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pipeline.log
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2019-09-08 13:25:41,393 INFO main control - pipeline log is pipeline.log
2019-09-08 13:25:41,393 INFO main experiment - output generated by /Users/gregory/Projects/bgwas3/code/bgwas3/bgwas3.py \
job started at Sun Sep 8 13:25:41 2019 on Gregorys-MacBook-Air.local -- 5d6dc443-1229-4ab0-9f94-1c1c142ef13f \
pid: 20285, system: Darwin 18.6.0 Darwin Kernel Version 18.6.0: Thu Apr 25 23:16:27 PDT 2019; root:xnu-4903.261.4~2/RELEASE_X86_64 x86_64
2019-09-08 13:25:41,394 INFO main experiment - always_mount : False \
cluster_memory_default : unlimited \
cluster_memory_resource : None \
cluster_num_jobs : None \
cluster_options : None \
cluster_parallel_environment : None \
cluster_priority : None \
cluster_queue : None \
cluster_queue_manager : sge \
config_file : pipeline.yml \
debug : False \
dry_run : False \
engine : local \
exceptions_terminate_immediately : None \
force_run : False \
input_globs : [] \
input_validation : False \
is_test : False \
log_config_filename : None \
log_exceptions : True \
loglevel : 1 \
multiprocess : None \
only_info : False \
pipeline_action : None \
pipeline_format : svg \
pipeline_logfile : pipeline.log \
pipeline_targets : [] \
random_seed : None \
ruffus_checksums_level : 0 \
shell_logfile : None \
short_help : None \
stderr : <_io.TextIOWrapper name='<stderr>' mode='w' encoding='UTF-8'> \
stdin : <_io.TextIOWrapper name='<stdin>' mode='r' encoding='UTF-8'> \
stdlog : <_io.TextIOWrapper name='<stdout>' mode='w' encoding='UTF-8'> \
stdout : <_io.TextIOWrapper name='<stdout>' mode='w' encoding='UTF-8'> \
terminate : None \
timeit_file : None \
timeit_header : None \
timeit_name : all \
tracing : None \
variables_to_set : [] \
without_cluster : False \
work_dir : None
2019-09-08 13:25:41,394 INFO main control - started in directory: /Users/gregory/Projects/bgwas3/code
2019-09-08 13:25:41,419 INFO main control - code location: /Users/gregory/miniconda3/envs/test/lib/python3.6/site-packages/cgatcore/pipeline
2019-09-08 13:25:41,419 INFO main control - code version:
2019-09-08 13:25:41,420 INFO main control - working directory is: /Users/gregory/Projects/bgwas3/code
2019-09-08 13:25:41,420 INFO main control - changing directory to /Users/gregory/Projects/bgwas3/code
2019-09-08 13:25:41,420 INFO main control - pipeline has been initialized
2019-09-08 13:25:41,421 INFO main control - temporary directory is /var/folders/3x/d626g3p96zgdb9c2jsqvvfxr0000gn/T/