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| author |   Jeffrey Gardner <je_fro@gentoo.org> | 2008-06-26 19:23:47 +0000 |
|---|---|---|
| committer | Jeffrey Gardner <je_fro@gentoo.org> | 2008-06-26 19:23:47 +0000 |
| commit | 8cddec4e05b75c9a9402daec5d6e8198b9cbb101 (patch) | |
| tree | 6f77111c8d57753a1baad3331aec26a3b242ca37 /sci-biology/meme/files/meme-3.5.4-patch2.patch | |
| parent | try relying on virtual/mpi (diff) | |
| download | je_fro-8cddec4e05b75c9a9402daec5d6e8198b9cbb101.tar.gz je_fro-8cddec4e05b75c9a9402daec5d6e8198b9cbb101.tar.bz2 je_fro-8cddec4e05b75c9a9402daec5d6e8198b9cbb101.zip | |
trying to move meme to virtual/mpi from lam-mpi
svn path=/; revision=231
Diffstat (limited to 'sci-biology/meme/files/meme-3.5.4-patch2.patch')
| -rw-r--r-- | sci-biology/meme/files/meme-3.5.4-patch2.patch | 78 |
1 files changed, 0 insertions, 78 deletions
diff --git a/sci-biology/meme/files/meme-3.5.4-patch2.patch b/sci-biology/meme/files/meme-3.5.4-patch2.patch deleted file mode 100644 index 3854b83..0000000 --- a/sci-biology/meme/files/meme-3.5.4-patch2.patch +++ /dev/null @@ -1,78 +0,0 @@ ---- meme_3.5.4/website/cgi-bin/meme.pl 2006-09-21 19:46:29.000000000 +0000 -+++ trunk/website/cgi-bin/meme.pl 2007-09-10 00:28:33.000000000 +0000 -@@ -1,6 +1,6 @@ - #!@WHICHPERL@ - ## --## $Id: meme-3.5.4-patch2.patch,v 1.1 2007/09/17 02:41:56 je_fro Exp $ -+## $Id: meme-3.5.4-patch2.patch,v 1.1 2007/09/17 02:41:56 je_fro Exp $ - ## - ## $Log: meme-3.5.4-patch2.patch,v $ - ## Revision 1.1 2007/09/17 02:41:56 je_fro - ## Add upstream patches and disable parallel install on amd64. - ## (Portage version: 2.1.3.9) - ## - ## Revision 1.12 2006/03/07 23:30:19 nadya -@@ -467,21 +467,21 @@ - - # check against allowed dna letters - $x = $_; -- $x =~ tr/ABCDGHKMNRSTUVWY//cd; -+ $x =~ tr/ABCDGHKMNRSTUVWY*-//cd; - $new = length $x; - if ($old == $new) { - "dna"; - } else { - # check against allowed protein letters - $x = $_; -- $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ//cd; -+ $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ*-//cd; - $new = length $x; - if ($old == $new) { - "protein"; - } else { - # get the unknown letters - $x = $_; -- $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ//d; -+ $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ*-//d; - &whine(" - Your sequences contained the following unrecognized letters: $x. - <BR> ---- meme_3.5.4/website/cgi-bin/mast.pl 2006-09-21 19:46:29.000000000 +0000 -+++ trunk/website/cgi-bin/mast.pl 2007-09-10 00:38:14.000000000 +0000 -@@ -1,6 +1,6 @@ - #!@WHICHPERL@ - ## --## $Id: meme-3.5.4-patch2.patch,v 1.1 2007/09/17 02:41:56 je_fro Exp $ -+## $Id: meme-3.5.4-patch2.patch,v 1.1 2007/09/17 02:41:56 je_fro Exp $ - ## - ## $Log: meme-3.5.4-patch2.patch,v $ - ## Revision 1.1 2007/09/17 02:41:56 je_fro - ## Add upstream patches and disable parallel install on amd64. - ## (Portage version: 2.1.3.9) - ## - ## Revision 1.8 2006/03/07 23:30:19 nadya -@@ -479,21 +479,21 @@ - - # check against allowed nucleotide letters - $x = $_; -- $x =~ tr/ABCDGHKMNRSTUVWY//cd; -+ $x =~ tr/ABCDGHKMNRSTUVWY*-//cd; - $new = length $x; - if ($old == $new) { - return("DNA"); - } else { - # check against allowed protein letters - $x = $_; -- $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ//cd; -+ $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ*-//cd; - $new = length $x; - if ($old == $new) { - return("PROTEIN"); - } else { - # get the unknown letters - $x = $_; -- $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ//d; -+ $x =~ tr/ABCDEFGHIKLMNPQRSTUVWXYZ*-//d; - &whine(" - Your sequences contained the following unrecognized letters: $x. - <BR> |