Python AtomicCmdBuilder.add_multiple_valuesの例

コード例 #1

ファイル: samtools.py プロジェクト: tmancill/paleomix

def merge_bam_files_command(input_files):
    merge = AtomicCmdBuilder(
        ["samtools", "merge", "-u", "-"],
        OUT_STDOUT=AtomicCmd.PIPE,
        CHECK_VERSION=SAMTOOLS_VERSION,
    )

    merge.add_multiple_values(input_files)

    return merge.finalize()

コード例 #2

ファイル: builder_test.py プロジェクト: muslih14/paleomix

def test_builder__add_multiple_values_multiple_times():
    expected = {"IN_FILE_01": "file_a", "IN_FILE_02": "file_b"}

    builder = AtomicCmdBuilder("ls")
    kwargs = builder.add_multiple_values(("file_a",))
    assert_equal(kwargs, {"IN_FILE_01": "file_a"})
    kwargs = builder.add_multiple_values(("file_b",))
    assert_equal(kwargs, {"IN_FILE_02": "file_b"})

    assert_equal(builder.kwargs, expected)
    assert_equal(builder.call, ["ls", "%(IN_FILE_01)s", "%(IN_FILE_02)s"])

コード例 #3

def test_builder__add_multiple_values_multiple_times():
    expected = {"IN_FILE_01": "file_a", "IN_FILE_02": "file_b"}

    builder = AtomicCmdBuilder("ls")
    kwargs = builder.add_multiple_values(("file_a", ))
    assert_equal(kwargs, {"IN_FILE_01": "file_a"})
    kwargs = builder.add_multiple_values(("file_b", ))
    assert_equal(kwargs, {"IN_FILE_02": "file_b"})

    assert_equal(builder.kwargs, expected)
    assert_equal(builder.call, ["ls", "%(IN_FILE_01)s", "%(IN_FILE_02)s"])

コード例 #4

ファイル: builder_test.py プロジェクト: muslih14/paleomix

def test_builder__add_multiple_values_with_template():
    values = ("file_a", "file_b")
    expected = {"OUT_BAM_1": "file_a", "OUT_BAM_2": "file_b"}

    builder = AtomicCmdBuilder("ls")
    kwargs = builder.add_multiple_values(values, template="OUT_BAM_%i")

    assert_equal(kwargs, expected)
    assert_equal(builder.kwargs, expected)
    assert_equal(builder.call, ["ls", "%(OUT_BAM_1)s", "%(OUT_BAM_2)s"])

コード例 #5

def test_builder__add_multiple_values_with_template():
    values = ("file_a", "file_b")
    expected = {"OUT_BAM_1": "file_a", "OUT_BAM_2": "file_b"}

    builder = AtomicCmdBuilder("ls")
    kwargs = builder.add_multiple_values(values, template="OUT_BAM_%i")

    assert_equal(kwargs, expected)
    assert_equal(builder.kwargs, expected)
    assert_equal(builder.call, ["ls", "%(OUT_BAM_1)s", "%(OUT_BAM_2)s"])