Mercurial > repos > davidvanzessen > complete_immunerepertoire_igg

comparison complete.sh @ 6:8b46fca04595 draft

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Uploaded
author davidvanzessen
date Mon, 08 Sep 2014 04:24:04 -0400
parents 3287f7b9c47d
children a9053212a462
comparison
equal deleted inserted replaced
5:3287f7b9c47d 6:8b46fca04595
57 zipType="Zip archive" 57 zipType="Zip archive"
58 if [[ "$f" == *"$zipType"* ]] 58 if [[ "$f" == *"$zipType"* ]]
59 then 59 then
60 echo "<tr><td>Sample $count of patient $id is a zip file, using IMGT Loader</td></tr>" >> $html 60 echo "<tr><td>Sample $count of patient $id is a zip file, using IMGT Loader</td></tr>" >> $html
61 fileName=$(basename $current) 61 fileName=$(basename $current)
62 imgtConvert $current $id $count $parsedFileName "${id}_${count}" & 62 imgtConvert $current $id $count $parsedFileName "${id}_${count}" #&
63 else 63 else
64 echo "<tr><td>Sample $count of patient $id is not a zip file, using igBLASTn</td></tr>" >> $html 64 echo "<tr><td>Sample $count of patient $id is not a zip file, using igBLASTn</td></tr>" >> $html
65 blastAndParse $current $id $count $fileName $parsedFileName & 65 blastAndParse $current $id $count $fileName $parsedFileName &
66 fi 66 fi
67 mergerInput+=($parsedFileName) 67 mergerInput+=($parsedFileName)