annotate tool_dependencies.xml @ 0:6f870ed59b6e draft

Uploaded
author nml
date Mon, 06 Feb 2017 12:31:04 -0500
parents
children 599a4dc309aa
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
6f870ed59b6e Uploaded
nml
parents:
diff changeset
1 <?xml version="1.0"?>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
2 <tool_dependency>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
3 <package name="vfdb" version="08-07-2014">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
4 <install version="1.0">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
5 <actions_group>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
6 <actions>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
7 <action sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb" type="download_by_url">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
8 <action type="make_directory">$INSTALL_DIR/vfdb</action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
9 <action type="move_directory_files">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
10 <source_directory>vfdb</source_directory>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
11 <destination_directory>$INSTALL_DIR/vfdb</destination_directory>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
12 </action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
13 <action type="set_environment">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
14 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
15 <environment_variable action="set_to" name="VF_PATH">$INSTALL_DIR</environment_variable>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
16 </action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
17 <action type="shell_command">ls -lrt</action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
18 <action type="shell_command">echo $INSTALL_DIR</action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
19 <action type="shell_command">echo $PATH</action>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
20 </actions>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
21 </actions_group>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
22 </install>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
23 </package>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
24
6f870ed59b6e Uploaded
nml
parents:
diff changeset
25 <package name="srst2" version="0.1.4.6">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
26 <repository changeset_revision="79a05e500381" name="package_srst2_0_1_4_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu" />
6f870ed59b6e Uploaded
nml
parents:
diff changeset
27 </package>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
28 <package name="samtools" version="0.1.18">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
29 <repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
6f870ed59b6e Uploaded
nml
parents:
diff changeset
30 </package>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
31 <package name="bowtie2" version="2.1.0">
6f870ed59b6e Uploaded
nml
parents:
diff changeset
32 <repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
6f870ed59b6e Uploaded
nml
parents:
diff changeset
33 </package>
6f870ed59b6e Uploaded
nml
parents:
diff changeset
34 </tool_dependency>