Mercurial > repos > iuc > package_scikit_learn_0_15

changeset 1:8e53bbb04516 draft

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Uploaded
author iuc
date Thu, 09 Oct 2014 05:55:21 -0400
parents 25b635f2eaa5
children a3154129061f
files tool_dependencies.xml
diffstat 1 files changed, 42 insertions(+), 40 deletions(-) [+]
line wrap: on
line diff
--- a/tool_dependencies.xml	Thu Oct 09 05:20:55 2014 -0400
+++ b/tool_dependencies.xml	Thu Oct 09 05:55:21 2014 -0400
@@ -1,31 +1,32 @@
 <?xml version="1.0"?>
 <tool_dependency>
-  <package name="numpy" version="1.9">
-      <repository changeset_revision="03eea94e534e" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="scipy" version="0.14">
-      <repository changeset_revision="36b2ca3477c2" name="package_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="matplotlib" version="1.2.1">
-      <repository changeset_revision="fe60617380df" name="package_matplotlib_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
-    </package>
-    <package name="scikit_learn" version="0.15">
-      <install version="1.0">
-          <actions>
-              <action type="download_by_url">https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.15.2.tar.gz#md5=d9822ad0238e17b382a3c756ea94fe0d</action>
-                <action type="set_environment_for_install">
-                  <repository changeset_revision="03eea94e534e" name="package_numpy_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="numpy" version="1.9" />
-                    </repository>
-                    <repository changeset_revision="36b2ca3477c2" name="package_scipy_0_14" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="scipy" version="0.14" />
-                    </repository>
-                    <repository changeset_revision="fe60617380df" name="package_matplotlib_1_2" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
-                      <package name="matplotlib" version="1.2.1" />
-                    </repository>
-                </action>
-                <action type="make_directory">$INSTALL_DIR/lib/python</action>
-                <action language="cheetah" type="template_command">
+        <package name="numpy" version="1.9">
+            <repository changeset_revision="03eea94e534e" name="package_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+        </package>
+        <package name="scipy" version="0.14">
+            <repository changeset_revision="36b2ca3477c2" name="package_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+        </package>
+        <package name="matplotlib" version="1.4">
+            <repository changeset_revision="fb3374b02de2" name="package_matplotlib_1_4" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+        </package>
+        <package name="scikit_learn" version="0.15">
+            <install version="1.0">
+                <actions>
+                    <action type="download_by_url">https://pypi.python.org/packages/source/s/scikit-learn/scikit-learn-0.15.2.tar.gz#md5=d9822ad0238e17b382a3c756ea94fe0d</action>
+                    <action type="set_environment_for_install">
+                        <repository changeset_revision="03eea94e534e" name="package_numpy_1_9" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                            <package name="numpy" version="1.9" />
+                        </repository>
+                        <repository changeset_revision="36b2ca3477c2" name="package_scipy_0_14" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                            <package name="scipy" version="0.14" />
+                        </repository>
+                        <repository changeset_revision="fb3374b02de2" name="package_matplotlib_1_4" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                            <package name="matplotlib" version="1.4" />
+                        </repository>
+                    </action>
+
+                    <action type="make_directory">$INSTALL_DIR/lib/python</action>
+                    <action language="cheetah" type="template_command">
                     export PYTHONPATH=\$PYTHONPATH:$env.INSTALL_DIR/lib/python &amp;&amp; 
 
                     export PATH=\$PATH:$env.PATH_NUMPY &amp;&amp; 
@@ -33,23 +34,24 @@
 
                     python setup.py install --install-lib $env.INSTALL_DIR/lib/python
                     </action>
-                <action type="set_environment">
-                  <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
-                    <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
-                    <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
-                    <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
-                    <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
-                    <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
-                    <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
-                    <environment_variable action="set_to" name="PYTHONPATH_SCIKIT_LEARN">$INSTALL_DIR/lib/python</environment_variable>
-                </action>
-            </actions>
-        </install>
-        <readme>
+                    <action type="set_environment">
+                        <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+                        <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
+                        <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
+                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
+                        <environment_variable action="prepend_to" name="PATH">$ENV[PATH_SCIPY]</environment_variable>
+                        <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_MATPLOTLIB]</environment_variable>
+
+                        <environment_variable action="set_to" name="PYTHONPATH_SCIKIT_LEARN">$INSTALL_DIR/lib/python</environment_variable>
+                        </action>
+                </actions>
+            </install>
+            <readme>
             Compiling scikit-learn requires a C compiler (typically gcc). 
             The PYTHONPATH for scikit-learn can be accessed through PYTHONPATH_SCIKIT_LEARN.
             
             Wrapper development: https://github.com/bgruening/galaxytools/tree/master/orphan_tool_dependencies
             </readme>
-    </package>
+        </package>
 </tool_dependency>