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Fix zip switch integration

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This commit is contained in:
Patrick Jentsch 2020-02-03 15:26:04 +01:00
parent e4ef4835e5
commit ec2cf1dcff
2 changed files with 19 additions and 20 deletions
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37
nlp
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@ -35,14 +35,12 @@ def parse_arguments():
help='total number of cores available',
required=False,
type=int)
parser.add_argument(
'--zip',
action='store_true',
default=False,
dest='zip',
help='package result files in zip bundles',
required=False
)
parser.add_argument('--zip',
action='store_true',
default=False,
dest='zip',
help='package result files in zip bundles',
required=False)
return parser.parse_args()
@ -100,18 +98,19 @@ class NLPWorkflow(WorkflowRunner):
)
)
vrt_zip_jobs = []
vrt_zip_job_dependencies = nlp_jobs
cmd = 'cd "%s" && zip -m vrt.zip */*.vrt -x "pyflow.data*" && cd -' % (
self.output_dir
)
vrt_zip_jobs.append(
self.addTask(
command=cmd,
dependencies=vrt_zip_job_dependencies,
label='vrt_zip_job'
if zip:
vrt_zip_jobs = []
vrt_zip_job_dependencies = nlp_jobs
cmd = 'cd "%s" && zip -m vrt.zip */*.vrt -x "pyflow.data*" && cd -' % (
self.output_dir
)
vrt_zip_jobs.append(
self.addTask(
command=cmd,
dependencies=vrt_zip_job_dependencies,
label='vrt_zip_job'
)
)
)
def analyze_jobs(input_dir, output_dir):

2
wrapper/nlp
View File

@ -5,7 +5,7 @@ import argparse
import os
import subprocess
container_image = 'gitlab.ub.uni-bielefeld.de:4567/sfb1288inf/nlp:2.1.0'
container_image = 'gitlab.ub.uni-bielefeld.de:4567/sfb1288inf/nlp:latest'
container_input_dir = '/input'
container_output_dir = '/output'
uid = str(os.getuid())