Mercurial > repos > bornea > filter_fasta

changeset 0:c8b26d6d385b draft

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Uploaded
author bornea
date Thu, 04 Aug 2016 12:08:28 -0400
parents
children b25b0f210e10
files filter_fasta.xml
diffstat 1 files changed, 33 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/filter_fasta.xml	Thu Aug 04 12:08:28 2016 -0400
@@ -0,0 +1,33 @@
+<tool id="filterfasta" name="Filter FASTA">
+  <description></description>
+  <command interpreter="python">filter_fatsa.py $input1 $input2 $output</command>
+  <inputs>
+    <param format="txt" name="input1" type="data" label="FASTA Database"/>
+    <param format="txt" name="input2" type="data" label="Scaffold Report"/>
+  </inputs>
+  <outputs>
+    <data format="txt" name="output" label="Merged Scaffold Report"/>    
+  </outputs>
+  <stdio>
+    <regex match="Error|error"
+     source="stdout"
+           level="fatal"
+           description="Unknown error"/>
+    <regex match="Error|error"
+     source="stderr"
+           level="fatal"
+           description="Unknown error"/>
+    <regex match="Error: bad bait"
+           source="stdout"
+           level="fatal"
+           description="Error: bad bait"/>
+  </stdio> 
+  <tests>
+    <test>
+      <param name="input" value="fa_gc_content_input.fa"/>
+      <output name="out_file1" file="fa_gc_content_output.txt"/>
+    </test>
+  </tests>
+  <help>
+  </help>
+</tool>
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