Mercurial > repos > davidvanzessen > argalaxy_tools

comparison tool_dependencies.xml @ 58:a073fa12ef98 draft

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author davidvanzessen
date Fri, 18 Mar 2016 08:02:22 -0400
parents 16c7fc1c4bf8
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57:16c7fc1c4bf8 58:a073fa12ef98
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <set_environment version="1.0"> 3 <package name="igblastwrp" version="0.6">
4 </set_environment>
5
6 <package name="blastn" version="1.0">
7 <install version="1.0"> 4 <install version="1.0">
8 <actions> 5 <actions>
9 <action type="download_by_url">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-x64-linux.tar.gz</action> 6 <action type="download_by_url">https://github.com/mikessh/higblast/releases/download/v0.6/igblastwrapper_linux64.tar.gz</action>
10 <action type="move_file"> 7 <action type="move_file">
11 <source>bin/blastn</source> 8 <source>bin</source>
12 <destination>$INSTALL_DIR</destination> 9 <destination>$INSTALL_DIR/</destination>
13 </action> 10 </action>
14 <action type="set_environment"> 11 <action type="move_file">
15 <environment_variable name="BLASTN_DIR" action="set_to">$INSTALL_DIR</environment_variable> 12 <source>data</source>
16 </action> 13 <destination>$INSTALL_DIR/</destination>
14 </action>
15 <action type="move_file">
16 <source>igblastwrp.jar</source>
17 <destination>$INSTALL_DIR/</destination>
18 </action>
19 <action type="set_environment">
20 <environment_variable action="set_to" name="IGBLASTWRP">$INSTALL_DIR/</environment_variable>
21 </action>
17 </actions> 22 </actions>
18 </install> 23 </install>
19 <readme> 24 <readme>
20 downloads blast (ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-x64-linux.tar.gz) and keeps the blastn executable 25 Downloads https://github.com/mikessh/higblast/
21 </readme> 26 </readme>
22 </package> 27 </package>
28 <package name="weblogo" version="3.3">
29 <repository changeset_revision="18cb94906560" name="package_weblogo_3_3" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
30 </package>
31 <!--
32 <package name="circostools" version="0.20">
33 <repository name="package_circostools_0_20" owner="iuc" />
34 </package>
35 -->
23 </tool_dependency> 36 </tool_dependency>
24