diff --git a/src/in2p3.pbs b/src/in2p3.pbs index 60f342a39f7417839c6b1a69cdd43ed361a20988..ac6d0869b5e227485abc011be934bfe5e35cb3f3 100644 --- a/src/in2p3.pbs +++ b/src/in2p3.pbs @@ -20,10 +20,12 @@ NF=/pbs/throng/lbmc/cl7/nextflow/${NF_VERSION}/nextflow # change to your username SCRATCH=/sps/lbmc/lmodolo/ # change to your project / pipeline ! -PIPELINE=${SCRATCH}/nextflow/src/nf_modules/kallisto/indexing.nf +PIPELINE=${SCRATCH}/nextflow/src/training_dataset.nf # change to your project / pipeline ! -CONFIG=${SCRATCH}/nextflow/src/nf_modules/kallisto/indexing.config +CONFIG=${SCRATCH}/nextflow/src/training_dataset.config ${NF} ${PIPELINE} -c ${CONFIG} -profile ccin2p3 \ ---fasta "${SCRATCH}/nextflow/data/tiny_dataset/fasta/tiny_v2.fasta" \ +--fasta "${SCRATCH}/nextflow/data/genome.fa" \ +--fastq_single "${SCRATCH}/nextflow/data/*_R1.fastq.gz" \ +--chromosome "X" --start 5305683 --stop 5333928 -resume -w "${SCRATCH}"