Mercurial > repos > wolma > package_mimodd_0_1_5

changeset 1:46fd9b9b753f draft

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upgrade to v0.1.5.1
author wolma
date Fri, 16 Jan 2015 10:34:59 -0500
parents fbac402764d6
children a1ed24182b03
files tool_dependencies.xml
diffstat 1 files changed, 42 insertions(+), 37 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Sat Dec 13 17:19:41 2014 -0500
+++ b/tool_dependencies.xml	Fri Jan 16 10:34:59 2015 -0500
@@ -1,42 +1,47 @@
 <?xml version="1.0"?>
 <tool_dependency>
   <package name="zlib" version="1.2.8">
-      <repository changeset_revision="dce22a65bac2" name="package_zlib_1_2_8" owner="wolma" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="python3" version="3.4.1">
-      <repository changeset_revision="1c337560fa56" name="package_python3_zlib_dependent_1_0" owner="wolma" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="mimodd" version="0.1.5">
-      <install version="1.0">
-          <actions>
-              <action type="download_by_url">http://sourceforge.net/projects/mimodd/files/MiModD-0.1.5.tar.gz</action>
-                <action type="set_environment_for_install">
-                  <repository changeset_revision="1c337560fa56" name="package_python3_zlib_dependent_1_0" owner="wolma" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="python3" version="3.4.1" />
-                    </repository>
-                </action>
-                <action type="set_environment_for_install">
-                  <repository changeset_revision="dce22a65bac2" name="package_zlib_1_2_8" owner="wolma" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="zlib" version="1.2.8" />
-                    </repository>
-                </action>
-                <action type="shell_command">pyvenv --without-pip $INSTALL_DIR/MiModD_venv</action>
-                <!-- install MiModD placing the entry script mimodd into the venv's bin directory -->
-                <action type="shell_command">$INSTALL_DIR/MiModD_venv/bin/python3 setup.py install</action>
-                <!-- make MiModD's wrapped binaries executable -->
-                <action type="shell_command">chmod 755 $INSTALL_DIR/MiModD_venv/lib/python3.4/site-packages/MiModD/bin/*</action>
-                <action type="set_environment">
-                  <!-- make the mimodd entry script discoverable -->
-                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/MiModD_venv/bin</environment_variable>
-                    <!-- clear $PYTHONPATH and $PYTHONHOME -->
-                    <environment_variable action="set_to" name="PYTHONPATH" />
-                    <environment_variable action="set_to" name="PYTHONHOME" />
-                    <!-- propagate $LD_LIBRARY_PATH -->
-                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[LD_LIBRARY_PATH]</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>
+    <repository changeset_revision="dce22a65bac2" name="package_zlib_1_2_8" owner="wolma" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+  </package>
+  <package name="python3" version="3.4.1">
+    <repository changeset_revision="1c337560fa56" name="package_python3_zlib_dependent_1_0" owner="wolma" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+  </package>
+    
+  <package name="mimodd" version="0.1.5">
+    <install version="1.0">
+      <actions>
+        <action type="download_by_url">http://sourceforge.net/projects/mimodd/files/MiModD-0.1.5.1.tar.gz</action>
+        <action type="set_environment_for_install">
+          <repository changeset_revision="1c337560fa56" name="package_python3_zlib_dependent_1_0" owner="wolma" toolshed="https://testtoolshed.g2.bx.psu.edu">
+            <package name="python3" version="3.4.1" />
+          </repository>
+        </action>
+        <action type="set_environment_for_install">
+          <repository changeset_revision="dce22a65bac2" name="package_zlib_1_2_8" owner="wolma" toolshed="https://testtoolshed.g2.bx.psu.edu">
+            <package name="zlib" version="1.2.8" />
+          </repository>
+        </action>
+        <action type="shell_command">pyvenv --without-pip $INSTALL_DIR/MiModD_venv</action>
+      <!-- install MiModD placing the entry script mimodd into the venv's bin directory -->
+        <action type="shell_command">$INSTALL_DIR/MiModD_venv/bin/python3 setup.py install</action>
+      <!-- make MiModD's wrapped binaries executable -->
+        <action type="shell_command">chmod 755 $INSTALL_DIR/MiModD_venv/lib/python3.4/site-packages/MiModD/bin/*</action>
+        
+        
+        <action type="set_environment">
+      <!-- make the mimodd entry script discoverable -->
+          <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/MiModD_venv/bin</environment_variable>
+      <!-- clear $PYTHONPATH and $PYTHONHOME -->
+          <environment_variable action="set_to" name="PYTHONPATH" />
+          <environment_variable action="set_to" name="PYTHONHOME" />
+      <!-- propagate $LD_LIBRARY_PATH -->    
+          <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[LD_LIBRARY_PATH]</environment_variable>
+        </action>
+        
+        
+      </actions>
+    </install>
+    <readme>
 Summary: Tools for Mutation Identification in Model Organism Genomes using Desktop PCs
 Home-page: http://sourceforge.net/projects/mimodd/
 Author: Wolfgang Maier
@@ -63,5 +68,5 @@
 graphical user interface, database management of results and simple composition 
 of analysis steps into workflows.
     </readme>
-    </package>
+  </package>
 </tool_dependency>