys
> math/bits
> github.com/ulikunitz/xz/internal/hash
> internal/bytealg
> github.com/biogo/hts/cram/encoding/itf8
> github.com/biogo/hts/cram/encoding/ltf8
> math
> runtime
> sync
> internal/reflectlite
> internal/testlog
> errors
> sort
> internal/oserror
> path
> strconv
> io
> syscall
> container/heap
> hash
> strings
> bytes
> hash/crc32
> bufio
> reflect
> compress/bzip2
> internal/syscall/execenv
> internal/syscall/unix
> time
> internal/poll
> io/fs
> os
> internal/fmtsort
> encoding/binary
> io/ioutil
> fmt
> github.com/ulikunitz/xz/internal/xlog
> encoding/hex
> encoding/csv
> net/url
> compress/flate
> github.com/biogo/hts/fai
> github.com/ulikunitz/xz/lzma
> compress/gzip
> github.com/biogo/hts/bgzf
> github.com/biogo/hts/bgzf/cache
> github.com/biogo/hts/bgzf/index
> github.com/biogo/hts/csi
> github.com/biogo/hts/internal
> github.com/biogo/hts/sam
> github.com/biogo/hts/tabix
> github.com/biogo/hts/cram
> github.com/biogo/hts/bam
> dh_auto_test -O--buildsystem=golang
> cd obj-x86_64-linux-gnu && go test -vet=off -v -p 8
> github.com/biogo/hts/bam github.com/biogo/hts/bgzf
> github.com/biogo/hts/bgzf/cache github.com/biogo/hts/bgzf/index
> github.com/biogo/hts/cram github.com/biogo/hts/cram/encoding/itf8
> github.com/biogo/hts/cram/encoding/ltf8 github.com/biogo/hts/csi
> github.com/biogo/hts/fai github.com/biogo/hts/internal
> github.com/biogo/hts/sam github.com/biogo/hts/tabix
> === RUN Test
> OK: 15 passed
> --- PASS: Test (0.07s)
> === RUN TestFuzzCrashers
> --- PASS: TestFuzzCrashers (3.16s)
> === RUN TestMerger
> --- PASS: TestMerger (0.12s)
> PASS
> ok github.com/biogo/hts/bam 3.512s
> === RUN TestEmpty
> --- PASS: TestEmpty (0.00s)
> === RUN TestEOF
> --- PASS: TestEOF (0.00s)
> === RUN TestRoundTrip
> --- PASS: TestRoundTrip (0.01s)
> === RUN TestRoundTripMulti
> --- PASS: TestRoundTripMulti (0.01s)
> === RUN TestHeaderIssue57
> --- PASS: TestHeaderIssue57 (0.00s)
> === RUN TestRoundTripMultiSeek
> --- PASS: TestRoundTripMultiSeek (0.00s)
> === RUN TestSeekErrorDeadlock
> --- PASS: TestSeekErrorDeadlock (0.00s)
> === RUN TestSeekFast
> --- PASS: TestSeekFast (0.05s)
> === RUN TestCache
> --- PASS: TestCache (0.30s)
> === RUN TestBlocked
> --- PASS: TestBlocked (0.00s)
> === RUN TestFuzzCrashers
> bgzf_test.go:1139: unexpected error creating reader: unexpected EOF
> --- FAIL: TestFuzzCrashers (0.01s)
> === RUN TestZeroNonZero
> --- PASS: TestZeroNonZero (0.00s)
> === RUN TestWriteByteCount
> --- PASS: TestWriteByteCount (0.01s)
> === RUN TestSeekCacheReadahead
> --- PASS: TestSeekCacheReadahead (0.10s)
> FAIL
> FAIL github.com/biogo/hts/bgzf 0.496s
> ? github.com/biogo/hts/bgzf/cache [no test files]
> === RUN Test
> OK: 3 passed
> --- PASS: Test (0.03s)
> PASS
> ok github.com/biogo/hts/bgzf/index 0.034s
> ? github.com/biogo/hts/cram [no test files]
> === RUN TestRoundTrip
> --- PASS: TestRoundTrip (0.00s)
> === RUN TestKnownValues
> --- PASS: TestKnownValues (0.00s)
> PASS
> ok github.com/biogo/hts/cram/encoding/itf8 0.026s
> === RUN TestInt64RoundTrip
> --- PASS: TestInt64RoundTrip (0.00s)
> PASS
