Mercurial > repos > rnateam > package_bctools_0_1

changeset 0:a286da13c60b draft

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Uploaded
author rnateam
date Thu, 22 Oct 2015 08:04:41 -0400
parents
children c9237b21b87f
files tool_dependencies.xml
diffstat 1 files changed, 42 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Oct 22 08:04:41 2015 -0400
@@ -0,0 +1,42 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="bctools" version="0.1.0">
+        <install version="1.0">
+            <actions_group>
+                <actions>
+                    <action target_filename="bctools-0.1.0-alpha.tar.gz" type="download_by_url">https://github.com/tzk/bctools/archive/v0.1.0-alpha.tar.gz</action>
+                    <action type="set_environment_for_install">
+                        <repository changeset_revision="f8d72690eeae" name="package_biopython_1_65" owner="biopython" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                            <package name="biopython" version="1.65" />
+                        </repository>
+                        <!-- <repository name="package_python_2_7_pandas_0_16" owner="iuc">
+                            <package name="pandas" version="0.16" />
+                        </repository> -->
+                        <repository changeset_revision="045c4645abdf" name="package_pandas_0_14" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                            <package name="pandas" version="0.14" />
+                        </repository>
+                        <!-- <repository name="package_python_2_7_pybedtools_0_6_9" owner="iuc">
+                            <package name="pybedtools" version="0.6.9" />
+                        </repository> -->
+                        <repository changeset_revision="372c85bed2ca" name="package_pybedtools_0_6_6" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                            <package name="pybedtools" version="0.6.6" />
+                        </repository>
+
+                    </action>
+                    <action type="shell_command">
+                        export PYTHONPATH=$PYTHONPATH:$INSTALL_DIR/lib/python &amp;&amp;
+                        python setup.py install --install-lib $INSTALL_DIR/lib/python
+                    </action>
+                    <action type="set_environment">
+                        <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/lib/python</environment_variable>
+                        <environment_variable action="set_to" name="BCTOOLS_ROOT_DIR">$INSTALL_DIR</environment_variable>
+                    </action>
+                </actions>
+            </actions_group>
+        </install>
+        <readme>
+bctools - Set of tools for handling barcodes in NGS data.
+https://github.com/tzk/bctools
+        </readme>
+    </package>
+</tool_dependency>