Mercurial > repos > yating-l > jbrowsearchivecreator

changeset 1:692e8c712915 draft

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planemo upload for repository https://github.com/Yating-L/jbrowse-archive-creator.git commit d583ac16a6c6942730ea536eb59cc37941816030-dirty
author yating-l
date Thu, 18 May 2017 17:40:58 -0400
parents 8d1cf7ce65cd
children 3e2160197902
files tool_dependencies.xml
diffstat 1 files changed, 3 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu May 18 17:25:33 2017 -0400
+++ b/tool_dependencies.xml	Thu May 18 17:40:58 2017 -0400
@@ -68,17 +68,13 @@
     <package name="jbrowse_tools" version="1.12.1">
         <install version="1.0">
             <actions_group>
-                <action type="setup_perl_environment">
-                    <repository name="package_perl_5_18" owner="iuc">
-                        <package name="perl" version="5.18.1" />
-                    </repository>
-                <package>XML::Parser</package>
-                <package>http://search.cpan.org/CPAN/authors/id/C/CJ/CJFIELDS/BioPerl-1.6.922.tar.gz</package>
-                </action>
                 <actions architecture="x86_64" os="linux">
                     <action type="download_by_url">http://jbrowse.org/wordpress/wp-content/plugins/download-monitor/download.php?id=105</action>
                     <action type="make_directory">$INSTALL_DIR/jbrowse</action>
                     <action type="shell_command">
+                        if [ -d "$TMP_WORK_DIR" ] ; then export HOME=$TMP_WORK_DIR ; else export HOME=`mktemp -d` ; fi ;
+                    </action>
+                    <action type="shell_command">
                         ./setup.sh
                     </action>
                     <action type="move_directory_files">