application.properties 2.05 KB
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#
# Copyright (C) 2012 INRA
# 
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
# 
# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
# GNU General Public License for more details.
# 
# You should have received a copy of the GNU General Public License
# along with this program.  If not, see <http://www.gnu.org/licenses/>.
#
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[global]
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# uncomment and set if not in the PATH, should be version >= 4.2.2
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#makeflow = /usr/bin/makeflow
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# batch system type: local, condor, sge, moab, cluster, wq, hadoop, mpi-queue
batch_system_type = local
# add these options to all batch submit files
batch_options = 
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# add these options to limit the number of jobs sumitted in parallel
limit_submission = 100
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# on which socket host should run the web server
server_socket_host = 127.0.0.1
# on which socket port should run the web server
server_socket_port = 8080
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[email]
# if you want an email to be sent at the end of the workflow execution
# set the smtp_server and the from_address values
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smtp_server = 
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smtp_port = 
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from_address = 
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from_password = 
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# uncomment and set if you want to use these values for all the workflow
# these variables can be overloaded within the workflow implementation by
# using self.set_to_address("address"), self.set_subject("subject"), 
# self.set_message("message") functions
#to_address =
#subject =
#message =

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[storage]
# where should be written the log file
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log_file = <path>/jflow.log
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# Where should the pipelines write results, should be accessible 
# by all cluster nodes
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work_directory = <path>/work
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# Where should the pipelines write temporary files, should be 
# accessible by all cluster nodes
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tmp_directory = <path>/tmp
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[softwares]
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# uncomment and set if not in the PATH
#bwa = /usr/bin/bwa
#samtools = /usr/bin/samtools