Mercurial > repos > fernando > protein_funcional_analysis_similarities
annotate interpro/paso2.sh @ 0:c342ebb50f0b draft default tip
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| author | fernando |
|---|---|
| date | Thu, 22 May 2014 05:09:07 -0400 |
| parents | |
| children |
| rev | line source |
|---|---|
| 0 | 1 #!/bin/bash |
| 2 # -*- ENCODING: UTF-8 -*- | |
| 3 # fichero de entrada es salida.out | |
| 4 input=$1 | |
| 5 output=$2 | |
| 6 working_dir=$PWD | |
| 7 sift_output="$working_dir/sift_output.txt" | |
| 8 | |
| 9 grep sp\| "$input" |head -n$3 |awk 'BEGIN {FS="|"};{print $2}' | awk 'BEGIN {FS="."};{print $1".fasta"}' >"$sift_output" | |
| 10 while read line | |
| 11 do | |
| 12 echo "wget http://www.uniprot.org/uniprot/$line" | sh | |
| 13 cat $line >>"$output" | |
| 14 rm "$line" | |
| 15 done < "$sift_output" |