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| author | Marius Bakke <mbakke@fastmail.com> | 2018-12-03 19:15:17 +0100 |
|---|---|---|
| committer | Marius Bakke <mbakke@fastmail.com> | 2018-12-03 19:15:17 +0100 |
| commit | 99f63f011df2aab38e98d7ee4608a8c70bf74c4d (patch) | |
| tree | 3f224028f30c60f2ed7b9846365ad926192fc7e9 /gnu/packages/patches/tophat-build-with-later-seqan.patch | |
| parent | e9a8b603337802a77ff2d68f0d30dc0e67721e3a (diff) | |
| parent | 4f03aa23e805bd653de774e1d74ed2f50826899b (diff) | |
| download | guix-patches-99f63f011df2aab38e98d7ee4608a8c70bf74c4d.tar guix-patches-99f63f011df2aab38e98d7ee4608a8c70bf74c4d.tar.gz | |
Merge branch 'master' into staging
Diffstat (limited to 'gnu/packages/patches/tophat-build-with-later-seqan.patch')
| -rw-r--r-- | gnu/packages/patches/tophat-build-with-later-seqan.patch | 24 |
1 files changed, 0 insertions, 24 deletions
diff --git a/gnu/packages/patches/tophat-build-with-later-seqan.patch b/gnu/packages/patches/tophat-build-with-later-seqan.patch deleted file mode 100644 index fc742e2a7d..0000000000 --- a/gnu/packages/patches/tophat-build-with-later-seqan.patch +++ /dev/null @@ -1,24 +0,0 @@ -This patch resolves a build failure when building TopHat 2.1.0 with SeqAn 1.4. -This is the relevant part of a patch originally posted here: -https://lists.fu-berlin.de/pipermail/seqan-dev/2014-July/msg00001.html - ---- a/src/segment_juncs.cpp -+++ b/src/segment_juncs.cpp -@@ -2050,10 +2050,13 @@ void juncs_from_ref_segs(RefSequenceTabl - typedef map<uint32_t, IntronMotifs> MotifMap; - - MotifMap ims; -- -- seqan::DnaStringReverseComplement rev_donor_dinuc(donor_dinuc); -- seqan::DnaStringReverseComplement rev_acceptor_dinuc(acceptor_dinuc); -- -+ -+ typedef seqan::ModifiedString< -+ seqan::ModifiedString<seqan::DnaString const, seqan::ModView<seqan::FunctorComplement<seqan::Dna> > >, -+ seqan::ModReverse> ConstDnaStringReverseComplement; -+ ConstDnaStringReverseComplement rev_donor_dinuc(donor_dinuc); -+ ConstDnaStringReverseComplement rev_acceptor_dinuc(acceptor_dinuc); -+ - if (talkative) - fprintf(stderr, "Collecting potential splice sites in islands\n"); - |