Mercurial > repos > hyungrolee > mgescan_test

comparison tool_dependencies.xml @ 2:c4c10e4b2524 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author hyungrolee
date Mon, 15 Feb 2016 01:39:33 -0500
parents
children
comparison
equal deleted inserted replaced
1:2672622e9ca9 2:c4c10e4b2524
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>