Mercurial > repos > iuc > package_blast_plus_2_2_28
comparison tool_dependencies.xml @ 0:ed85ca8e4295 draft
Uploaded definition based on that for BLAST+ 2.2.26
| author | iuc |
|---|---|
| date | Mon, 07 Oct 2013 09:38:50 -0400 |
| parents | |
| children | 23b9ba41ad00 |
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| -1:000000000000 | 0:ed85ca8e4295 |
|---|---|
| 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 && | |
| 12 if [[ "$(arch)" == "x86_64" ]]; then export FILENAME="ncbi-blast-2.2.28+-x64-linux.tar.gz"; fi && | |
| 13 if [[ "$(uname)" == "Darwin" ]]; then export FILENAME="ncbi-blast-2.2.28+-universal-macosx.tar.gz"; fi && | |
| 14 echo Fetching $FILENAME && | |
| 15 if [[ "$(uname)" == "Linux" ]]; then wget ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/$FILENAME; fi && | |
| 16 if [[ "$(uname)" == "Darwin" ]]; then curl -O ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.28/$FILENAME; fi && | |
| 17 tar -zxvf $FILENAME && | |
| 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&PAGE_TYPE=BlastDocs&DOC_TYPE=Download | |
| 35 </readme> | |
| 36 </package> | |
| 37 </tool_dependency> |