application.properties.example

[global]

# batch system type: local, slurm or sge
# for genologin use slurm
batch_system_type = local
# list of modules to load (space separated)
# for genologin you can use bioinfo/delly_v0.7.7_parallel (not mandatory)
# default uses the conda delly installation
modules =
# path environment to prepend (":" separated)
paths =
# number of concurrent jobs to launch
jobs = 100
# svtoolkit home: genomestrip is now installed via conda
# sv_dir =


[cluster]
# Ignore these options for local batch system type

# submission mode: drmaa or cluster
submission_mode =

# cluster submission command (ignore for DRMAA submission mode)
submission_command =

# DRMAA lib (ignore for cluster submission mode)
# For genologin use /tools/libraries/slurm-drmaa/slurm-drmaa-1.0.7/lib/libdrmaa.so
drmaa =

# native submission commands: keep default on most cases
native_submission_options = ###DEFAULT###

# cluster config file
config = ###PROGRAM###/cluster.yaml

# enable drmaa parallelisation through DRMAA for Genomestrip (may cause exceed of number of concurrent jobs launched)
# True: enabled, False: disabled
sv_parallel_drmaa = True
sv_parallel_native_specs = ###DEFAULT###


[refbundle]

# Path to the Libraries folder extracted from RepBase archive file
# Optional (will use default libraries instead) but highly recommended :-)
# repeatmasker_lib_path =