Mercurial > repos > vimalkumarvelayudhan > riboplot

changeset 1:1e9797878349

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remove samtools requirement and use updated pysam
author Vimalkumar Velayudhan <vimal@biotechcoder.com>
date Mon, 29 Jun 2015 17:12:15 +0100
parents ca58e9466cbf
children b6fd86c539ea
files ribocount.xml riboplot.xml tool_dependencies.xml
diffstat 3 files changed, 3 insertions(+), 10 deletions(-) [+]
line wrap: on
line diff
--- a/ribocount.xml	Mon Jun 29 16:38:36 2015 +0100
+++ b/ribocount.xml	Mon Jun 29 17:12:15 2015 +0100
@@ -2,8 +2,7 @@
     <description>Get read counts for all transcripts in an alignment (BAM)
     </description>
     <requirements>
-        <requirement type="package" version="0.7.7">pysam</requirement>
-        <requirement type="package" version="0.1.18">samtools</requirement>
+        <requirement type="package" version="0.8.3">pysam</requirement>
     </requirements>
     <stdio>
         <exit_code range="1:"  level="fatal" description="Error" />
--- a/riboplot.xml	Mon Jun 29 16:38:36 2015 +0100
+++ b/riboplot.xml	Mon Jun 29 17:12:15 2015 +0100
@@ -4,7 +4,6 @@
     <requirements>
         <requirement type="package" version="1.2.1">matplotlib</requirement>
         <requirement type="package" version="0.7.7">pysam</requirement>
-        <requirement type="package" version="0.1.18">samtools</requirement>
     </requirements>
     <stdio>
         <exit_code range="1:"  level="fatal" description="Error" />
--- a/tool_dependencies.xml	Mon Jun 29 16:38:36 2015 +0100
+++ b/tool_dependencies.xml	Mon Jun 29 17:12:15 2015 +0100
@@ -5,13 +5,8 @@
                     owner="ribogalaxy" prior_installation_required="True"
                     toolshed="http://toolshed.ribogalaxy.ucc.ie" />
     </package>
-    <package name="pysam" version="0.7.7">
-        <repository changeset_revision="0e8f87bbc1e8" name="package_pysam_0_7_7"
-                    owner="ribogalaxy" prior_installation_required="True"
-                    toolshed="http://toolshed.ribogalaxy.ucc.ie" />
-    </package>
-    <package name="samtools" version="0.1.18">
-        <repository changeset_revision="4407d444b269" name="package_samtools_0_1_18"
+    <package name="pysam" version="0.8.3">
+        <repository changeset_revision="190ad904a112" name="package_pysam_0_8_3"
                     owner="ribogalaxy" prior_installation_required="True"
                     toolshed="http://toolshed.ribogalaxy.ucc.ie" />
     </package>