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comparison tool_dependencies.xml @ 1:599a4dc309aa draft

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planemo upload commit 1ea98fb88a93a571beda5bbd56449c946860a258
author nml
date Wed, 01 Mar 2017 12:39:11 -0500
parents 6f870ed59b6e
children
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0:6f870ed59b6e 1:599a4dc309aa
2 <tool_dependency> 2 <tool_dependency>
3 <package name="vfdb" version="08-07-2014"> 3 <package name="vfdb" version="08-07-2014">
4 <install version="1.0"> 4 <install version="1.0">
5 <actions_group> 5 <actions_group>
6 <actions> 6 <actions>
7 <action sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb" type="download_by_url">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action> 7 <action type="download_by_url" sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action>
8 <action type="make_directory">$INSTALL_DIR/vfdb</action> 8 <action type="make_directory">$INSTALL_DIR/vfdb</action>
9 <action type="move_directory_files"> 9 <action type="move_directory_files">
10 <source_directory>vfdb</source_directory> 10 <source_directory>vfdb</source_directory>
11 <destination_directory>$INSTALL_DIR/vfdb</destination_directory> 11 <destination_directory>$INSTALL_DIR/vfdb</destination_directory>
12 </action> 12 </action>
13 <action type="set_environment"> 13 <action type="set_environment">
14 <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable> 14 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
15 <environment_variable action="set_to" name="VF_PATH">$INSTALL_DIR</environment_variable> 15 <environment_variable name="VF_PATH" action="set_to">$INSTALL_DIR</environment_variable>
16 </action> 16 </action>
17 <action type="shell_command">ls -lrt</action> 17 <action type="shell_command">ls -lrt</action>
18 <action type="shell_command">echo $INSTALL_DIR</action> 18 <action type="shell_command">echo $INSTALL_DIR</action>
19 <action type="shell_command">echo $PATH</action> 19 <action type="shell_command">echo $PATH</action>
20 </actions> 20 </actions>
21 </actions_group> 21 </actions_group>
22 </install> 22 </install>
23 </package> 23 </package>
24
25 <package name="srst2" version="0.1.4.6">
26 <repository changeset_revision="79a05e500381" name="package_srst2_0_1_4_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu" />
27 </package>
28 <package name="samtools" version="0.1.18">
29 <repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
30 </package>
31 <package name="bowtie2" version="2.1.0">
32 <repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
33 </package>
34 </tool_dependency> 24 </tool_dependency>