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comparison tool_dependencies.xml @ 5:167041a5893b draft

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planemo upload commit 96ecd86165525684766848f98a1c3be4353ec3b1-dirty
author mvdbeek
date Fri, 14 Aug 2015 12:57:30 -0400
parents c01e4b9ccbc6
children a5ab0e9215c5
comparison
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4:c01e4b9ccbc6 5:167041a5893b
4 <install version="1.0"> 4 <install version="1.0">
5 <actions> 5 <actions>
6 <action type="make_directory">src</action> 6 <action type="make_directory">src</action>
7 <action type="make_directory">build</action> 7 <action type="make_directory">build</action>
8 <action type="change_directory">src</action> 8 <action type="change_directory">src</action>
9 <action type="download_file">https://github.com/ncbi/sra-tools/archive/2.5.2.tar.gz</action> 9 <action type="download_by_url">https://github.com/ncbi/sra-tools/archive/2.5.2.tar.gz</action>
10 <action type="download_by_url">https://github.com/ncbi/ngs/archive/1.1.3.tar.gz</action>
11 <action type="download_by_url">https://github.com/ncbi/ncbi-vdb/archive/2.5.2.tar.gz</action>
12 <action type="change_directory">src</action>
10 <action type="shell_command"> 13 <action type="shell_command">
11 tar -xf ../2.5.2.tar.gz
12 rm 2.5.2.tar.gz
13 mv sra-tools-2.5.2 sra-tools 14 mv sra-tools-2.5.2 sra-tools
14 </action>
15 <action type="download_file">https://github.com/ncbi/ngs/archive/1.1.3.tar.gz</action>
16 <action type="shell_command">
17 tar -xf ../1.1.3.tar.gz
18 rm 1.1.3.tar.gz
19 mv ngs-1.1.3 ngs 15 mv ngs-1.1.3 ngs
20 </action>
21 <action type="download_file">https://github.com/ncbi/ncbi-vdb/archive/2.5.2.tar.gz</action>
22 <action type="shell_command">
23 tar -xf ../2.5.2.tar.gz
24 rm 2.5.2.tar.gz
25 mv ncbi-vdb-2.5.2 ncbi-vdb 16 mv ncbi-vdb-2.5.2 ncbi-vdb
26 </action>
27 <action type="shell_command">
28 LD_LIBRARY_PATH=LD_LIBRARY_PATH:$INSTALL_DIR/lib64:$INSTALL_DIR/lib 17 LD_LIBRARY_PATH=LD_LIBRARY_PATH:$INSTALL_DIR/lib64:$INSTALL_DIR/lib
29 cd $INSTALL_DIR/src/ncbi-vdb 18 cd $INSTALL_DIR/src/ncbi-vdb
30 ./configure --prefix=$INSTALL_DIR --build-prefix=$INSTALL_DIR/build 19 ./configure --prefix=$INSTALL_DIR --build-prefix=$INSTALL_DIR/build
31 make 20 make
32 make install 21 make install