view env/lib/python3.9/site-packages/cwltool/tests/test_parallel.py @ 0:4f3585e2f14b draft default tip

"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"

import json
from pathlib import Path

from cwltool.context import RuntimeContext
from cwltool.executors import MultithreadedJobExecutor

from .util import get_data, get_windows_safe_factory, windows_needs_docker


@windows_needs_docker
def test_sequential_workflow(tmp_path: Path) -> None:
    test_file = "tests/wf/count-lines1-wf.cwl"
    executor = MultithreadedJobExecutor()
    runtime_context = RuntimeContext()
    runtime_context.outdir = str(tmp_path)
    runtime_context.select_resources = executor.select_resources
    factory = get_windows_safe_factory(
        executor=executor, runtime_context=runtime_context
    )
    echo = factory.make(get_data(test_file))
    file_contents = {"class": "File", "location": get_data("tests/wf/whale.txt")}
    assert echo(file1=file_contents) == {"count_output": 16}


@windows_needs_docker
def test_scattered_workflow() -> None:
    test_file = "tests/wf/scatter-wf4.cwl"
    job_file = "tests/wf/scatter-job2.json"
    factory = get_windows_safe_factory(executor=MultithreadedJobExecutor())
    echo = factory.make(get_data(test_file))
    with open(get_data(job_file)) as job:
        assert echo(**json.load(job)) == {"out": ["foo one three", "foo two four"]}