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changeset 23:3b325560887b draft default tip

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new version of gbsx: v1.2 with barcodeGenerator, demultiplex and digest
author koen
date Tue, 26 Jan 2016 07:56:34 -0500
parents 062399f3787f
children
files gbsx_barcodeGenerator.xml gbsx_demultiplexer.xml gbsx_digest.xml tool_dependencies.xml
diffstat 4 files changed, 5 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- a/gbsx_barcodeGenerator.xml	Tue Jan 26 07:38:36 2016 -0500
+++ b/gbsx_barcodeGenerator.xml	Tue Jan 26 07:56:34 2016 -0500
@@ -1,7 +1,7 @@
 <tool id="gbsx_barcodeGenerator" name="GBSX: Barcode Generator" version="1.1.5">
   <description>creates inline barcodes for a given enzyme</description>
   <requirements>
-    <requirement type="package" version="1.1.5">GBSX</requirement>
+    <requirement type="package" version="1.2">GBSX</requirement>
   </requirements>
   <command interpreter="sh">gbsx_barcodeGenerator.sh $barcode $enzyme $barcode_list $barcode_summary</command>
   <inputs>
--- a/gbsx_demultiplexer.xml	Tue Jan 26 07:38:36 2016 -0500
+++ b/gbsx_demultiplexer.xml	Tue Jan 26 07:56:34 2016 -0500
@@ -1,7 +1,7 @@
 <tool id="gbsx_demultiplexer" name="GBSX: Demultiplexer" force_history_refresh="True" version="1.1.5">
   <description>demultiplexes inline barcodes from GBS and RAD experiments</description>
   <requirements>
-    <requirement type="package" version="1.1.5">GBSX</requirement>
+    <requirement type="package" version="1.2">GBSX</requirement>
   </requirements>
   <command interpreter="sh">
         #if $singleOrPaired.SR_PE_select=="SR"
--- a/gbsx_digest.xml	Tue Jan 26 07:38:36 2016 -0500
+++ b/gbsx_digest.xml	Tue Jan 26 07:56:34 2016 -0500
@@ -1,7 +1,8 @@
 <tool id="gbsx_digest" name="GBSX: Digest" version="1.1.5">
   <description>simulates a digest for the selection of the best enzymes</description>
   <requirements>
-    <requirement type="package" version="1.1.5">GBSX</requirement>
+    <requirement type="package" version="1.2">GBSX</requirement>
+    <requirement type="package" version="1.6.922">bioperl</requirement>
   </requirements>
   <command interpreter="sh">
     gbsx_digest.sh $genome $read_length $enzyme_combination $adv.min_size $adv.max_size $digest_bed $digest_result
--- a/tool_dependencies.xml	Tue Jan 26 07:38:36 2016 -0500
+++ b/tool_dependencies.xml	Tue Jan 26 07:56:34 2016 -0500
@@ -15,6 +15,6 @@
         <readme>Installs the GBSX jar.</readme>
     </package>
     <package name="bioperl" version="1.6.922">
-      <repository name="package_bioperl_1_6" changeset_revision="0:5ef71da82044" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu/" />
+      <repository name="package_bioperl_1_6" changeset_revision="5ef71da82044" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu/" />
     </package>
 </tool_dependency>