Mercurial > repos > davidvanzessen > argalaxy_tools

comparison tool_dependencies.xml @ 57:16c7fc1c4bf8 draft

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Uploaded
author davidvanzessen
date Fri, 18 Mar 2016 07:50:34 -0400
parents 4c5033eb708f
children a073fa12ef98
comparison
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56:2eb94c08e550 57:16c7fc1c4bf8
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool_dependency> 2 <tool_dependency>
3 <package name="igblastwrp" version="0.6"> 3 <set_environment version="1.0">
4 </set_environment>
5
6 <package name="blastn" version="1.0">
4 <install version="1.0"> 7 <install version="1.0">
5 <actions> 8 <actions>
6 <action type="download_by_url">https://github.com/mikessh/higblast/releases/download/v0.6/igblastwrapper_linux64.tar.gz</action> 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>
7 <action type="move_file"> 10 <action type="move_file">
8 <source>bin</source> 11 <source>bin/blastn</source>
9 <destination>$INSTALL_DIR/</destination> 12 <destination>$INSTALL_DIR</destination>
10 </action> 13 </action>
11 <action type="move_file"> 14 <action type="set_environment">
12 <source>data</source> 15 <environment_variable name="BLASTN_DIR" action="set_to">$INSTALL_DIR</environment_variable>
13 <destination>$INSTALL_DIR/</destination> 16 </action>
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>
22 </actions> 17 </actions>
23 </install> 18 </install>
24 <readme> 19 <readme>
25 Downloads https://github.com/mikessh/higblast/ 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
26 </readme> 21 </readme>
27 </package> 22 </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 -->
36 </tool_dependency> 23 </tool_dependency>
24