Your message dated Sat, 18 Aug 2018 07:49:55 +0000 with message-id <[email protected]> and subject line Bug#906510: fixed in tophat 2.1.1+dfsg1-2 has caused the Debian Bug report #906510, regarding tophat: FTBFS in buster/sid (No rule to make target '../src/libtophat.a') 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.) -- 906510: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=906510 Debian Bug Tracking System Contact [email protected] with problems
--- Begin Message ---Package: src:tophat Version: 2.1.1+dfsg1-1 Severity: serious Tags: ftbfs Dear maintainer: I tried to build this package in buster but it failed: -------------------------------------------------------------------------------- [...] debian/rules build-arch dh build-arch --no-parallel dh_update_autotools_config -a dh_autoreconf -a sh: 1: git: not found sh: 1: git: not found sh: 1: git: not found sh: 1: git: not found sh: 1: git: not found configure.ac:20: installing './compile' debian/rules override_dh_auto_configure make[1]: Entering directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' dh_auto_configure -- --with-boost-libdir=/usr/lib/x86_64-linux-gnu ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode --disable-dependency-tracking --with-boost-libdir=/usr/lib/x86_64-linux-gnu [... snipped ...] checking for strdup... yes checking for strrchr... yes checking for strtol... yes checking for strsep... yes checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu checking how to create a pax tar archive... gnutar checking dependency style of gcc... (cached) none checking dependency style of g++... (cached) none checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating config.h config.status: executing depfiles commands configure: WARNING: unrecognized options: --disable-maintainer-mode -- tophat 2.1.1 Configuration Results -- C++ compiler: g++ -std=gnu++98 -Wall -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/tophat-2.1.1+dfsg1=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -pthread -I/usr/include Linker flags: -L/usr/lib/x86_64-linux-gnu -Wl,-z,relro -Wl,-z,now BOOST libraries: -lboost_thread -lboost_system GCC version: gcc (Debian 8.2.0-3) 8.2.0 Host System type: x86_64-pc-linux-gnu Install prefix: /usr Install eprefix: ${prefix} See config.h for further configuration information. Email bug reports to <[email protected]>. make[1]: Leaving directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' dh_auto_build -a make -j1 make[1]: Entering directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' make all-recursive make[2]: Entering directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' Making all in src make[3]: Entering directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1/src' g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++98 -Wall -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized -O3 -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/tophat-2.1.1+dfsg1=. -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG -pthread -I/usr/include -c -o prep_reads.o prep_reads.cpp make[3]: *** No rule to make target '../src/libtophat.a', needed by 'prep_reads'. Stop. make[3]: Leaving directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1/src' make[2]: *** [Makefile:384: all-recursive] Error 1 make[2]: Leaving directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' make[1]: *** [Makefile:325: all] Error 2 make[1]: Leaving directory '/<<BUILDDIR>>/tophat-2.1.1+dfsg1' dh_auto_build: make -j1 returned exit code 2 make: *** [debian/rules:14: build-arch] Error 2 dpkg-buildpackage: error: debian/rules build-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- The build was made with "dpkg-buildpackage -B" in my autobuilder. Most probably, it also fails here in reproducible builds: https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/tophat.html where you can get a full build log if you need it. If this is really a bug in one of the build-depends, please use reassign and affects, so that this is still visible in the BTS web page for this package. Thanks.
--- End Message ---
--- Begin Message ---Source: tophat Source-Version: 2.1.1+dfsg1-2 We believe that the bug you reported is fixed in the latest version of tophat, 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 tophat 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: Sat, 18 Aug 2018 09:28:30 +0200 Source: tophat Binary: tophat Architecture: source Version: 2.1.1+dfsg1-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <[email protected]> Changed-By: Andreas Tille <[email protected]> Description: tophat - fast splice junction mapper for RNA-Seq reads Closes: 906510 Changes: tophat (2.1.1+dfsg1-2) unstable; urgency=medium . * Fix Makefile.am Closes: #906510 * debhelper 11 * Point Vcs fields to salsa.debian.org * Standards-Version: 4.2.0 * Remove unneeded get-orig-source target Checksums-Sha1: d8029c5a263a37c8e8caffacbcfc31d72f19735b 2184 tophat_2.1.1+dfsg1-2.dsc 26f4696a5f2c785711e2b61ec51e9dfc04c183b5 18636 tophat_2.1.1+dfsg1-2.debian.tar.xz Checksums-Sha256: e157cf59ffe101ea364ed0d94d922d25f1f2ea2d778fd7bf0ae2b20e1516e970 2184 tophat_2.1.1+dfsg1-2.dsc 34b340161a2340e6acb44968bf4adaaf43b02e74412441b11f0dc20dde2283ce 18636 tophat_2.1.1+dfsg1-2.debian.tar.xz Files: 679aac3888efdaae6fc233c73891040b 2184 science optional tophat_2.1.1+dfsg1-2.dsc 5072d66e095477f87ce398ccfd02098f 18636 science optional tophat_2.1.1+dfsg1-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlt3y60RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFgQRAAjwqj9AVwVwwQFTy8aCQJQQV1rV4QzdMl y/E/FLlSLSoWaoMGxHQLlrsPsQQ0X0eEPaYZtT+2UOJ85Ccns5X9dudiBagHtMmX uW37TPhktKYZQYOWlIafvJYfI+OVXsEMAAENDdUQlphZDz9+dm3sAMXovbY9f0dn srShd3QSjQWZBNyoxULwjn4frmbBQpl9cQ/MfUIfu6UW7Ycv0NHiru9tg7eSq3e7 AoKondpmZUpoEL2ZO/2FR65kGiW7Yw8cLL4SPZknHV2g+AXR/7g5KMuMnYQBWt8P b9kSVGFku6lnBoQl5RMt10fVbiAOrFZnVU4AOzTu4Gq32PTCN6z3ClpClV/MUlvy py4TRkvzQYApfVDeC1k3xojILgOYXwimcj5SonjapMpWgd3UtJ5hIxdqyRKSd2OK jdGZJYa2h74A+d0rdLgTUNLi7Cd9nvIG4Q/eTmgtsnZnqkdjjvIZZXqs/15AKnO5 7jvTs3cxRVecietWUGRzf9mJj5iWIkUNVEAld+c/7bWChgW9Mqt69eURdsRxa/F1 QBaFsEcmdQ9DRVFVAYE9nYHxwnXOLhoHlsCpIFWKBPmXfSOPbWgFH6lwet9hatTq Jm5FwEMoeJHDJURF2FsSdmfQLjRkyN/4S3fj/FZRL2ksmOUkygez1xQjOFSCL506 2zFTMu10aqg= =TRQq -----END PGP SIGNATURE-----
--- End Message ---
