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changeset 7:ec7eb887ab61 draft

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New ctat_star_fusion.xml to use new bioconda recipe.
author trinity_ctat
date Wed, 04 Jul 2018 11:02:42 -0400
parents 669ac85ee4f2
children 3e375492af68
files ctat_star_fusion.xml
diffstat 1 files changed, 1 insertions(+), 19 deletions(-) [+]
line wrap: on
line diff
--- a/ctat_star_fusion.xml	Tue Jun 19 16:01:36 2018 -0400
+++ b/ctat_star_fusion.xml	Wed Jul 04 11:02:42 2018 -0400
@@ -2,25 +2,7 @@
 
     <description>Fusion-finding Pipeline Using the STAR Aligner</description>
     <requirements>
-	<requirement type="package" version="1.3.2">star-fusion</requirement>
-        <!-- Added the following, because the 2.6 version of star does not
-        work with 1.3.2 star-fusion.
-        -->
-	<requirement type="package" version="2.5.4a">star</requirement>
-        <!--
-        FIX - the following may get added to the Star-Fusion recipe, but
-        are not in it at the current time.
-        -->
-	<requirement type="package">perl-carp</requirement>
-	<requirement type="package">perl-json-xs</requirement>
-	<requirement type="package">perl-io-gzip</requirement>
-        <requirement type="package">samtools</requirement>
-        <!--
-        FIX - If samtools is really a requirement, shouldn't it be a star-fusion dependency?
-        Also, the current version of samtools is up to 1.8.3. 1.3.0 is quite old. Why that version?
-        I am trying it without pinning to a particular version.
-        <requirement type="package" version="1.3">samtools</requirement>
-        -->
+	<requirement type="package" version="1.4.0">star-fusion</requirement>
     </requirements>
     <!-- Using command's detect_errors instead of below.
     <stdio>