diff options
Diffstat (limited to 'sci-libs/libmems/files/libmems-1.6_p1-gcc-4.7.patch')
-rw-r--r-- | sci-libs/libmems/files/libmems-1.6_p1-gcc-4.7.patch | 71 |
1 files changed, 0 insertions, 71 deletions
diff --git a/sci-libs/libmems/files/libmems-1.6_p1-gcc-4.7.patch b/sci-libs/libmems/files/libmems-1.6_p1-gcc-4.7.patch deleted file mode 100644 index ec620ebb35aa..000000000000 --- a/sci-libs/libmems/files/libmems-1.6_p1-gcc-4.7.patch +++ /dev/null @@ -1,71 +0,0 @@ - libMems/CompactGappedAlignment.h | 36 ++++++++++++++++++------------------ - 1 file changed, 18 insertions(+), 18 deletions(-) - -diff --git a/libMems/CompactGappedAlignment.h b/libMems/CompactGappedAlignment.h -index bf78477..942d4aa 100644 ---- a/libMems/CompactGappedAlignment.h -+++ b/libMems/CompactGappedAlignment.h -@@ -13,7 +13,7 @@ - #include "config.h"
- #endif
-
--#include "libGenome/gnDebug.h" -+#include "libGenome/gnDebug.h"
- #include "libGenome/gnFilter.h"
- #include "libGenome/gnSequence.h"
- #include "libMems/SparseAbstractMatch.h"
-@@ -103,15 +103,15 @@ public: - /** Eliminates any columns that contain only gap characters */
- void CondenseGapColumns();
-
-- void swap( CompactGappedAlignment& other ){ swap(&other); } -- --protected: -- // for use by derived classes in order to swap contents -- void swap( CompactGappedAlignment* other ){ -- std::swap( align_matrix, other->align_matrix ); -- std::swap( bcount, other->bcount ); -- BaseType::swap( other ); -- } -+ void swap( CompactGappedAlignment& other ){ swap(&other); }
-+
-+protected:
-+ // for use by derived classes in order to swap contents
-+ void swap( CompactGappedAlignment* other ){
-+ std::swap( align_matrix, other->align_matrix );
-+ std::swap( bcount, other->bcount );
-+ BaseType::swap( other );
-+ }
-
- std::vector< bitset_t > align_matrix; /**< aligned positions have true values, gaps are false */
- std::vector< std::vector< size_t > > bcount;
-@@ -572,7 +572,7 @@ void CompactGappedAlignment<BaseType>::CropEnd(gnSeqI crop_amount){ - this->SetStart(i, 0);
- }
- }
-- SetAlignmentLength( this->AlignmentLength() - crop_amount );
-+ this->SetAlignmentLength( this->AlignmentLength() - crop_amount );
- this->create_bitcount();
- if( !this->validate() )
- std::cerr << "CropEnd error\n";
-@@ -806,13 +806,13 @@ void CompactGappedAlignment<BaseType>::CondenseGapColumns() -
- }
-
--namespace std { --template<> inline --void swap( mems::CompactGappedAlignment<>& a, mems::CompactGappedAlignment<>& b ) --{ -- a.swap(b); --} --} -+namespace std {
-+template<> inline
-+void swap( mems::CompactGappedAlignment<>& a, mems::CompactGappedAlignment<>& b )
-+{
-+ a.swap(b);
-+}
-+}
-
-
- #endif // __CompactGappedAlignment_h__
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