.log/ --> LOGS/

RunSnake.sh

@@ -3,7 +3,7 @@ export PYTHONPATH=''
 source /usr/local/genome/Anaconda2-5.1.0/etc/profile.d/conda.sh
 conda activate snakemake-5.7.4
 
-mkdir -p ./.log/out/ ./.log/err/
+mkdir -p LOGS/snakemake/ LOGS/err/ LOGS/out/
 
 snakemake \
 --snakefile $1 \

cluster.json

 {
 	"__default__" :
 	{
-		"out" : "./.log/out/",
-		"err" : "./.log/err/",
+		"out" : "LOGS/out/",
+		"err" : "LOGS/err/",
 		"queue" : "short.q,long.q,maiage.q",
 		"cluster" : ""
 	},

qsubSnake.sh

-mkdir -p ./.log/out/ ./.log/err/
-qsub -V -cwd -o ./.log/out/ -e ./.log/err/ -q maiage.q,long.q -N `basename $1` ../workflow_metagenomics/RunSnake.sh $1
+mkdir -p LOGS/snakemake
+qsub -V -cwd -o LOGS/snakemake/ -e LOGS/snakemake/ -q maiage.q,long.q -N `basename $1` ../workflow_metagenomics/RunSnake.sh $1