Mercurial > repos > devteam > fastx_barcode_splitter
comparison fastx_barcode_splitter_galaxy_wrapper.sh @ 3:8abdedf55101 draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tool_collections/fastx_toolkit/fastx_barcode_splitter commit a1517c9d22029095120643bbe2c8fa53754dd2b7
author | devteam |
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date | Wed, 11 Nov 2015 12:38:37 -0500 |
parents | a12850d0559b |
children |
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2:c46a5807f2b6 | 3:8abdedf55101 |
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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 # |