Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/cwltool/tests/test_parallel.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 import json |
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2 from pathlib import Path |
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3 |
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4 from cwltool.context import RuntimeContext |
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5 from cwltool.executors import MultithreadedJobExecutor |
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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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9 |
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10 @windows_needs_docker |
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11 def test_sequential_workflow(tmp_path: Path) -> None: |
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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(tmp_path) |
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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 ) |
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20 echo = factory.make(get_data(test_file)) |
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21 file_contents = {"class": "File", "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 |
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25 @windows_needs_docker |
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26 def test_scattered_workflow() -> None: |
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27 test_file = "tests/wf/scatter-wf4.cwl" |
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28 job_file = "tests/wf/scatter-job2.json" |
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29 factory = get_windows_safe_factory(executor=MultithreadedJobExecutor()) |
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30 echo = factory.make(get_data(test_file)) |
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31 with open(get_data(job_file)) as job: |
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32 assert echo(**json.load(job)) == {"out": ["foo one three", "foo two four"]} |