Mercurial > repos > john-mccallum > ssr_marker_design
comparison MISA/misa2gff.xml @ 2:16b5aa275b42 default tip
Uploaded minor revision to gff converter
| author | john-mccallum |
|---|---|
| date | Wed, 23 Nov 2011 19:15:31 -0500 |
| parents | e9f5d1afba70 |
| children |
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| 1:e9f5d1afba70 | 2:16b5aa275b42 |
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| 1 <tool id="misa2gff_1" name="MISA to GFF3"> | 1 <tool id="misa2gff_1" name="MISA to GFF3"> |
| 2 <description>convert MISA to gvf/gff3</description> | 2 <description>convert MISA to gvf/gff3</description> |
| 3 <command >cat $inputFile | awk '(NR > 1) {OFS="\t";print $1,"MISA","microsatellite",$6,$7,".",".",".","ID="$1":MISA:microsatellite:"$6";SSR="$4,";Type="$3}' > $outputfile</command> | 3 <command >cat $inputFile | awk '!/ID\W/ {OFS="\t";print $1,"MISA","microsatellite",$6,$7,".",".",".","ID="$1":MISA:microsatellite:"$6";SSR="$4,";Type="$3}' > $outputfile</command> |
| 4 <inputs> | 4 <inputs> |
| 5 <param format="tabular" name="inputFile" type="data" label="Input MISA File" help="MISA file from MISA.pl" /> | 5 <param format="tabular" name="inputFile" type="data" label="Input MISA File" help="MISA file from MISA.pl" /> |
| 6 </inputs> | 6 </inputs> |
| 7 <outputs> | 7 <outputs> |
| 8 <data format="gff3" name="outputfile" /> | 8 <data format="gff3" name="outputfile" /> |