diff options
Diffstat (limited to 'sci-biology/vaal/files/vaal-1.2-gcc-x86-no-autocast.patch')
| -rw-r--r-- | sci-biology/vaal/files/vaal-1.2-gcc-x86-no-autocast.patch | 39 |
1 files changed, 39 insertions, 0 deletions
diff --git a/sci-biology/vaal/files/vaal-1.2-gcc-x86-no-autocast.patch b/sci-biology/vaal/files/vaal-1.2-gcc-x86-no-autocast.patch new file mode 100644 index 000000000000..c021fadb44b1 --- /dev/null +++ b/sci-biology/vaal/files/vaal-1.2-gcc-x86-no-autocast.patch @@ -0,0 +1,39 @@ +diff -durr VAAL.orig/SortKmersImpl.h VAAL/SortKmersImpl.h +--- VAAL.orig/SortKmersImpl.h 2009-11-12 13:02:40.116993289 +0000 ++++ VAAL/SortKmersImpl.h 2009-11-12 13:04:59.416388534 +0000 +@@ -98,7 +98,7 @@ + { if ( reads[l].size( ) < KSPAN ) continue; + unsigned int N = reads[l].size( ) - KSPAN + 1; + if ( S + 2*N >= R.size( ) ) { +- unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (R.size( ) + 2*N) ); ++ unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (long unsigned) (R.size( ) + 2*N) ); + if ( nn < R.size( ) ) FatalErr( "SortKmers<1>: Unsigned-int overflow (R=" << R.size( ) << ")" ); + R.resize(nn); + } +@@ -180,7 +180,7 @@ + } + if ( q == N ) break; + if ( S + 2*N >= R.size( ) ) { +- unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (R.size( ) + 2*N) ); ++ unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (long unsigned) (R.size( ) + 2*N) ); + if ( nn < R.size( ) ) FatalErr( "SortKmers<10>: Unsigned-int overflow (R=" << R.size( ) << ")" ); + R.resize(nn); + } +@@ -207,7 +207,7 @@ + top += Min( N - top, (unsigned int) 10000 ); + + if ( S + 20000 >= R.size( ) || S + 2*N >= R.size( ) ) { +- unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (R.size( ) + 2*N) ); ++ unsigned nn = Max( (long unsigned) ( 1.2 * R.size( ) ), (long unsigned) (R.size( ) + 2*N) ); + if ( nn < R.size( ) ) FatalErr( "SortKmers<10>: Unsigned-int overflow (R=" << R.size( ) << ")" ); + R.resize(nn); + } +@@ -318,7 +318,7 @@ + + top += Min( N - top, 10000 ); + if ( S + 2*(top - q) >= R.size( ) ) { +- unsigned nn = Max( (unsigned) ( 1.2 * R.size( ) ), (S + 2*(top - q)) ); ++ unsigned nn = Max( (unsigned) ( 1.2 * R.size( ) ), (unsigned) (S + 2*(top - q)) ); + if ( nn < R.size( ) ) FatalErr( "SortKmers<100>: Unsigned-int overflow (R=" << R.size( ) << ")" ); + R.resize(nn); + } |