1 new changeset in galaxy-central: http://bitbucket.org/galaxy/galaxy-central/changeset/058a5d7a4f84/ changeset: 058a5d7a4f84 branches: user: jgoecks date: 2011-06-06 15:08:59 summary: Removed unspecified build validators from Cufflinks/compare/diff tools as these cause trouble when running tools on custom genomes. affected #: 3 files (205 bytes) --- a/tools/ngs_rna/cuffcompare_wrapper.xml Fri Jun 03 17:00:20 2011 -0400 +++ b/tools/ngs_rna/cuffcompare_wrapper.xml Mon Jun 06 09:08:59 2011 -0400 @@ -33,9 +33,7 @@ #end for </command><inputs> - <param format="gtf" name="first_input" type="data" label="GTF file produced by Cufflinks" help=""> - <validator type="unspecified_build" /> - </param> + <param format="gtf" name="first_input" type="data" label="GTF file produced by Cufflinks" help=""/><repeat name="input_files" title="Additional GTF Input Files"><param format="gtf" name="additional_input" type="data" label="GTF file produced by Cufflinks" help=""><validator type="unspecified_build" /> --- a/tools/ngs_rna/cuffdiff_wrapper.xml Fri Jun 03 17:00:20 2011 -0400 +++ b/tools/ngs_rna/cuffdiff_wrapper.xml Mon Jun 06 09:08:59 2011 -0400 @@ -67,9 +67,7 @@ </command><inputs> - <param format="gtf" name="gtf_input" type="data" label="Transcripts" help="A transcript GTF file produced by cufflinks, cuffcompare, or other source."> - <validator type="unspecified_build" /> - </param> + <param format="gtf" name="gtf_input" type="data" label="Transcripts" help="A transcript GTF file produced by cufflinks, cuffcompare, or other source."/><conditional name="group_analysis"><param name="do_groups" type="select" label="Perform replicate analysis" help="Perform cuffdiff with replicates in each group."><option value="No">No</option> --- a/tools/ngs_rna/cufflinks_wrapper.xml Fri Jun 03 17:00:20 2011 -0400 +++ b/tools/ngs_rna/cufflinks_wrapper.xml Mon Jun 06 09:08:59 2011 -0400 @@ -41,9 +41,7 @@ #end if </command><inputs> - <param format="sam,bam" name="input" type="data" label="SAM or BAM file of aligned RNA-Seq reads" help=""> - <validator type="unspecified_build" /> - </param> + <param format="sam,bam" name="input" type="data" label="SAM or BAM file of aligned RNA-Seq reads" help=""/><param name="max_intron_len" type="integer" value="300000" min="1" max="600000" label="Max Intron Length" help=""/><param name="min_isoform_fraction" type="float" value="0.05" min="0" max="1" label="Min Isoform Fraction" help=""/><param name="pre_mrna_fraction" type="float" value="0.05" min="0" max="1" label="Pre MRNA Fraction" help=""/> 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.