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aaChanges tool: Added an option to keep the columns from the SNP dataset

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Richard Burhans
2011-09-21 16:50:18 -04:00
parent 249686ed96
commit f762bd3780
1 changed files with 5 additions and 1 deletions
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tools/evolution/codingSnps.xml
+5 -1
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@@ -2,7 +2,7 @@
<description>amino-acid changes caused by a set of SNPs</description>
<command interpreter="perl">
codingSnps.pl $input1 $input2 Galaxy build=${input1.metadata.dbkey} loc=${GALAXY_DATA_INDEX_DIR}/codingSnps.loc chr=${input1.metadata.chromCol} start=${input1.metadata.startCol} end=${input1.metadata.endCol} snp=$col1 > $out_file1
codingSnps.pl $input1 $input2 Galaxy build=${input1.metadata.dbkey} loc=${GALAXY_DATA_INDEX_DIR}/codingSnps.loc chr=${input1.metadata.chromCol} start=${input1.metadata.startCol} end=${input1.metadata.endCol} snp=$col1 keepColumns=$keep > $out_file1
</command>
<inputs>
@@ -13,6 +13,10 @@
<param format="interval" name="input2" type="data" label="Gene dataset">
<validator type="dataset_metadata_in_file" filename="codingSnps.loc" metadata_name="dbkey" metadata_column="0" message="Sequences are not currently available for the specified build." split="\t" />
</param>
<param name="keep" type="select" label="Keep columns from SNP dataset">
<option value="0" selected="true">No</option>
<option value="1">Yes</option>
</param>
</inputs>
<outputs>