Your message dated Mon, 04 Sep 2017 15:21:58 +0000 with message-id <e1dotci-0000g8...@fasolo.debian.org> and subject line Bug#866646: fixed in freebayes 1.1.0-1 has caused the Debian Bug report #866646, regarding freebayes FTBFS with libhts-dev 1.4.1-2 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 ow...@bugs.debian.org immediately.) -- 866646: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=866646 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: freebayes Version: 1.0.2-1 Severity: serious https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/freebayes.html ... g++ -O3 -D_FILE_OFFSET_BITS=64 -g -I/usr/include/bamtools -I../ttmath -I/usr/include/vcflib -I/usr/include/intervaltree `pkg-config --cflags libsmithwaterman` -ldisorder -c freebayes.cpp In file included from /usr/include/htslib/tbx.h:30:0, from /usr/include/tabix.hpp:5, from /usr/include/vcflib/Variant.h:18, from AlleleParser.h:31, from freebayes.cpp:28: /usr/include/htslib/hts.h:140:5: error: 'json' redeclared as different kind of symbol json, ^~~~ In file included from freebayes.cpp:26:0: Allele.h:99:19: note: previous declaration 'std::__cxx11::string json(Allele*&)' friend string json(Allele* &allele); ^~~~ Makefile:92: recipe for target 'freebayes.o' failed make[2]: *** [freebayes.o] Error 1 make[2]: Leaving directory '/build/1st/freebayes-1.0.2/src' Makefile:2: recipe for target 'all' failed make[1]: *** [all] Error 2 make[1]: Leaving directory '/build/1st/freebayes-1.0.2' dh_auto_build: make -j1 returned exit code 2 debian/rules:4: recipe for target 'build' failed make: *** [build] Error 2
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--- Begin Message ---Source: freebayes Source-Version: 1.1.0-1 We believe that the bug you reported is fixed in the latest version of freebayes, 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 866...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated freebayes 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 ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Mon, 04 Sep 2017 16:20:02 +0200 Source: freebayes Binary: freebayes Architecture: source amd64 Version: 1.1.0-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: freebayes - Bayesian haplotype-based polymorphism discovery and genotyping Closes: 866646 Changes: freebayes (1.1.0-1) unstable; urgency=low . [ Andreas Tille ] * New upstream version * debhelper 10 * Standards-Version: 4.1.0 . [ Fabian Klötzl ] * Use C++11 * Added patch for symbol name clash with htslib Closes: #866646 * d/upstream/metadata: Add registries (Thanks to Steffen) Checksums-Sha1: 6402385bbbd5632ff904999ad94c1554c0f3d30f 2191 freebayes_1.1.0-1.dsc 68b3cf9fd5f6b4888eef62e4f8c6e0bafd556c5c 2348568 freebayes_1.1.0.orig.tar.gz 405f3c0094166675817b355f0883c1188289c24c 11792 freebayes_1.1.0-1.debian.tar.xz 3aa101634571cb172f83a42e9560491baffeee91 5514082 freebayes-dbgsym_1.1.0-1_amd64.deb 4e336e30b71616029e222dca8edbaa5396f973ed 7805 freebayes_1.1.0-1_amd64.buildinfo 4bc9a271c1f025f545f7941ad36c504be1234f1e 955372 freebayes_1.1.0-1_amd64.deb Checksums-Sha256: 6d7239e8bf0370a925df8e7c1fbaf91b6b7f1a403b211fe306f1cc68c3a72fda 2191 freebayes_1.1.0-1.dsc 6e1500346b0cc739334b6c21747e9f2a9ed3811d93cd6e8111ad45fb4d7fcc01 2348568 freebayes_1.1.0.orig.tar.gz 997e215945f77b417bbfb06fbf254be12f22d474b1cb4ff8fe57085ec58aab0b 11792 freebayes_1.1.0-1.debian.tar.xz 379dd0a01ada8c4e9619cf2f33a57e4328eec771af3068503713215860f92416 5514082 freebayes-dbgsym_1.1.0-1_amd64.deb 63cdf0423424b2c372e45ac7dd4dc73d38b5b9b079aea7aa2e473b5423ba0a79 7805 freebayes_1.1.0-1_amd64.buildinfo 28e4b40feacefcbd0214eb4799160d10df4d4162808446ebd2c05c20fae9ebae 955372 freebayes_1.1.0-1_amd64.deb Files: 517232ade7441022b60f20e03735c3c0 2191 science optional freebayes_1.1.0-1.dsc 1ba11217aa8f5f86ac30028373345d9a 2348568 science optional freebayes_1.1.0.orig.tar.gz 1562367d8591e33a049844045a001e21 11792 science optional freebayes_1.1.0-1.debian.tar.xz 85912be0d8c0fdf8c161675c9d0fdbc7 5514082 debug extra freebayes-dbgsym_1.1.0-1_amd64.deb 631c9de417e0d20646f6efb76cd2ac2c 7805 science optional freebayes_1.1.0-1_amd64.buildinfo 02b24e5d907ed1cb38b44e3e62cd9619 955372 science optional freebayes_1.1.0-1_amd64.deb -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlmtYbsRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEQ9Q/8C6OEC8ldSr8qD+6sQmaxEyedsyLI6/HK Vh8cZ/3Mkmqc+x1c/XHPgq9T09ZsHFhpaaLvYVV4quRVXYz+lGh3PnJz7wxMZVUj /twNl+ZJF5KhDStlH1MxtPxza5wGQFVoB6JsPoyqxS2YQXujJwKKywqIZtgj28eG eSWqpovQXOQC9xhj0OhbBiRVYD+F9hhBhz6+CEpK/7tTj+Eu3ouaSi6YjLwW3qJs 4/pz/7YZRv+LDamEcCKH/d/932hPqYCpUcstPn1CE7891CejA9ws5qQS/iECXCsw IvGuCBvldL3jwSfX5sd4Xb32CN/uVVNS2I3WuNyi6Uf58KaKlPXAvS7IdqKkZgOv iSr3h7EiNzKO5b9qsFlVOen6tGBF5v7pQPIASEkI05J7qLlUOxU2Jl5trnOcWU9w 46BrxC71OHFibBHrYFdu1RCloS+vjwREVBVtRhZ6acS5NC05DLF2CbH1McsGQXma tD8h0jrj3lEyIR6fa3bj1Y0CPN32pdcMqVjMRDjmVBa9sR4G4TWfXbqVB3Muegzj o3bcl3wAO9taWSj+5w9qsU9aXctg2UputcnZGMU0kEhTMT04+q+nSyG4TQbgUrdx o8Uu5d10w7bP2rWidtfZ/ZsveGqx+6mcYFoA8VVpVLRKI+/JOGn212HowiKs6/RL btmr7bFE0p0= =uMo5 -----END PGP SIGNATURE-----
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