Mercurial > repos > davidvanzessen > igblast_human

comparison igblastn.sh @ 63:7997fea1f16a draft default tip

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Uploaded
author davidvanzessen
date Thu, 06 Nov 2014 03:31:15 -0500
parents a700a552f031
children
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62:a700a552f031 63:7997fea1f16a
1 dir="$(cd "$(dirname "$0")" && pwd)"
2 mkdir $PWD/igblastdatabase
3 unzip $dir/database.zip -d $PWD/igblastdatabase/
4
5 export IGDATA=$PWD/igblastdatabase/
6
7 /home/galaxy/galaxy/igblast/igblastn -germline_db_V $PWD/igblastdatabase/database/human_gl_V -germline_db_J $PWD/igblastdatabase/database/human_gl_J -germline_db_D $PWD/igblastdatabase/database/human_gl_D -domain_system imgt -query $1 -auxiliary_data $PWD/igblastdatabase/optional_file/human_gl.aux -show_translation -outfmt 3 > $2