Commit 2ae511c6 authored by Midoux Cedric's avatar Midoux Cedric
Browse files

LOGS

parent d7c2d7c7
.log/
LOGS/
.snakemake/
DATA/
work/
report/
.Rproj.user
.Rhistory
Version: 1.0
RestoreWorkspace: Default
SaveWorkspace: Default
AlwaysSaveHistory: Default
EnableCodeIndexing: Yes
UseSpacesForTab: Yes
NumSpacesForTab: 2
Encoding: UTF-8
RnwWeave: Sweave
LaTeX: pdfLaTeX
......@@ -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 \
--snakefile $1 \
......
{
"__default__" :
{
"out" : "./.log/out/",
"err" : "./.log/err/",
"queue" : "short.q",
"out" : "LOGS/",
"err" : "LOGS/",
"queue" : "maiage.q",
"cluster" : ""
}
}
......@@ -15,7 +15,8 @@ rule all:
"report/clusters_metrics.html",
"report/affiliations_metrics.html",
"report/abundance.biom",
"report/abundance.tsv"
"report/abundance.tsv",
"report/tree.nwk"
include: "quality.smk"
include: "preprocess.smk"
......
mkdir -p ./.log/out/ ./.log/err/
qsub -V -cwd -o ./.log/out/ -e ./.log/err/ -q maiage.q,long.q -N `basename $1` RunSnake.sh $1
mkdir -p LOGS/
qsub -V -cwd -o LOGS/ -e LOGS/ -q maiage.q,long.q -N `basename $1` RunSnake.sh $1
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