Mercurial > repos > iuc > snpeff

diff snpEff_databases.xml @ 1:500832f27cbc draft

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author iuc
date Thu, 22 Jan 2015 08:28:37 -0500
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children b24873564cf6
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/snpEff_databases.xml	Thu Jan 22 08:28:37 2015 -0500
@@ -0,0 +1,26 @@
+<tool id="snpEff_databases" name="SnpEff Available Databases" version="@WRAPPER_VERSION@.0">
+    <description></description>
+    <expand macro="requirements" />
+    <macros>
+        <import>snpEff_macros.xml</import>
+    </macros>
+    <command>
+<![CDATA[
+    java -jar \$SNPEFF_JAR_PATH/snpEff.jar databases |  grep -v '^---' | sed 's/^Genome/#Genome/' | sed  's/  *//g' > $snpeff_dbs 
+]]>
+    </command>
+    <inputs>
+    </inputs>
+    <outputs>
+        <data format="tabular" name="snpeff_dbs" label="${tool.name} @SNPEFF_VERSION@ available databases" />
+    </outputs>
+    <expand macro="stdio" />
+    <help>
+
+@EXTERNAL_DOCUMENTATION@
+
+@CITATION_SECTION@
+
+    </help>
+</tool>
+