def main():
"""Main program.
Args:
Returns:
Raises:
"""
# Get options
args = options()
# Variables
###########################################
# Database upload file name prefix
# Use user inputs to make filenames
prefix = 'plantcv'
# check if there are meta_fields to filter dataset by
if next(iter(args.imgtype)) != 'None':
kv_list = []
for key in args.imgtype:
kv_list.append(key + str(args.imgtype[key]))
prefix = prefix + '_' + '_'.join(map(str, kv_list))
if args.dates:
prefix = prefix + '_' + args.dates
###########################################
# Open log files
error_log = open(prefix + '_errors_' + args.start_time + '.log', 'w')
# Run info
###########################################
# Read image file names
###########################################
jobcount, meta = pcvp.metadata_parser(data_dir=args.dir, meta_fields=args.fields, valid_meta=args.valid_meta,
meta_filters=args.imgtype, date_format=args.timestampformat, start_date=args.start_date, end_date=args.end_date,
error_log=error_log, delimiter=args.delimiter, file_type=args.type,
coprocess=args.coprocess)
###########################################
# Process images
###########################################
# Job builder start time
job_builder_start_time = time.time()
print("Building job list... ", file=sys.stderr)
jobs = pcvp.job_builder(meta=meta, valid_meta=args.valid_meta, workflow=args.workflow, job_dir=args.jobdir,
out_dir=args.outdir, coprocess=args.coprocess, other_args=args.other_args,
writeimg=args.writeimg)
# Job builder clock time
job_builder_clock_time = time.time() - job_builder_start_time
print("took " + str(job_builder_clock_time) + '\n', file=sys.stderr)
# Parallel image processing time
multi_start_time = time.time()
print("Processing images... ", file=sys.stderr)
pcvp.multiprocess(jobs, args.cpu)
# Parallel clock time
multi_clock_time = time.time() - multi_start_time
print("took " + str(multi_clock_time) + '\n', file=sys.stderr)
###########################################
# Compile image analysis results
###########################################
# Process results start time
process_results_start_time = time.time()
print("Processing results... ", file=sys.stderr)
pcvp.process_results(job_dir=args.jobdir, json_file=args.json)
# Process results clock time
process_results_clock_time = time.time() - process_results_start_time
print("took " + str(process_results_clock_time) + '\n', file=sys.stderr)
###########################################
# Cleanup
###########################################
error_log.close()
def main():
"""Main program.
Args:
Returns:
Raises:
"""
# Get options
args = options()
# Variables
###########################################
# Database upload file name prefix
# Use user inputs to make filenames
prefix = 'plantcv'
if args.imgtype is not None:
kv_list = []
for key in args.imgtype:
kv_list.append(key + str(args.imgtype[key]))
prefix = prefix + '_' + '_'.join(map(str, kv_list))
if args.dates:
prefix = prefix + '_' + args.dates
###########################################
# Open log files
error_log = open(prefix + '_errors_' + args.start_time + '.log', 'w')
# Run info
###########################################
# Read image file names
###########################################
jobcount, meta = pcvp.metadata_parser(data_dir=args.dir, meta_fields=args.fields, valid_meta=args.valid_meta,
meta_filters=args.imgtype, start_date=args.start_date, end_date=args.end_date,
error_log=error_log, delimiter=args.delimiter, file_type=args.type,
coprocess=args.coprocess)
###########################################
# Process images
###########################################
# Job builder start time
job_builder_start_time = time.time()
print("Building job list... ", file=sys.stderr)
jobs = pcvp.job_builder(meta=meta, valid_meta=args.valid_meta, workflow=args.workflow, job_dir=args.jobdir,
out_dir=args.outdir, coprocess=args.coprocess, other_args=args.other_args,
writeimg=args.writeimg)
# Job builder clock time
job_builder_clock_time = time.time() - job_builder_start_time
print("took " + str(job_builder_clock_time) + '\n', file=sys.stderr)
# Parallel image processing time
multi_start_time = time.time()
print("Processing images... ", file=sys.stderr)
pcvp.multiprocess(jobs, args.cpu)
# Parallel clock time
multi_clock_time = time.time() - multi_start_time
print("took " + str(multi_clock_time) + '\n', file=sys.stderr)
###########################################
# Compile image analysis results
###########################################
# Process results start time
process_results_start_time = time.time()
print("Processing results... ", file=sys.stderr)
pcvp.process_results(valid_meta=args.valid_meta, job_dir=args.jobdir, json_file=args.json)
# Process results clock time
process_results_clock_time = time.time() - process_results_start_time
print("took " + str(process_results_clock_time) + '\n', file=sys.stderr)
###########################################
# Cleanup
###########################################
error_log.close()