Mercurial > repos > wolma > mimodd

comparison tool_dependencies.xml @ 21:c46406466625 draft

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Uploaded
author wolma
date Sat, 11 Jun 2016 19:10:44 -0400
parents aba6d9b1c1f1
children 24154c580718
comparison
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20:aba6d9b1c1f1 21:c46406466625
2 <tool_dependency> 2 <tool_dependency>
3 <package name="zlib" version="1.2.8"> 3 <package name="zlib" version="1.2.8">
4 <repository changeset_revision="63a4a902cda2" name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 4 <repository changeset_revision="63a4a902cda2" name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package> 5 </package>
6 <package name="R" version="3.2.1"> 6 <package name="R" version="3.2.1">
7 <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 7 <repository changeset_revision="d9f7d84125b7" name="package_r_3_2_1" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
8 </package> 8 </package>
9 <package name="readline" version="6.3"> 9 <package name="readline" version="6.3">
10 <repository changeset_revision="ca1a9400d4e1" name="package_readline_6_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 10 <repository changeset_revision="ca1a9400d4e1" name="package_readline_6_3" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
11 </package> 11 </package>
12 <package name="python3" version="3.4"> 12 <package name="python3" version="3.4">
13 <repository changeset_revision="5e5653b689ca" name="package_python_3_4_x_lean" owner="wolma" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" /> 13 <repository changeset_revision="83407422ec16" name="package_python_3_4_x_lean" owner="wolma" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
14 </package> 14 </package>
15 15
16 <package name="mimodd" version="0.1.7.2"> 16 <package name="mimodd" version="0.1.7.2">
17 <install version="1.0"> 17 <install version="1.0">
18 <actions> 18 <actions>
19 <!-- prepare a python3 venv to install into --> 19 <!-- prepare a python3 venv to install into -->
20 <action type="set_environment_for_install"> 20 <action type="set_environment_for_install">
21 <repository changeset_revision="5e5653b689ca" name="package_python_3_4_x_lean" owner="wolma" toolshed="https://toolshed.g2.bx.psu.edu"> 21 <repository changeset_revision="83407422ec16" name="package_python_3_4_x_lean" owner="wolma" toolshed="https://toolshed.g2.bx.psu.edu">
22 <package name="python3" version="3.4" /> 22 <package name="python3" version="3.4" />
23 </repository> 23 </repository>
24 </action> 24 </action>
25 <action type="shell_command">python3 -m venv --without-pip $INSTALL_DIR/MiModD_venv</action> 25 <action type="shell_command">python3 -m venv --without-pip $INSTALL_DIR/MiModD_venv</action>
26 <!-- remove the plain python symlink from the venv to avoid its 26 <!-- remove the plain python symlink from the venv to avoid its
48 <action type="change_directory">rpy2-2.7.5</action> 48 <action type="change_directory">rpy2-2.7.5</action>
49 <action type="set_environment_for_install"> 49 <action type="set_environment_for_install">
50 <repository changeset_revision="ca1a9400d4e1" name="package_readline_6_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> 50 <repository changeset_revision="ca1a9400d4e1" name="package_readline_6_3" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
51 <package name="readline" version="6.3" /> 51 <package name="readline" version="6.3" />
52 </repository> 52 </repository>
53 <repository changeset_revision="d0bf97420fb5" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu"> 53 <repository changeset_revision="d9f7d84125b7" name="package_r_3_2_1" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
54 <package name="R" version="3.2.1" /> 54 <package name="R" version="3.2.1" />
55 </repository> 55 </repository>
56 </action> 56 </action>
57 <action type="shell_command"> 57 <action type="shell_command">
58 export LDFLAGS="-L$READLINE_LIB_PATH -lreadline" &amp;&amp; 58 export LDFLAGS="-L$READLINE_LIB_PATH -lreadline" &amp;&amp;
75 <!-- run MiModD's __first_run__ module once to give the package a chance to configure itself --> 75 <!-- run MiModD's __first_run__ module once to give the package a chance to configure itself -->
76 <action type="shell_command">$INSTALL_DIR/MiModD_venv/bin/python3 -m MiModD.__first_run__</action> 76 <action type="shell_command">$INSTALL_DIR/MiModD_venv/bin/python3 -m MiModD.__first_run__</action>
77 77
78 <!-- configure environment --> 78 <!-- configure environment -->
79 <action type="set_environment"> 79 <action type="set_environment">
80 <!-- make the mimodd entry script discoverable --> 80 <!-- to make MiModD accessible it is sufficient to simply add the
81 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/MiModD_venv/bin</environment_variable> 81 venvs site-packages directory to PYTHONPATH;
82 SITE_PACKAGES_RELPATH will be made available by the python3
83 package, which all MiModD toolwrappers require -->
84 <environment_variable action="prepend_to" name="PYTHONPATH">$INSTALL_DIR/MiModD_venv/$SITE_PACKAGES_RELPATH</environment_variable>
82 </action> 85 </action>
83 </actions> 86 </actions>
84 </install> 87 </install>
85 88
86 <readme> 89 <readme>