Your message dated Thu, 20 Sep 2018 19:35:02 +0000 with message-id <[email protected]> and subject line Bug#905368: fixed in libstatgen 1.0.14-2 has caused the Debian Bug report #905368, regarding libstatgen: FTBFS in sid 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.) -- 905368: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=905368 Debian Bug Tracking System Contact [email protected] with problems
--- Begin Message ---Package: src:libstatgen Version: 1.0.14-1 Severity: serious Tags: ftbfs Dear maintainer: I tried to build this package in sid but it failed: -------------------------------------------------------------------------------- [...] debian/rules build-indep dh build-indep dh_update_autotools_config -i dh_autoreconf -i dh_auto_configure -i debian/rules override_dh_auto_build make[1]: Entering directory '/<<PKGBUILDDIR>>' dh_auto_build make -j1 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<<PKGBUILDDIR>>' make[3]: Entering directory '/<<PKGBUILDDIR>>/samtools' ln -s ../samtools/bgzf.h ../include/bgzf.h ln -s ../samtools/knetfile.h ../include/knetfile.h ln -s ../samtools/khash.h ../include/khash.h [... snipped ...] ln -s ../general/SmithWaterman.h ../include/SmithWaterman.h ln -s ../general/Sort.h ../include/Sort.h ln -s ../general/STLUtilities.h ../include/STLUtilities.h ln -s ../general/StatGenStatus.h ../include/StatGenStatus.h ln -s ../general/StringAlias.h ../include/StringAlias.h ln -s ../general/StringArray.h ../include/StringArray.h ln -s ../general/StringBasics.h ../include/StringBasics.h ln -s ../general/StringHash.h ../include/StringHash.h ln -s ../general/StringMap.h ../include/StringMap.h ln -s ../general/Tabix.h ../include/Tabix.h ln -s ../general/UncompressedFileType.h ../include/UncompressedFileType.h ln -s ../general/Constant.h ../include/Constant.h ln -s ../general/CSG_MD5.h ../include/CSG_MD5.h ln -s ../general/Generic.h ../include/Generic.h ln -s ../general/GenomeSequenceHelpers.h ../include/GenomeSequenceHelpers.h ln -s ../general/GreedyTupleAligner.h ../include/GreedyTupleAligner.h ln -s ../general/InplaceMerge.h ../include/InplaceMerge.h ln -s ../general/LongHash.h ../include/LongHash.h ln -s ../general/LongInt.h ../include/LongInt.h ln -s ../general/MathConstant.h ../include/MathConstant.h ln -s ../general/PackedVector.h ../include/PackedVector.h ln -s ../general/PedigreeAlleles.h ../include/PedigreeAlleles.h ln -s ../general/Performance.h ../include/Performance.h ln -s ../general/ReusableVector.h ../include/ReusableVector.h ln -s ../general/SimpleStats.h ../include/SimpleStats.h ln -s ../general/TrimSequence.h ../include/TrimSequence.h ln -s ../general/UnitTest.h ../include/UnitTest.h g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BaseAsciiMap.o -c BaseAsciiMap.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BaseQualityHelper.o -c BaseQualityHelper.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BaseUtilities.o -c BaseUtilities.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BasicHash.o -c BasicHash.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BgzfFileType.o -c BgzfFileType.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/BgzfFileTypeRecovery.o -c BgzfFileTypeRecovery.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/CharBuffer.o -c CharBuffer.cpp -DVERSION="\"1.0.0\"" g++ -O4 -fPIC -pipe -Wall -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Werror -Wno-format-truncation -Wno-strict-overflow -I../include -I. -D__ZLIB_AVAILABLE__ -D_FILE_OFFSET_BITS=64 -D__STDC_LIMIT_MACROS -o obj/Chromosome.o -c Chromosome.cpp -DVERSION="\"1.0.0\"" Chromosome.cpp: In constructor 'Chromosome::Chromosome(const string&, unsigned int, bool)': Chromosome.cpp:42:15: error: '*<unknown>.Chromosome::gs' is used uninitialized in this function [-Werror=uninitialized] if (this->gs) delete gs; ~~~~~~^~ cc1plus: all warnings being treated as errors make[3]: *** [../Makefiles/Makefile.common:81: obj/Chromosome.o] Error 1 make[3]: Leaving directory '/<<PKGBUILDDIR>>/general' make[2]: *** [Makefiles/Makefile.base:15: general] Error 2 make[2]: Leaving directory '/<<PKGBUILDDIR>>' dh_auto_build: make -j1 "INSTALL=install --strip-program=true" returned exit code 2 make[1]: *** [debian/rules:14: override_dh_auto_build] Error 2 make[1]: Leaving directory '/<<PKGBUILDDIR>>' make: *** [debian/rules:11: build-indep] Error 2 dpkg-buildpackage: error: debian/rules build-indep subprocess returned exit status 2 -------------------------------------------------------------------------------- The build was made with "dpkg-buildpackage -A" in my autobuilder, but it also fails here in every architecture: https://buildd.debian.org/status/package.php?p=libstatgen Thanks.
