Mercurial > repos > iuc > package_macs2_2_1_0_20151222

changeset 0:ae3cfa214a33 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/packages/package_macs2_2_1_0_20151222 commit 6692e3a4fa1bf6e9a407735afdbb2454ed32b316
author iuc
date Wed, 27 Jan 2016 15:21:48 -0500
parents
children e1370f7d5e2f
files tool_dependencies.xml
diffstat 1 files changed, 40 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Wed Jan 27 15:21:48 2016 -0500
@@ -0,0 +1,40 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="numpy" version="1.7.1">
+       <repository changeset_revision="300877695495" name="package_numpy_1_7" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="scipy" version="0.12.0">
+       <repository changeset_revision="cfbbe183f8a7" name="package_scipy_0_12" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="macs2" version="2.1.0.20151222">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://pypi.python.org/packages/source/M/MACS2/MACS2-2.1.0.20151222.tar.gz</action>
+
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="300877695495" name="package_numpy_1_7" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                        <package name="numpy" version="1.7.1" />
+                    </repository>
+                    <repository changeset_revision="cfbbe183f8a7" name="package_scipy_0_12" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
+                        <package name="scipy" version="0.12.0" />
+                    </repository>
+                </action>
+                <action type="make_directory">$INSTALL_DIR/lib/python</action>
+                <!-- exporting the CFLAGS and CPPFLAGS are due to http://stackoverflow.com/questions/22313407/clang-error-unknown-argument-mno-fused-madd-python-package-installation-fa -->
+                <action type="shell_command">
+                    export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
+                    python setup.py install --install-lib $INSTALL_DIR/lib/python --install-scripts $INSTALL_DIR/bin
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="append_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+                    <environment_variable action="append_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="PATH">$INSTALL_DIR/bin</environment_variable>
+                    <environment_variable action="append_to" name="PYTHONPATH">$ENV[PYTHONPATH_SCIPY]</environment_variable>
+                    <environment_variable action="set_to" name="PYTHONPATH_MACS2">$INSTALL_DIR/lib/python</environment_variable>
+                    </action>
+            </actions>
+        </install>
+        <readme>Macs2 installation instructions. MACS2 can be found at https://github.com/taoliu/MACS</readme>
+    </package>
+</tool_dependency>