Commit 2ced0143 authored by peguerin's avatar peguerin
Browse files

home option singularity

parent fb88b8ea
......@@ -23,12 +23,12 @@ CORES=$1
###############################################################################
## assemble & demultiplex
cd 01-assembly
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk" --latency-wait 120
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk --home $HOME" --latency-wait 120
cd ..
###############################################################################
## filter sequences
cd 02-demultiplex
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk" --latency-wait 120
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk --home $HOME" --latency-wait 120
cd ..
###############################################################################
## concatenate samples into run
......@@ -39,7 +39,7 @@ done
## taxonomic assignation & format
cd 03-filtered
#snakemake -s Snakefile -j 8 --dry-run --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk" --latency-wait 120
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk" --latency-wait 120
snakemake -s Snakefile -j $CORES --use-singularity --singularity-args "--bind /media/superdisk:/media/superdisk --home $HOME" --latency-wait 120
cd ..
###############################################################################
......
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment