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Missed something with MAF tools.

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Daniel Blankenberg
2008-01-16 18:09:37 +00:00
parent 5b1552ffa8
commit 3cd89ab5a7
1 changed files with 2 additions and 2 deletions
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tools/maf/genebed_maf_to_fasta.xml
+2 -2
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@@ -1,7 +1,7 @@
<tool id="GeneBed_Maf_Fasta2" name="Stitch Gene blocks">
<description>given a set of coding exon intervals</description>
<command interpreter="python2.4">#if $maf_source_type.maf_source == "user":#interval_maf_to_fasta.py --dbkey=$dbkey --species=$maf_source_type.species --mafSource=$maf_source_type.maf_file --interval_file=$input1 --output_file=$out_file1 --mafSourceType=$maf_source_type.maf_source --geneBED
#else:#interval_maf_to_fasta.py --dbkey=$dbkey --species=$maf_source_type.species --mafSource=$maf_source_type.maf_identifier --interval_file=$input1 --output_file=$out_file1 --mafSourceType=$maf_source_type.maf_source --geneBED
<command interpreter="python2.4">#if $maf_source_type.maf_source == "user":#interval_maf_to_merged_fasta.py --dbkey=$dbkey --species=$maf_source_type.species --mafSource=$maf_source_type.maf_file --interval_file=$input1 --output_file=$out_file1 --mafSourceType=$maf_source_type.maf_source --geneBED
#else:#interval_maf_to_merged_fasta.py --dbkey=$dbkey --species=$maf_source_type.species --mafSource=$maf_source_type.maf_identifier --interval_file=$input1 --output_file=$out_file1 --mafSourceType=$maf_source_type.maf_source --geneBED
#end if
</command>
<inputs>