Mercurial > repos > dereeper > tassel5

changeset 15:88ea6f8f664e draft

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Uploaded
author dereeper
date Tue, 16 Jan 2024 10:59:25 +0000
parents 5cd3fed90e93
children d9c73778f0e2
files tassel.sh tassel.xml
diffstat 2 files changed, 2 insertions(+), 6 deletions(-) [+]
line wrap: on
line diff
--- a/tassel.sh	Mon Jan 15 13:31:55 2024 +0000
+++ b/tassel.sh	Tue Jan 16 10:59:25 2024 +0000
@@ -8,10 +8,6 @@
 galaxyOutDir=$6;
 
 version=$(java -version 2>&1 | grep version)
-if [[ ! $version =~ 1.8 ]]; then
-    echo "Java found: $version. Tassel 5.0 requires java 1.8..." >&2
-    exit 1
-fi
 
 mkdir $galaxyOutDir
 
--- a/tassel.xml	Mon Jan 15 13:31:55 2024 +0000
+++ b/tassel.xml	Tue Jan 16 10:59:25 2024 +0000
@@ -1,13 +1,13 @@
 <tool id="Tassel" name="Tassel" version="2.0.0">
 	<description>Software to evaluate traits associations, evolutionary patterns, and linkage disequilibrium</description>
 	<requirements>
-				<requirement type="package" version="5.2.40">tassel</requirement>
+				<requirement type="package" version="5.2.89">tassel</requirement>
         </requirements>
     <stdio>
         <!-- [HELP] If no exit code rule is defined, the tool will stop if anything is written to STDERR -->
         <exit_code range="1:" level="fatal" />
     </stdio>
-	<command>tassel.sh $analysis_opts.fonction_selector $output1 $output2 $output3 $log tmpdir$$/
+    <command>$__tool_directory__/tassel.sh $analysis_opts.fonction_selector $output1 $output2 $output3 $log tmpdir$$/
 #if $analysis_opts.fonction_selector == "mlm":
  -fork1 -h $hapmap -filterAlign -filterAlignMinFreq $filterAlignMinFreq
  -fork2 -r $analysis_opts.trait