def test_create_output_files_dict_wdl_no_md5():
outmeta = create_output_files_dict(
'wdl', {'outputs': {
'arg1': 'path1',
'arg2': 'path2'
}})
assert outmeta == {'arg1': {'path': 'path1'}, 'arg2': {'path': 'path2'}}
def test_create_output_files_dict_wdl():
md5dict = {
'path1': '683153f0051fef9e778ce0866cfd97e9',
'path2': 'c14105f8209836cd3b1cc1b63b906fed'
}
outmeta = create_output_files_dict(
'wdl', {'outputs': {
'arg1': 'path1',
'arg2': 'path2'
}},
md5dict=md5dict)
assert outmeta == {
'arg1': {
'path': 'path1',
'md5sum': md5dict['path1']
},
'arg2': {
'path': 'path2',
'md5sum': md5dict['path2']
}
}
def test_create_output_files_dict_cwl_secondary_files():
md5dict = {
'path1': '683153f0051fef9e778ce0866cfd97e9',
'path2': 'c14105f8209836cd3b1cc1b63b906fed'
}
outmeta = create_output_files_dict(
'cwl',
{'arg1': {
'path': 'path1',
'secondaryFiles': [{
'path': 'path2'
}]
}},
md5dict=md5dict)
assert outmeta == {
'arg1': {
'path': 'path1',
'md5sum': md5dict['path1'],
'secondaryFiles': [{
'path': 'path2',
'md5sum': md5dict['path2']
}]
}
}
def test_create_output_files_dict_shell():
outmeta = create_output_files_dict('shell')
assert outmeta == {}
def test_create_output_files_dict_snakemake():
outmeta = create_output_files_dict('snakemake')
assert outmeta == {}
def test_create_output_files_dict_wdl_no_execution_metadata():
with pytest.raises(Exception) as ex:
outmeta = create_output_files_dict('wdl')
assert 'execution_metadata' in str(ex.value)