Mercurial > repos > davidvanzessen > igblast_human

comparison igblastn.sh @ 55:99541760fdfe draft

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author davidvanzessen
date Thu, 23 Jan 2014 05:35:59 -0500
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children 3c52ce2256c7
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54:ddc765e7142c 55:99541760fdfe
1 dir="$(cd "$(dirname "$0")" && pwd)"
2 echo "dir = $dir"
3 echo "pwd = $PWD"
4 mkdir $PWD/igblastdatabase
5 unzip $dir/database.zip -d $PWD/igblastdatabase/
6
7 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