Mercurial > repos > devteam > fastx_barcode_splitter

comparison fastx_barcode_splitter_galaxy_wrapper.sh @ 3:3b0cd3132ddc draft

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planemo upload commit 33927a87ba2eee9bf0ecdd376a66241b17b3d734
author devteam
date Tue, 13 Oct 2015 12:40:38 -0400
parents 6cbe88c680bb
children
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2:1a20fbb8bad8 3:3b0cd3132ddc
60 BASEPATH="$OUTPUT_PATH/" 60 BASEPATH="$OUTPUT_PATH/"
61 #PREFIX="$BASEPATH"`date "+%Y-%m-%d_%H%M__"`"${LIBNAME}__" 61 #PREFIX="$BASEPATH"`date "+%Y-%m-%d_%H%M__"`"${LIBNAME}__"
62 PREFIX="$BASEPATH""${LIBNAME}__" 62 PREFIX="$BASEPATH""${LIBNAME}__"
63 SUFFIX=".txt" 63 SUFFIX=".txt"
64 64
65 RESULTS=`zcat -f "$FASTQ_FILE" | fastx_barcode_splitter.pl --bcfile "$BARCODE_FILE" --prefix "$PREFIX" --suffix "$SUFFIX" "$@"` 65 RESULTS=`zcat -f < "$FASTQ_FILE" | fastx_barcode_splitter.pl --bcfile "$BARCODE_FILE" --prefix "$PREFIX" --suffix "$SUFFIX" "$@"`
66 if [ $? != 0 ]; then 66 if [ $? != 0 ]; then
67 echo "error" 67 echo "error"
68 fi 68 fi
69 69
70 # 70 #