Mercurial > repos > iuc > dexseq

changeset 1:36fe30ece23b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dexseq commit e2ab82632ee80aa2347545b2f21235d851b8c36a-dirty
author iuc
date Fri, 25 Sep 2015 14:05:00 -0400
parents 276833129f97
children b19cb9385f28
files dexseq.xml tool_dependencies.xml
diffstat 2 files changed, 5 insertions(+), 8 deletions(-) [+]
line wrap: on
line diff
--- a/dexseq.xml	Thu Sep 24 17:16:56 2015 -0400
+++ b/dexseq.xml	Fri Sep 25 14:05:00 2015 -0400
@@ -1,15 +1,12 @@
 <tool id="dexseq" name="DEXSeq" version="1.0">
     <description>Determines differential exon usage from count tables</description>
     <requirements>
-        <requirement type="package" version="3.2.0">R</requirement>
-        <requirement type="package" version="1.12.14">cairo</requirement>
-        <requirement type="package" version="4.0.3">tiff</requirement>
         <requirement type="package" version="1.14.2">dexseq</requirement>
     </requirements>
     <code file="dexseq_helper.py" />
     <command>
     <![CDATA[
-    mkdir ./html_out &&
+        mkdir ./html_out &&
         #import json
         Rscript $__tool_directory__/dexseq.R
             -o "$dexseq_out"
--- a/tool_dependencies.xml	Thu Sep 24 17:16:56 2015 -0400
+++ b/tool_dependencies.xml	Fri Sep 25 14:05:00 2015 -0400
@@ -6,8 +6,8 @@
     <package name="htseq" version="0.6.1">
         <repository changeset_revision="025da27a2bb2" name="package_htseq_0_6" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
-    <package name="R" version="3.2.0">
-        <repository changeset_revision="d973c8e9b29e" name="package_r_3_2_0" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    <package name="R" version="3.2.1">
+        <repository changeset_revision="fefdc0b8349a" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="cairo" version="1.12.14">
         <repository changeset_revision="5c25a57405a9" name="package_cairo_1_12_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
@@ -19,8 +19,8 @@
         <install version="1.0">
             <actions>
                 <action type="setup_r_environment">
-                    <repository changeset_revision="d973c8e9b29e" name="package_r_3_2_0" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
-                        <package name="R" version="3.2.0" />
+                    <repository changeset_revision="fefdc0b8349a" name="package_r_3_2_1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <package name="R" version="3.2.1" />
                     </repository>
                     <repository changeset_revision="3fecd5a9a64c" name="package_tiff_4_0_3" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                         <package name="tiff" version="4.0.3" />