Mercurial > repos > iuc > package_blast_plus_2_2_28

comparison tool_dependencies.xml @ 0:d794cb2b0f45 draft

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Uploaded definition based on that for BLAST+ 2.2.26
author peterjc
date Mon, 23 Sep 2013 07:21:23 -0400
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children 5a449da71d08
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-1:000000000000 0:d794cb2b0f45
1 <?xml version="1.0"?>
2 <tool_dependency>
3 <package name="blast+" version="2.2.28">
4 <install version="1.0">
5 <actions>
6 <action type="set_environment">
7 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
8 </action>
9 <!-- arch under Linux 32bit includes some variants like i386 and i686, so use as default -->
10 <action type="shell_command">
11 if [[ "$(uname)" == "Linux" ]]; then export FILENAME="ncbi-blast-2.2.28+-ia32-linux.tar.gz"; fi &amp;&amp;
12 if [[ "$(arch)" == "x86_64" ]]; then export FILENAME="ncbi-blast-2.2.28+-x64-linux.tar.gz"; fi &amp;&amp;
13 if [[ "$(uname)" == "Darwin" ]]; then export FILENAME="ncbi-blast-2.2.28+-universal-macosx.tar.gz"; fi &amp;&amp;
14 echo Fetching $FILENAME &amp;&amp;
15 if [[ "$(uname)" == "Linux" ]]; then wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/$FILENAME; fi &amp;&amp;
16 if [[ "$(uname)" == "Darwin" ]]; then curl -O ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/$FILENAME; fi &amp;&amp;
17 tar -zxvf $FILENAME &amp;&amp;
18 echo Downloaded and decompressed
19 </action>
20 <!-- move the binaries to the installation directory which is now on the $PATH -->
21 <action type="move_directory_files">
22 <source_directory>ncbi-blast-2.2.28+/bin</source_directory>
23 <destination_directory>$INSTALL_DIR</destination_directory>
24 </action>
25 </actions>
26 </install>
27 <readme>
28 Downloads the precompiled 32bit Linux, 64bit Linux, or Mac OS X BLAST+
29 binaries from the NCBI, which is faster than performing a local compliation,
30 avoids any issues with build dependencies, and is more reproducible between
31 installations as there is no variability from the compiler or library versions.
32
33 For more details, see:
34 http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastDocs&amp;DOC_TYPE=Download
35 </readme>
36 </package>
37 </tool_dependency>