SOFT : DENTIST
------
Site du soft: https://github.com/a-ludi/dentist
-------------

LICENSE:
--------

MIT

See software documentation for more informations.

Location: /usr/local/bioinfo/src/DENTIST
---------

Load binaries and environment:
------------------------------

-> Version v2.0.0

To exexcute the workflow on a SLURM cluster:
#Copy snakemake file in your working directory
cp /usr/local/bioinfo/src/DENTIST/dentist.v2.0.0/snakemake/* .
mkdir -p "$HOME/.config/snakemake/slurm"
# select one of the profile-slurm.{drmaa,submit-async,submit-sync}.yml files
cp -v "profile-slurm.submit-sync.yml" "$HOME/.config/snakemake/slurm/config.yaml"

#NeedSingularity (> 3.5),Snakemake (>5.32)
module load  system/singularity-3.7.3 system/Python-3.7.4

module load bioinfo/dentist.v2.0.0

Bug in cluster mode: 
https://github.com/a-ludi/dentist/issues/19

"The problem is probably that Snakemake stopped execution after the collect rule which is incorrect and a bug in Snakemake. Please just try chmod -R +w workdir and execute Snakemake with the same command as before. "

Local mode OK: 
ex: snakemake  -p --debug-dag --verbose --configfile=snakemake.yml --use-singularity --core=8


Example directory for use on cluster:
-------------------------------------

/usr/local/bioinfo/src/DENTIST/example_on_cluster

To submit: sbatch test_dentist.v2.0.0.sh

See software documentation and our FAQ (http://bioinfo.genotoul.fr/index.php/faq/) for more informations.