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annotate planemo/lib/python3.7/site-packages/cwltool/tests/test_parallel.py @ 0:d30785e31577 draft

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"planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
author guerler
date Fri, 31 Jul 2020 00:18:57 -0400
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d30785e31577 "planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
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1 import json
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2
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3 from cwltool.context import RuntimeContext
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4 from cwltool.executors import MultithreadedJobExecutor
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5 from cwltool import load_tool
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6
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7 from .util import get_data, get_windows_safe_factory, windows_needs_docker
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8
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10 @windows_needs_docker
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11 def test_sequential_workflow(tmpdir):
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12 test_file = "tests/wf/count-lines1-wf.cwl"
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13 executor = MultithreadedJobExecutor()
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14 runtime_context = RuntimeContext()
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15 runtime_context.outdir = str(tmpdir)
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16 runtime_context.select_resources = executor.select_resources
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17 factory = get_windows_safe_factory(
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18 executor=executor, runtime_context=runtime_context)
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19 echo = factory.make(get_data(test_file))
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20 file_contents = {"class": "File",
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21 "location": get_data("tests/wf/whale.txt")}
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22 assert echo(file1=file_contents) == {"count_output": 16}
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23
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24 @windows_needs_docker
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25 def test_scattered_workflow():
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26 test_file = "tests/wf/scatter-wf4.cwl"
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27 job_file = "tests/wf/scatter-job2.json"
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28 factory = get_windows_safe_factory(executor=MultithreadedJobExecutor())
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29 echo = factory.make(get_data(test_file))
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30 with open(get_data(job_file)) as job:
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31 assert echo(**json.load(job)) == {'out': ['foo one three', 'foo two four']}