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--- Begin Message ---Source: libstatgen Source-Version: 1.0.14-2 We believe that the bug you reported is fixed in the latest version of libstatgen, 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. Andreas Tille <[email protected]> (supplier of updated libstatgen 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: Thu, 20 Sep 2018 21:16:51 +0200 Source: libstatgen Binary: libstatgen0 libstatgen-dev libstatgen-doc Architecture: source Version: 1.0.14-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <[email protected]> Changed-By: Andreas Tille <[email protected]> Description: libstatgen-dev - development files for the libStatGen libstatgen-doc - documentation files for the libStatGen libstatgen0 - processing and analyzing next generation sequencing and genotypin Closes: 905368 Changes: libstatgen (1.0.14-2) unstable; urgency=medium . * Team upload. * Remove erroneous deletes in Chromosome constructor. Closes: #905368 * Standards-Version: 4.2.1 * Update symbols file Checksums-Sha1: ce280e119a00fd9f6b4227f19f6267103a917abd 2155 libstatgen_1.0.14-2.dsc 986ff9e8fef9552b576cd6637f1bb527ef93a294 20036 libstatgen_1.0.14-2.debian.tar.xz Checksums-Sha256: af467d3a59c9ceca1d375fb1d7bf9d0727864cfb99f3ce97ea387cd488e31ad5 2155 libstatgen_1.0.14-2.dsc 53f8d52f0bfcd238b392a7481f6a6a1b1878a5c51a484441c4932983045a77d1 20036 libstatgen_1.0.14-2.debian.tar.xz Files: 0195d9ef13df9c42a1bd055ff29f1c23 2155 science optional libstatgen_1.0.14-2.dsc 164fa42ed807fb6fd0aff5a1ab2c328a 20036 science optional libstatgen_1.0.14-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAluj80IRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFXdA//cwDp+6cvNyekbImSCCBSZ1rNROzrMjw9 via6zf/mnKgPxsyRirgHxx+pqvk8zi534OgP92qr0z1cOOkFWHc8Nu7H7jkrD3Cy vbd994F2n+h5jI3m6WCfDd0oSqWvUtnZVQr+Yn3jaRnRyJSjrnVAeFusmvinLe96 gxejnuNWVHJSU1Ri/OS25dvSUk/A6R3gTYx9ook9sx2rnpC5oaGBNWyYLcxGyM2F 7ukWhamBOJKE5U6y9KJqjHCQrjP8OlaH9ZkDyijpb59HzyPi8hWK9iaWWZefviCQ c5di7h96lTUOwJ0JlGp0nced0zbbTHJ/OaSOK284dPrlscSOudGARuGLqWr/nJpN pfNKAcKYqSPFc3brTrjQPu98AS3iR3D5EiopnTYdNCLtmMInzAPhO0oX3xTjmGDW ENBT5Op6PqstnBGLV3JIt5LgDiFB8GY+ekM77NwsqiU3t7OA2R9BzElcWfinV80a a4rXvuLvcQ7+ACsnwUih32wWhXi1i46ioR60hZ5B9ik0LzXkjP9i93qMQVVhr1sX Muw3qJouUip8358vfskRTr+iSeDVRh2fHTJH47MzAbgxEMscBRmxcLvpXZb3NCVw BfK3q0atT+KnoPlzWK2kgpqdaHy58yw+aA7iiDZET/pLln8QHKhilGv0z0S/RbrW 6/Vfomj+9AY= =COM/ -----END PGP SIGNATURE-----
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