# HG changeset patch
# User galaxyp
# Date 1432978181 14400
# Node ID e7dfa3309ed38606778bc6797968f203a62faf30
# Parent  4381e493affdd179be4d482cd3bab5e9403f5b62
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_python_2_7_msproteomicstools_0_3_2 commit ceaef1a06c8600f9a042fc8f80f5b3fae75d4445-dirty

diff -r 4381e493affd -r e7dfa3309ed3 tool_dependencies.xml
--- a/tool_dependencies.xml	Sun May 17 16:39:27 2015 -0400
+++ b/tool_dependencies.xml	Sat May 30 05:29:41 2015 -0400
@@ -1,16 +1,16 @@
 <?xml version="1.0"?>
 <tool_dependency>
     <package name="numpy" version="1.9">
-       <repository changeset_revision="1b7d6172a358" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+       <repository changeset_revision="75990fbcd389" name="package_python_2_7_numpy_1_9" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="scipy" version="0.14">
-       <repository changeset_revision="b24af010d80a" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+       <repository changeset_revision="eaf37c2ff694" name="package_python_2_7_scipy_0_14" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="libxslt" version="1.1.28">
        <repository changeset_revision="a8d63d4be58f" name="package_libxslt_1_1_28" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="python" version="2.7">
-        <repository changeset_revision="55bebb0e06ec" name="package_python_2_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="92611fea803c" name="package_python_2_7" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="libxml2" version="2.9.1">
         <repository changeset_revision="926b471a2e43" name="package_libxml2_2_9_1" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
@@ -19,10 +19,10 @@
         <install version="1.0">
             <actions>
                 <action type="setup_python_environment">
-                   <repository changeset_revision="55bebb0e06ec" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                   <repository changeset_revision="92611fea803c" name="package_python_2_7" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                        <package name="python" version="2.7" />
                    </repository>
-                    <repository changeset_revision="1b7d6172a358" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                    <repository changeset_revision="75990fbcd389" name="package_python_2_7_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                         <package name="numpy" version="1.9" />
                     </repository>
                     <repository changeset_revision="926b471a2e43" name="package_libxml2_2_9_1" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu">
@@ -31,7 +31,7 @@
                     <repository changeset_revision="a8d63d4be58f" name="package_libxslt_1_1_28" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu">
                         <package name="libxslt" version="1.1.28" />
                     </repository>
-                    <repository changeset_revision="b24af010d80a" name="package_python_2_7_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                    <repository changeset_revision="eaf37c2ff694" name="package_python_2_7_scipy_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
                         <package name="scipy" version="0.14" />
                     </repository>
                     <!-- allow downloading and installing an Python package from https://pypi.org/ -->
@@ -40,7 +40,9 @@
                     <package>https://pypi.python.org/packages/source/X/XlsxWriter/XlsxWriter-0.7.3.tar.gz#md5=090a2d2b0c3c654ba44954be29306371</package>
                     <package>https://pypi.python.org/packages/source/s/scikits.datasmooth/scikits.datasmooth-0.61.tar.gz</package>
                     <package>https://pypi.python.org/packages/source/p/pyteomics/pyteomics-2.5.5.tar.gz</package>
-                    <package>https://pypi.python.org/packages/source/c/cluster/cluster-1.2.2.tar.gz</package>
+                    <package>https://pypi.python.org/packages/source/c/cluster/cluster-1.1.2.tar.gz</package>
+                    <package>https://pypi.python.org/packages/source/c/cvxopt/cvxopt-1.1.7.tar.gz#md5=5b80f5382bb638e606e486ee39bc93b4</package>
+                    <package>https://pypi.python.org/packages/source/c/configobj/configobj-4.7.2.tar.gz</package>
                     <package>https://pypi.python.org/packages/source/m/msproteomicstools/msproteomicstools-0.3.2.tar.gz</package>
                 </action>
                 <action type="set_environment">
@@ -48,6 +50,8 @@
                     <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_NUMPY]</environment_variable>
                     <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_PANDAS]</environment_variable>
                     <environment_variable action="prepend_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
+                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[ATLAS_LIB_DIR]</environment_variable>
+                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[ATLAS_LIB_DIR]/atlas</environment_variable>
                     <environment_variable action="prepend_to" name="PATH">$ENV[PATH_NUMPY]</environment_variable>
                     <environment_variable action="set_to" name="MSPROTEOMICSTOOLS_ROOT_DIR">$INSTALL_DIR</environment_variable>
                 </action>