Source: golang-github-biogo-biogo Version: 1.0.3-1 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: [email protected] Usertags: ftbfs-20211023 ftbfs-bookworm
Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > dpkg-buildpackage > ----------------- > > Command: dpkg-buildpackage -us -uc -sa -rfakeroot > dpkg-buildpackage: info: source package golang-github-biogo-biogo > dpkg-buildpackage: info: source version 1.0.3-1 > 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 --builddirectory=_build --buildsystem=golang --with=golang > dh_auto_clean -O--builddirectory=_build -O--buildsystem=golang > dh_autoreconf_clean -O--builddirectory=_build -O--buildsystem=golang > dh_clean -O--builddirectory=_build -O--buildsystem=golang > dpkg-source -b . > dpkg-source: info: using source format '3.0 (quilt)' > dpkg-source: info: building golang-github-biogo-biogo using existing > ./golang-github-biogo-biogo_1.0.3.orig.tar.gz > dpkg-source: info: building golang-github-biogo-biogo in > golang-github-biogo-biogo_1.0.3-1.debian.tar.xz > dpkg-source: info: building golang-github-biogo-biogo in > golang-github-biogo-biogo_1.0.3-1.dsc > debian/rules binary > dh binary --builddirectory=_build --buildsystem=golang --with=golang > dh_update_autotools_config -O--builddirectory=_build -O--buildsystem=golang > dh_autoreconf -O--builddirectory=_build -O--buildsystem=golang > dh_auto_configure -O--builddirectory=_build -O--buildsystem=golang > dh_auto_build -O--builddirectory=_build -O--buildsystem=golang > cd _build && go install -trimpath -v -p 4 github.com/biogo/biogo > github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix > github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp > github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet > github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent > github.com/biogo/biogo/errors github.com/biogo/biogo/feat > github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome > github.com/biogo/biogo/feat/genome/cow/bt7 > github.com/biogo/biogo/feat/genome/drosophila/dm3 > github.com/biogo/biogo/feat/genome/human/hg19 > github.com/biogo/biogo/feat/genome/mouse/mm10 > github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio > github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff > github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio > github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta > github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass > github.com/biogo/biogo/pwm github.com/biogo/biogo/seq > github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear > github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality > github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util > github.com/biogo/biogo > internal/unsafeheader > internal/cpu > internal/abi > internal/goexperiment > runtime/internal/atomic > runtime/internal/sys > internal/itoa > runtime/internal/math > math/bits > unicode/utf8 > internal/bytealg > internal/race > sync/atomic > unicode > math > encoding > github.com/biogo/store/llrb > runtime > image/color > internal/reflectlite > sync > internal/testlog > math/rand > errors > sort > strconv > io > internal/oserror > syscall > path > container/heap > strings > text/tabwriter > hash > reflect > bytes > github.com/biogo/biogo/feat > github.com/biogo/biogo/io/featio > bufio > github.com/biogo/store/interval > internal/syscall/unix > time > internal/syscall/execenv > hash/adler32 > github.com/biogo/biogo/feat/gene > io/fs > internal/poll > encoding/binary > internal/fmtsort > os > io/ioutil > fmt > github.com/biogo/biogo/alphabet > encoding/csv > github.com/biogo/biogo/util > encoding/gob > github.com/biogo/graph > log > github.com/biogo/biogo/seq > github.com/biogo/biogo/align/matrix > github.com/biogo/biogo/align > github.com/biogo/biogo/seq/linear > github.com/biogo/biogo/index/kmerindex > github.com/biogo/biogo/io/seqio > github.com/biogo/biogo/io/seqio/fasta > compress/flate > github.com/biogo/biogo/io/featio/gff > github.com/biogo/biogo/morass > github.com/biogo/biogo/align/pals/filter > github.com/biogo/biogo/concurrent > github.com/biogo/biogo/errors > github.com/biogo/biogo/feat/genome > github.com/biogo/biogo/io/featio/bed > github.com/biogo/biogo/align/pals/dp > compress/zlib > github.com/biogo/biogo/feat/genome/cow/bt7 > github.com/biogo/biogo/feat/genome/drosophila/dm3 > github.com/biogo/biogo/complexity > github.com/biogo/biogo/align/pals > github.com/biogo/biogo/feat/genome/human/hg19 > github.com/biogo/biogo/feat/genome/mouse/mm10 > github.com/biogo/biogo/seq/sequtils > github.com/biogo/hts/fai > github.com/biogo/biogo/seq/multi > github.com/biogo/biogo/io/seqio/fastq > github.com/biogo/biogo/io/seqio/fai > github.com/biogo/biogo/pwm > github.com/biogo/biogo/seq/alignment > github.com/biogo/biogo/seq/quality > github.com/biogo/biogo/io/seqio/alignio > dh_auto_test -O--builddirectory=_build -O--buildsystem=golang > cd _build && go test -vet=off -v -p 4 github.com/biogo/biogo > github.com/biogo/biogo/align github.com/biogo/biogo/align/matrix > github.com/biogo/biogo/align/pals github.com/biogo/biogo/align/pals/dp > github.com/biogo/biogo/align/pals/filter github.com/biogo/biogo/alphabet > github.com/biogo/biogo/complexity github.com/biogo/biogo/concurrent > github.com/biogo/biogo/errors github.com/biogo/biogo/feat > github.com/biogo/biogo/feat/gene github.com/biogo/biogo/feat/genome > github.com/biogo/biogo/feat/genome/cow/bt7 > github.com/biogo/biogo/feat/genome/drosophila/dm3 > github.com/biogo/biogo/feat/genome/human/hg19 > github.com/biogo/biogo/feat/genome/mouse/mm10 > github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio > github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff > github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio > github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta > github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass > github.com/biogo/biogo/pwm github.com/biogo/biogo/seq > github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear > github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality > github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util > ? github.com/biogo/biogo [no test files] > === RUN Test > OK: 2 passed > --- PASS: Test (0.01s) > === RUN ExampleFitted_Align > --- PASS: ExampleFitted_Align (0.00s) > === RUN ExampleFittedAffine_Align > --- PASS: ExampleFittedAffine_Align (0.00s) > === RUN ExampleNW_Align > --- PASS: ExampleNW_Align (0.00s) > === RUN ExampleNWAffine_Align > --- PASS: ExampleNWAffine_Align (0.00s) > === RUN ExampleSW_Align_a > --- PASS: ExampleSW_Align_a (0.00s) > === RUN ExampleSW_Align_b > --- PASS: ExampleSW_Align_b (0.00s) > === RUN ExampleSWAffine_Align > --- PASS: ExampleSWAffine_Align (0.00s) > PASS > ok github.com/biogo/biogo/align 0.016s > ? github.com/biogo/biogo/align/matrix [no test files] > === RUN Test > OK: 5 passed > --- PASS: Test (0.03s) > PASS > ok github.com/biogo/biogo/align/pals 0.041s > === RUN Test > OK: 1 passed > --- PASS: Test (0.02s) > PASS > ok github.com/biogo/biogo/align/pals/dp 0.038s > === RUN Test > OK: 1 passed > --- PASS: Test (0.01s) > PASS > ok github.com/biogo/biogo/align/pals/filter 0.027s > === RUN Test > OK: 10 passed > --- PASS: Test (0.01s) > === RUN Example_allValid > --- PASS: Example_allValid (0.00s) > === RUN Example_complement > --- PASS: Example_complement (0.00s) > PASS > ok github.com/biogo/biogo/alphabet 0.018s > === RUN Test > OK: 4 passed > --- PASS: Test (0.47s) > PASS > ok github.com/biogo/biogo/complexity 0.480s > === RUN Test > OK: 1 passed > --- PASS: Test (0.00s) > === RUN ExampleMap > --- PASS: ExampleMap (0.00s) > === RUN ExamplePromiseMap > --- PASS: ExamplePromiseMap (1.01s) > === RUN ExampleLazily > --- PASS: ExampleLazily (0.00s) > PASS > ok github.com/biogo/biogo/concurrent 1.015s > === RUN Test > > ---------------------------------------------------------------------- > FAIL: errors_test.go:44: