Mercurial > repos > hyungrolee > mgescan_test

comparison tool_dependencies.xml @ 5:088266bbf150 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Deleted selected files
author hyungrolee
date Mon, 15 Feb 2016 03:00:00 -0500
parents 33dfa472f8ef
children
comparison
equal deleted inserted replaced
4:33dfa472f8ef 5:088266bbf150
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="trf" version="4.0">
4 <repository changeset_revision="a2e1d1f25e35" name="tandem_repeats_finder" owner="urgi-team" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
5 </package>
6 <package name="mgescan" version="3">
7 <install version="1.0">
8 <actions_group>
9 <!--
10 <actions architecture="x86_64" os="linux">
11 <action type="download_by_url">
12 https://github.com/MGEScan/mgescan/archive/1.0.tar.gz
13 </action>
14 <action type="move_directory_files">
15 <source_directory>.</source_directory>
16 <destination_directory>$INSTALL_DIR</destination_directory>
17 </action>
18 </actions>
19 -->
20 <actions>
21 <action type="download_by_url">
22 https://github.com/MGEScan/mgescan/archive/1.0.tar.gz
23 </action>
24 <action type="set_environment_for_install">
25 <repository changeset_revision="a2e1d1f25e35" name="tandem_repeats_finder" owner="urgi-team" toolshed="https://toolshed.g2.bx.psu.edu">
26 <package name="trf" version="4.0" />
27 </repository>
28 </action>
29 <action type="shell_command">python setup.py install</action>
30 <action type="move_file">
31 <source>mgescan</source>
32 <destination>$INSTALL_DIR/mgescan</destination>
33 </action>
34 </actions>
35 <action type="set_environment">
36 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/mgescan</environment_variable>
37 <environment_variable action="set_to" name="MGESCAN_SRC">$INSTALL_DIR</environment_variable>
38 </action>
39 </actions_group>
40 </install>
41 <readme>
42 Program: mgescan (Tools for identifying LTR &amp; nonLTR)
43 Version: 3.0
44
45 Usage:
46 mgescan both &lt;genome_dir&gt; [--output=&lt;data_dir&gt;] [--mpi=&lt;num&gt;]
47 mgescan ltr &lt;genome_dir&gt; [--output=&lt;data_dir&gt;] [--mpi=&lt;num&gt;]
48 mgescan nonltr &lt;genome_dir&gt; [--output=&lt;data_dir&gt;] [--mpi=&lt;num&gt;]
49 mgescan (-h | --help)
50 mgescan --version
51
52 </readme>
53 </package>
54 </tool_dependency>