Control: tags -1 patch upstream fixed-upstream On Fri, Apr 17, 2020 at 11:06:22AM +0000, Matthias Klose wrote:
> The package fails to build in a test rebuild on at least amd64 with > gcc-10/g++-10, but succeeds to build with gcc-9/g++-9. This was already fixed upstream: https://github.com/soedinglab/MMseqs2/commit/f6f001c8cc5820e50b33b355877664f7ca66cdb1 Debdiff attached. Berto
diff -Nru mmseqs2-10-6d92c+ds/debian/changelog mmseqs2-10-6d92c+ds/debian/changelog --- mmseqs2-10-6d92c+ds/debian/changelog 2020-02-11 22:57:58.000000000 +0100 +++ mmseqs2-10-6d92c+ds/debian/changelog 2020-04-19 20:21:55.000000000 +0200 @@ -1,3 +1,11 @@ +mmseqs2 (10-6d92c+ds-2.1) unstable; urgency=medium + + * Non-maintainer upload. + * debian/patches/fix-ftbfs-gcc10.patch: + - Fix FTBFS with GCC 10 (Closes: #957552). + + -- Alberto Garcia <[email protected]> Sun, 19 Apr 2020 20:21:55 +0200 + mmseqs2 (10-6d92c+ds-2) unstable; urgency=medium * Team upload. diff -Nru mmseqs2-10-6d92c+ds/debian/patches/fix-ftbfs-gcc10.patch mmseqs2-10-6d92c+ds/debian/patches/fix-ftbfs-gcc10.patch --- mmseqs2-10-6d92c+ds/debian/patches/fix-ftbfs-gcc10.patch 1970-01-01 01:00:00.000000000 +0100 +++ mmseqs2-10-6d92c+ds/debian/patches/fix-ftbfs-gcc10.patch 2020-04-19 20:21:55.000000000 +0200 @@ -0,0 +1,26 @@ +Author: Milot Mirdita <[email protected]> +Subject: Fix FTBFS with GCC 10 +Bug-Debian: https://bugs.debian.org/957552 +Origin: https://github.com/soedinglab/MMseqs2/commit/f6f001c8cc5820e50b33b355877664f7ca66cdb1 +Index: mmseqs2-10-6d92c+ds/src/commons/Sequence.cpp +=================================================================== +--- mmseqs2-10-6d92c+ds.orig/src/commons/Sequence.cpp ++++ mmseqs2-10-6d92c+ds/src/commons/Sequence.cpp +@@ -151,7 +151,7 @@ std::pair<const char *, unsigned int> Se + for(size_t i = 0; i < kmerSize; i++){ + pattern[i]=1; + } +- return std::make_pair<const char *, unsigned int>((const char *) pattern, static_cast<unsigned int>(kmerSize)); ++ return std::make_pair<const char *, unsigned int>(const_cast<const char*>(pattern), static_cast<unsigned int>(kmerSize)); + + // Debug(Debug::ERROR) << "Did not find spaced pattern for kmerSize: " << kmerSize << ". \n"; + // Debug(Debug::ERROR) << "Please report this bug to the developer\n"; +@@ -162,7 +162,7 @@ std::pair<const char *, unsigned int> Se + if (pair.second > 0) { + memcpy(pattern, pair.first, pair.second * sizeof(char)); + } +- return std::make_pair<const char *, unsigned int>(pattern, static_cast<unsigned int>(pair.second)); ++ return std::make_pair<const char *, unsigned int>(const_cast<const char*>(pattern), static_cast<unsigned int>(pair.second)); + #undef CASE + } + diff -Nru mmseqs2-10-6d92c+ds/debian/patches/series mmseqs2-10-6d92c+ds/debian/patches/series --- mmseqs2-10-6d92c+ds/debian/patches/series 2020-02-11 22:57:58.000000000 +0100 +++ mmseqs2-10-6d92c+ds/debian/patches/series 2020-04-19 20:20:01.000000000 +0200 @@ -2,3 +2,4 @@ fix_util_installation.patch use_system_zstd.patch use_system_gzstream.patch +fix-ftbfs-gcc10.patch