S.TestCaller > > errors_test.go:49: > c.Check(ln, check.Equals, 45) > ... obtained int = 46 > ... expected int = 45 > > OOPS: 3 passed, 1 FAILED > --- FAIL: Test (0.00s) > FAIL > FAIL github.com/biogo/biogo/errors 0.017s > === RUN Test > OK: 6 passed > --- PASS: Test (0.00s) > PASS > ok github.com/biogo/biogo/feat 0.009s > === RUN Test > OK: 4 passed > --- PASS: Test (0.01s) > PASS > ok github.com/biogo/biogo/feat/gene 0.020s > ? github.com/biogo/biogo/feat/genome [no test files] > ? github.com/biogo/biogo/feat/genome/cow/bt7 [no test files] > ? github.com/biogo/biogo/feat/genome/drosophila/dm3 [no test files] > ? github.com/biogo/biogo/feat/genome/human/hg19 [no test files] > ? github.com/biogo/biogo/feat/genome/mouse/mm10 [no test files] > === RUN Test > OK: 5 passed > --- PASS: Test (3.57s) > PASS > ok github.com/biogo/biogo/index/kmerindex 3.580s > === RUN Test > OK: 2 passed > --- PASS: Test (0.01s) > PASS > ok github.com/biogo/biogo/io/featio 0.011s > === RUN Test > OK: 4 passed > --- PASS: Test (0.01s) > PASS > ok github.com/biogo/biogo/io/featio/bed 0.030s > === RUN Test > OK: 5 passed > --- PASS: Test (0.02s) > PASS > ok github.com/biogo/biogo/io/featio/gff 0.034s > === RUN TestSeqio > --- PASS: TestSeqio (0.00s) > === RUN Test > OK: 3 passed > --- PASS: Test (0.00s) > PASS > ok github.com/biogo/biogo/io/seqio 0.015s > === RUN Test > OK: 2 passed > --- PASS: Test (0.00s) > PASS > ok github.com/biogo/biogo/io/seqio/alignio 0.014s > === RUN Test > > ---------------------------------------------------------------------- > FAIL: fai_test.go:27: S.TestReadFrom > > fai_test.go:178: > c.Assert(err, check.DeepEquals, t.err) > ... obtained *csv.ParseError = &csv.ParseError{StartLine:8, Line:8, Column:1, > Err:(*errors.errorString)(0xc00004e3f0)} ("record on line 8: wrong number of > fields") > ... expected *csv.ParseError = &csv.ParseError{StartLine:8, Line:8, Column:0, > Err:(*errors.errorString)(0xc00004e3f0)} ("record on line 8: wrong number of > fields") > ... Difference: > ... Column: 1 != 0 > > > OOPS: 0 passed, 1 FAILED > --- FAIL: Test (0.01s) > FAIL > FAIL github.com/biogo/biogo/io/seqio/fai 0.017s > === RUN Test > OK: 2 passed > --- PASS: Test (0.01s) > === RUN ExampleReader > --- PASS: ExampleReader (0.00s) > PASS > ok github.com/biogo/biogo/io/seqio/fasta 0.017s > === RUN Test > OK: 2 passed > --- PASS: Test (0.01s) > PASS > ok github.com/biogo/biogo/io/seqio/fastq 0.031s > === RUN Test > OK: 7 passed > --- PASS: Test (2.69s) > PASS > ok github.com/biogo/biogo/morass 2.690s > ? github.com/biogo/biogo/pwm [no test files] > === RUN TestSeq > --- PASS: TestSeq (0.00s) > PASS > ok github.com/biogo/biogo/seq 0.007s > === RUN Test > OK: 1 passed > --- PASS: Test (0.00s) > === RUN ExampleNewSeq > --- PASS: ExampleNewSeq (0.00s) > === RUN ExampleSeq_Add > --- PASS: ExampleSeq_Add (0.00s) > === RUN ExampleSeq_Clone > --- PASS: ExampleSeq_Clone (0.00s) > === RUN ExampleSeq_Rows > --- PASS: ExampleSeq_Rows (0.00s) > === RUN ExampleSeq_join > --- PASS: ExampleSeq_join (0.00s) > === RUN ExampleSeq_Len > --- PASS: ExampleSeq_Len (0.00s) > === RUN ExampleSeq_RevComp > --- PASS: ExampleSeq_RevComp (0.00s) > === RUN ExampleSeq_stitch > --- PASS: ExampleSeq_stitch (0.00s) > === RUN ExampleSeq_truncate > --- PASS: ExampleSeq_truncate (0.00s) > === RUN ExampleNewQSeq > --- PASS: ExampleNewQSeq (0.00s) > === RUN ExampleQSeq_Add > --- PASS: ExampleQSeq_Add (0.00s) > === RUN ExampleQSeq_Clone > --- PASS: ExampleQSeq_Clone (0.00s) > === RUN ExampleQSeq_Rows > --- PASS: ExampleQSeq_Rows (0.00s) > === RUN ExampleQSeq_join > --- PASS: ExampleQSeq_join (0.00s) > === RUN ExampleQSeq_Len > --- PASS: ExampleQSeq_Len (0.00s) > === RUN ExampleQSeq_RevComp > --- PASS: ExampleQSeq_RevComp (0.00s) > === RUN ExampleQSeq_stitch > --- PASS: ExampleQSeq_stitch (0.00s) > === RUN ExampleQSeq_truncate > --- PASS: ExampleQSeq_truncate (0.00s) > PASS > ok github.com/biogo/biogo/seq/alignment 0.021s > === RUN Test > OK: 1 passed > --- PASS: Test (0.01s) > === RUN ExampleNewQSeq > --- PASS: ExampleNewQSeq (0.00s) > === RUN ExampleQSeq_Validate > --- PASS: ExampleQSeq_Validate (0.00s) > === RUN ExampleQSeq_AppendQLetters > --- PASS: ExampleQSeq_AppendQLetters (0.00s) > === RUN ExampleNewSeq > --- PASS: ExampleNewSeq (0.00s) > === RUN ExampleSeq_Validate > --- PASS: ExampleSeq_Validate (0.00s) > === RUN ExampleSeq_truncate_a > --- PASS: ExampleSeq_truncate_a (0.00s) > === RUN ExampleSeq_truncate_b > --- PASS: ExampleSeq_truncate_b (0.00s) > === RUN ExampleSeq_RevComp > --- PASS: ExampleSeq_RevComp (0.00s) > === RUN ExampleSeq_join > --- PASS: ExampleSeq_join (0.00s) > === RUN ExampleSeq_stitch > --- PASS: ExampleSeq_stitch (0.00s) > === RUN ExampleSeq_compose > --- PASS: ExampleSeq_compose (0.00s) > PASS > ok github.com/biogo/biogo/seq/linear 0.011s > === RUN Test > OK: 1 passed > --- PASS: Test (0.00s) > === RUN ExampleNewMulti > --- PASS: ExampleNewMulti (0.00s) > === RUN ExampleMulti_Add > --- PASS: ExampleMulti_Add (0.00s) > === RUN ExampleMulti_Clone > --- PASS: ExampleMulti_Clone (0.00s) > === RUN ExampleMulti_Rows > --- PASS: ExampleMulti_Rows (0.00s) > === RUN ExampleMulti_IsFlush > --- PASS: ExampleMulti_IsFlush (0.00s) > === RUN ExampleMulti_Join > --- PASS: ExampleMulti_Join (0.00s) > === RUN ExampleMulti_Len > --- PASS: ExampleMulti_Len (0.00s) > === RUN ExampleMulti_RevComp > --- PASS: ExampleMulti_RevComp (0.00s) > === RUN ExampleMulti_Stitch > --- PASS: ExampleMulti_Stitch (0.00s) > === RUN ExampleMulti_Truncate > --- PASS: ExampleMulti_Truncate (0.00s) > === RUN ExampleSet_AppendEach > --- PASS: ExampleSet_AppendEach (0.00s) > === RUN ExampleSet_Rows > --- PASS: ExampleSet_Rows (0.00s) > === RUN ExampleSet_Row > --- PASS: ExampleSet_Row (0.00s) > === RUN ExampleSet_Len > --- PASS: ExampleSet_Len (0.00s) > PASS > ok github.com/biogo/biogo/seq/multi 0.008s > === RUN Test > OK: 1 passed > --- PASS: Test (0.00s) > PASS > ok github.com/biogo/biogo/seq/quality 0.017s > === RUN Test > OK: 4 passed > --- PASS: Test (0.01s) > === RUN ExampleTruncate_a > --- PASS: ExampleTruncate_a (0.00s) > === RUN ExampleTruncate_b > --- PASS: ExampleTruncate_b (0.00s) > === RUN ExampleJoin > --- PASS: ExampleJoin (0.00s) > === RUN ExampleStitch > --- PASS: ExampleStitch (0.00s) > PASS > ok github.com/biogo/biogo/seq/sequtils 0.014s > === RUN Test > OK: 11 passed > --- PASS: Test (0.02s) > PASS > ok github.com/biogo/biogo/util 0.018s > FAIL > dh_auto_test: error: cd _build && go test -vet=off -v -p 4 > github.com/biogo/biogo github.com/biogo/biogo/align > github.com/biogo/biogo/align/matrix github.com/biogo/biogo/align/pals > github.com/biogo/biogo/align/pals/dp github.com/biogo/biogo/align/pals/filter > github.com/biogo/biogo/alphabet github.com/biogo/biogo/complexity > github.com/biogo/biogo/concurrent github.com/biogo/biogo/errors > github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene > github.com/biogo/biogo/feat/genome github.com/biogo/biogo/feat/genome/cow/bt7 > github.com/biogo/biogo/feat/genome/drosophila/dm3 > github.com/biogo/biogo/feat/genome/human/hg19 > github.com/biogo/biogo/feat/genome/mouse/mm10 > github.com/biogo/biogo/index/kmerindex github.com/biogo/biogo/io/featio > github.com/biogo/biogo/io/featio/bed github.com/biogo/biogo/io/featio/gff > github.com/biogo/biogo/io/seqio github.com/biogo/biogo/io/seqio/alignio > github.com/biogo/biogo/io/seqio/fai github.com/biogo/biogo/io/seqio/fasta > github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/morass > github.com/biogo/biogo/pwm github.com/biogo/biogo/seq > github.com/biogo/biogo/seq/alignment github.com/biogo/biogo/seq/linear > github.com/biogo/biogo/seq/multi github.com/biogo/biogo/seq/quality > github.com/biogo/biogo/seq/sequtils github.com/biogo/biogo/util returned exit > code 1 The full build log is available from: http://qa-logs.debian.net/2021/10/23/golang-github-biogo-biogo_1.0.3-1_unstable.log 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.