> ok github.com/biogo/hts/cram/encoding/ltf8 0.042s
> === RUN Test
> OK: 3 passed
> --- PASS: Test (0.00s)
> PASS
> ok github.com/biogo/hts/csi 0.009s
> === RUN TestNewIndex
> --- PASS: TestNewIndex (0.00s)
> === RUN TestReadFrom
> --- PASS: TestReadFrom (0.00s)
> === RUN TestWriteTo
> --- PASS: TestWriteTo (0.00s)
> === RUN TestFile
> --- PASS: TestFile (0.00s)
> PASS
> ok github.com/biogo/hts/fai 0.016s
> ? github.com/biogo/hts/internal [no test files]
> === RUN Test
> OK: 20 passed
> --- PASS: Test (0.00s)
> === RUN TestSeqAt
> --- PASS: TestSeqAt (0.00s)
> === RUN ExampleConsume
> --- PASS: ExampleConsume (0.00s)
> PASS
> ok github.com/biogo/hts/sam 0.005s
> === RUN Test
> OK: 1 passed
> --- PASS: Test (0.00s)
> PASS
> ok github.com/biogo/hts/tabix 0.003s
> FAIL
> dh_auto_test: error: cd obj-x86_64-linux-gnu && go test -vet=off -v -p 8
> github.com/biogo/hts/bam github.com/biogo/hts/bgzf
> github.com/biogo/hts/bgzf/cache github.com/biogo/hts/bgzf/index
> github.com/biogo/hts/cram github.com/biogo/hts/cram/encoding/itf8
> github.com/biogo/hts/cram/encoding/ltf8 github.com/biogo/hts/csi
> github.com/biogo/hts/fai github.com/biogo/hts/internal
> github.com/biogo/hts/sam github.com/biogo/hts/tabix returned exit code 1
The full build log is available from:
http://qa-logs.debian.net/2022/08/13/golang-github-biogo-hts_1.4.3+dfsg1-1_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20220813;[email protected]
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20220813&[email protected]&allbugs=1&cseverity=1&ctags=1&caffected=1#results
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
If you reassign this bug to another package, please marking 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.
--- End Message ---
--- Begin Message ---
Source: golang-github-biogo-hts
Source-Version: 1.4.3+dfsg1-2
Done: Shengjing Zhu <[email protected]>
We believe that the bug you reported is fixed in the latest version of
golang-github-biogo-hts, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Shengjing Zhu <[email protected]> (supplier of updated golang-github-biogo-hts
package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sun, 21 Aug 2022 19:25:06 +0800
Source: golang-github-biogo-hts
Architecture: source
Version: 1.4.3+dfsg1-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Go Packaging Team <[email protected]>
Changed-By: Shengjing Zhu <[email protected]>
Closes: 1017270
Changes:
golang-github-biogo-hts (1.4.3+dfsg1-2) unstable; urgency=medium
.
* Update Standards-Version to 4.6.1 (no changes)
* Add Multi-Arch hint
* Update Standards-Version to 4.6.1 (no changes)
* Fix failed test on go1.19 (Closes: #1017270)
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golang-github-biogo-hts_1.4.3+dfsg1-2.debian.tar.xz
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Files:
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golang-github-biogo-hts_1.4.3+dfsg1-2.dsc
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golang-github-biogo-hts_1.4.3+dfsg1-2_amd64.buildinfo
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