3 new commits in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/commits/b04e01c4b78a/ Changeset: b04e01c4b78a Branch: coding_snp_2bit_locfile User: lance_parsons Date: 2014-09-04 22:02:54 Summary: Allow specification of complete filename of 2bit files in codingSnps.pl Affected #: 1 file diff -r 9b6cccb3af2d6b13a1a1da7def87dcc19172be88 -r b04e01c4b78ac308414c5047327713899195ce9d tools/evolution/codingSnps.pl --- a/tools/evolution/codingSnps.pl +++ b/tools/evolution/codingSnps.pl @@ -564,6 +564,8 @@ if ($nibDir eq 'Galaxy') { print STDERR "Failed to find sequence directory in locfile $locFile\n"; } - $nibDir .= "/$build.2bit"; #we want full path and filename + # lparsons: allow specification of full filename in loc file for greater felxibility + unless ($nibDir =~ /(.*)\.2bit/) { $nibDir .= "/$build.2bit"; } + #$nibDir .= "/$build.2bit"; #we want full path and filename } https://bitbucket.org/galaxy/galaxy-central/commits/ecaabded6e50/ Changeset: ecaabded6e50 Branch: coding_snp_2bit_locfile User: lance_parsons Date: 2014-09-05 16:55:38 Summary: Made regex more specific Affected #: 1 file diff -r b04e01c4b78ac308414c5047327713899195ce9d -r ecaabded6e5027bb92ee5559e226a82dbde192e3 tools/evolution/codingSnps.pl --- a/tools/evolution/codingSnps.pl +++ b/tools/evolution/codingSnps.pl @@ -565,7 +565,7 @@ print STDERR "Failed to find sequence directory in locfile $locFile\n"; } # lparsons: allow specification of full filename in loc file for greater felxibility - unless ($nibDir =~ /(.*)\.2bit/) { $nibDir .= "/$build.2bit"; } + unless ($nibDir =~ /(.*)\.2bit$/) { $nibDir .= "/$build.2bit"; } #$nibDir .= "/$build.2bit"; #we want full path and filename } https://bitbucket.org/galaxy/galaxy-central/commits/6866bba8b7e2/ Changeset: 6866bba8b7e2 User: dannon Date: 2014-09-05 21:25:38 Summary: Merged in lance_parsons/galaxy-central-pull-requests/coding_snp_2bit_locfile (pull request #487) Allow specification of complete filename of 2bit files in codingSnps.pl Affected #: 1 file diff -r 92238b01c946c03b93f4b77d0729b24684940c89 -r 6866bba8b7e28e25820ae0ca73c9159b91bd922e tools/evolution/codingSnps.pl --- a/tools/evolution/codingSnps.pl +++ b/tools/evolution/codingSnps.pl @@ -564,6 +564,8 @@ if ($nibDir eq 'Galaxy') { print STDERR "Failed to find sequence directory in locfile $locFile\n"; } - $nibDir .= "/$build.2bit"; #we want full path and filename + # lparsons: allow specification of full filename in loc file for greater felxibility + unless ($nibDir =~ /(.*)\.2bit$/) { $nibDir .= "/$build.2bit"; } + #$nibDir .= "/$build.2bit"; #we want full path and filename } Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.