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| author | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2016-02-06 03:34:25 +0700 |
|---|---|---|
| committer | Willy Sudiarto Raharjo <willysr@slackbuilds.org> | 2016-02-06 03:36:48 +0700 |
| commit | 55988a5e807679e0904abd9af1d08fa66570d655 (patch) | |
| tree | 9bd859394f09ef1e3433c1f7adc20a0c6d51c807 /academic/tophat/fix_build_w_seqan1.4.patch | |
| parent | f6f216c1eac5f0d862ac433b5195babeebb33259 (diff) | |
| download | slackbuilds-55988a5e807679e0904abd9af1d08fa66570d655.tar.gz | |
academic/tophat: Fix Build.
Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
Diffstat (limited to 'academic/tophat/fix_build_w_seqan1.4.patch')
| -rw-r--r-- | academic/tophat/fix_build_w_seqan1.4.patch | 24 |
1 files changed, 24 insertions, 0 deletions
diff --git a/academic/tophat/fix_build_w_seqan1.4.patch b/academic/tophat/fix_build_w_seqan1.4.patch new file mode 100644 index 0000000000..f51b833c1e --- /dev/null +++ b/academic/tophat/fix_build_w_seqan1.4.patch @@ -0,0 +1,24 @@ +Description: Resolves build failure with seqan 1.4 +Bug-Closed: http://bugs.debian.org/733352 +Author: Manuel Holtgrewe <manuel.holtgrewe@fu-berlin.de> +--- 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"); + + |