commit: 32ec7cd438905d9c6f49d8ad16cfcc88d852e731 Author: David Seifert <soap <AT> gentoo <DOT> org> AuthorDate: Wed Sep 21 21:18:29 2016 +0000 Commit: David Seifert <soap <AT> gentoo <DOT> org> CommitDate: Thu Sep 22 07:29:27 2016 +0000 URL: https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=32ec7cd4
sci-biology/tophat: Allow for compiling with GCC 6 Gentoo-bug: 594544 Package-Manager: portage-2.3.1 sci-biology/tophat/files/tophat-2.1.1-fix-c++14.patch | 14 ++++++++++++++ sci-biology/tophat/tophat-2.1.1-r1.ebuild | 1 + 2 files changed, 15 insertions(+) diff --git a/sci-biology/tophat/files/tophat-2.1.1-fix-c++14.patch b/sci-biology/tophat/files/tophat-2.1.1-fix-c++14.patch new file mode 100644 index 00000000..e8168bb --- /dev/null +++ b/sci-biology/tophat/files/tophat-2.1.1-fix-c++14.patch @@ -0,0 +1,14 @@ +Fix building with C++14, which errors out due to broken perfect forwarding signature. +See also: https://bugs.gentoo.org/show_bug.cgi?id=594544 + +--- a/src/tophat_reports.cpp ++++ b/src/tophat_reports.cpp +@@ -2705,7 +2705,7 @@ + junction_stat.gtf_match = true; + junction_stat.accepted = true; + +- gtf_junctions.insert(make_pair<Junction, JunctionStats>(Junction(ref_id, left_coord, right_coord, antisense), junction_stat)); ++ gtf_junctions.insert(make_pair(Junction(ref_id, left_coord, right_coord, antisense), junction_stat)); + } + } + fprintf(stderr, "Loaded %d GFF junctions from %s.\n", (int)(gtf_junctions.size()), gtf_juncs.c_str()); diff --git a/sci-biology/tophat/tophat-2.1.1-r1.ebuild b/sci-biology/tophat/tophat-2.1.1-r1.ebuild index a850175..6c6690a 100644 --- a/sci-biology/tophat/tophat-2.1.1-r1.ebuild +++ b/sci-biology/tophat/tophat-2.1.1-r1.ebuild @@ -28,6 +28,7 @@ DEPEND="${RDEPEND} PATCHES=( "${FILESDIR}/${P}-unbundle-seqan-samtools.patch" + "${FILESDIR}/${P}-fix-c++14.patch" ) src_prepare() {