Mercurial > repos > davidvanzessen > igblast_human

comparison tool_dependencies.xml @ 7:5576050e5d46 draft

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author davidvanzessen
date Tue, 24 Sep 2013 04:57:45 -0400
parents 433504d33b2c
children f5ce6ab5f082
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6:433504d33b2c 7:5576050e5d46
4 </set_environment> 4 </set_environment>
5 5
6 <package name="igBlastn" version="1.0.0"> 6 <package name="igBlastn" version="1.0.0">
7 <install version="1.0"> 7 <install version="1.0">
8 <actions> 8 <actions>
9 <action type="download_by_url">ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/1.0.0/ncbi-igblast-1.0.0-x64-linux.tar.gz</action> 9 <action type="download_by_url">
10 ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/1.0.0/ncbi-igblast-1.0.0-x64-linux.tar.gz
11 </action>
10 <action type="move_file"> 12 <action type="move_file">
11 <source>ncbi-igblast-1.0.0-x64-linux.tar.gz</source> 13 <source>ncbi-igblast-1.0.0-x64-linux.tar.gz</source>
12 <destination>$INSTALL_DIR</destination> 14 <destination>$INSTALL_DIR</destination>
13 </action> 15 </action>
14 <action type="shell_command">tar -zxvf $INSTALL_DIR/ncbi-igblast-1.0.0-x64-linux.tar.gz -C $INSTALL_DIR</action> 16 <action type="shell_command">
17 tar -zxvf $INSTALL_DIR/ncbi-igblast-1.0.0-x64-linux.tar.gz -C $INSTALL_DIR
18 </action>
15 19
16 <action type="set_environment"> 20 <action type="set_environment">
17 <environment_variable name="IGDATA" action="set_to">$INSTALL_DIR/ncbi-igblast-1.0.0</environment_variable> 21 <environment_variable name="IGDATA" action="set_to">$INSTALL_DIR/ncbi-igblast-1.0.0</environment_variable>
18 </action> 22 </action>
23
24 <action type="shell_command">
25 wget -r -np -nH --cut-dirs=4 -R index.html "ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/database"
26 </action>
27 <action type="move_directory_file">
28 <source_directory>database</source_directory>
29 <destination_directory>$INSTALL_DIR/ncbi-igblast-1.0.0/database</destination_directory>
30 </action>
31
32 <action type="shell_command">
33 wget -r -np -nH --cut-dirs=4 -R index.html "ftp://ftp.ncbi.nih.gov/blast/executables/igblast/release/internal_data"
34 </action>
35 <action type="move_directory_file">
36 <source_directory>internal_data</source_directory>
37 <destination_directory>$INSTALL_DIR/ncbi-igblast-1.0.0/internal_data</destination_directory>
38 </action>
19 </actions> 39 </actions>
20 </install> 40 </install>
21 <readme> 41 <readme>
22 Installs R with apt-get. 42 Installs R with apt-get.
23 </readme> 43 </readme>