Mercurial > repos > rnateam > kinwalker

comparison tool_dependencies.xml @ 2:8f32d59f5606 draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/rna_tools/kinwalker commit 3103ebed1a420c7d3415b67ef532ea579edf9faa
author rnateam
date Wed, 12 Jul 2017 14:11:24 -0400
parents 723f1a32ad85
children
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1:723f1a32ad85 2:8f32d59f5606
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="vienna_rna" version="2.1">
4 <repository changeset_revision="bb91a5b178e2" name="package_vienna_rna_2_1" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="gnu_coreutils" version="8.22">
7 <repository changeset_revision="b638666e399d" name="package_gnu_coreutils_8_22" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
8 </package>
9 <package name="kinwalker" version="1.0">
10 <install version="1.0">
11 <actions>
12 <action target_filename="kinwalker.tar.gz" type="download_by_url">https://raw.githubusercontent.com/bgruening/download_store/master/kinwalker/kinwalker-patched.tar.gz</action>
13 <action type="set_environment_for_install">
14 <repository changeset_revision="bb91a5b178e2" name="package_vienna_rna_2_1" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
15 <package name="vienna_rna" version="2.1" />
16 </repository>
17 </action>
18 <action type="shell_command">make VRNA_INC="-I$ROOT_VIENNA_RNA_DIR/include/ViennaRNA" VRNA_LIB="-L$ROOT_VIENNA_RNA_DIR/lib -lRNA" LDFLAGS="-fopenmp"</action>
19 <action type="move_file">
20 <source>kinwalker</source>
21 <destination>$INSTALL_DIR/bin</destination>
22 </action>
23 <action type="set_environment">
24 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
25 </action>
26 </actions>
27 </install>
28 <readme>
29
30 The Kinwalker algorithm performs cotranscriptional folding of RNAs,
31 starting at a user a specified structure (default: open chain) and
32 ending at the minimum free energy structure. Folding events are
33 performed between transcription of additional bases and are regulated
34 by barrier heights between the source and target structure.
35
36 </readme>
37 </package>
38 </tool_dependency>