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diff hisat2.xml @ 5:1eb21dccc2fa draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hisat2 commit d12a2e9dd273b4c23db48bbb747f32700887710e
author iuc
date Thu, 02 Jun 2016 11:02:23 -0400
parents 2d449a1bb5ab
children 5f4da9ec47c7
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--- a/hisat2.xml	Tue Apr 19 18:09:15 2016 -0400
+++ b/hisat2.xml	Thu Jun 02 11:02:23 2016 -0400
@@ -7,6 +7,7 @@
     <requirements>
         <!-- Conda dependency -->
         <requirement type="package" version="2.0.3">hisat2</requirement>
+        <requirement type="package" version="2.0.3">hisat</requirement>
         <requirement type="package" version="1.2">samtools</requirement>
     </requirements>
     <stdio>
@@ -19,7 +20,7 @@
         <![CDATA[
         #if str($spliced_options.spliced_options_selector) == "advanced" and str($spliced_options.known_splice_gtf) != 'None':
             ln -s "${spliced_options.known_splice_gtf}" splice_sites.gtf &&
-            extract_splice_sites.py splice_sites.gtf > splice_sites.txt &&
+            hisat2_extract_splice_sites.py splice_sites.gtf > splice_sites.txt &&
         #end if
         #if $reference_genome.reference_genome_source == "history":
             ln -s "$reference_genome.history_item" genome.fa &&