Mercurial > repos > iuc > package_krona_2_5

changeset 0:96d808a49774 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_krona_2_5 commit 8b1065673b716bdf9f78beff92ce839740ef41ba
author iuc
date Fri, 31 Jul 2015 15:37:43 -0400
parents
children
files tool_dependencies.xml
diffstat 1 files changed, 48 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Fri Jul 31 15:37:43 2015 -0400
@@ -0,0 +1,48 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="perl" version="5.18.1">
+        <repository changeset_revision="fd34b72b501b" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="krona" version="2.5">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://depot.galaxyproject.org/package/source/KronaTools-2.5.tar</action>
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="fd34b72b501b" name="package_perl_5_18" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu">
+                        <package name="perl" version="5.18.1" />
+                    </repository>
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>lib</source_directory>
+                    <destination_directory>$INSTALL_DIR/lib</destination_directory>
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>scripts</source_directory>
+                    <destination_directory>$INSTALL_DIR/scripts</destination_directory>
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>img</source_directory>
+                    <destination_directory>$INSTALL_DIR/img</destination_directory>
+                </action>
+                <action type="move_directory_files">
+                    <source_directory>src</source_directory>
+                    <destination_directory>$INSTALL_DIR/src</destination_directory>
+                </action>
+                <action type="make_directory">$INSTALL_DIR/bin</action>
+                <action type="shell_command">
+                    for i in ClassifyBLAST GetContigMagnitudes GetLibPath GetTaxIDFromGI \
+                            ImportBLAST ImportDiskUsage ImportEC ImportFCP ImportGalaxy \
+                            ImportMETAREP-BLAST ImportMETAREP-EC ImportMGRAST ImportPhymmBL \
+                            ImportRDP ImportRDPComparison ImportTaxonomy ImportText ImportXML ; do
+                        ln -s $INSTALL_DIR/scripts/$i.pl $INSTALL_DIR/bin/kt$i
+                    done
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                    <environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib</environment_variable> 
+                </action>
+            </actions>
+        </install>
+        <readme />
+    </package>
+</tool_dependency>