Mercurial > repos > daumsoft > star_icgc_alignment
annotate ICGC_STAR_ALIGNMENT_PIPELINE/ICGC_pipeline_RUN.sh @ 0:0446d6f7d593 draft default tip
Uploaded
| author | daumsoft |
|---|---|
| date | Wed, 18 Apr 2018 02:38:42 -0400 |
| parents | |
| children |
| rev | line source |
|---|---|
| 0 | 1 #!/bin/bash |
| 2 | |
| 3 if [ "$#" -ne 1 ]; then | |
| 4 echo "[usage:] ICGC_pipeline_RUN.sh tar.gz(fastq in file)" | |
| 5 exit 1; | |
| 6 fi | |
| 7 | |
| 8 INPUT_TAR_GZ=$1 | |
| 9 | |
| 10 ln -s $INPUT_TAR_GZ ${INPUT_TAR_GZ}.tar.gz | |
| 11 INPUT_TAR_GZ=${INPUT_TAR_GZ}.tar.gz | |
| 12 | |
| 13 $GALAXY_HOME/package/DAUMSOFT/RNA-seq/ICGC_STAR_ALIGNMENT_PIPELINE/ICGC_pipeline.sh $INPUT_TAR_GZ > log.out 2>&1 | |
| 14 |