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Removed unspecified build validators from Cufflinks/compare/diff tools as these cause trouble when running tools on custom genomes.

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This commit is contained in:
Jeremy Goecks
2011-06-06 09:08:59 -04:00
parent d28ca76db9
commit 7183eabb52
3 changed files with 3 additions and 9 deletions
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tools/ngs_rna/cuffcompare_wrapper.xml
+1 -3
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@@ -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" />
tools/ngs_rna/cuffdiff_wrapper.xml
+1 -3
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@@ -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>
tools/ngs_rna/cufflinks_wrapper.xml
+1 -3
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@@ -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=""/>