def test_iterate_fields_modif(self):
"""
Ensure that changing ``values`` inside iteration loop also changes ``OUTPUT`` values.
"""
for schema, values in iterate_fields(OUTPUT, PROCESS_OUTPUT_SCHEMA):
field_name = schema["name"]
if field_name == "bases":
values[field_name] = str(int(values[field_name]) + 1)
self.assertEqual(OUTPUT["bases"], "76")
# Fix the OUTPUT to previous state:
OUTPUT["bases"] = "75"
def test_iterate_fields_modif(self):
"""
Ensure that changing of ``values`` inside iteration loop also changes the ``OUTPUT`` values.
"""
for schema, values in utils.iterate_fields(OUTPUT, PROCESS_OUTPUT_SCHEMA):
field_name = schema['name']
if field_name == "bases":
values[field_name] = str(int(values[field_name]) + 1)
self.assertEqual(OUTPUT['bases'], "76")
# Fix the OUTPUT to previous state:
OUTPUT['bases'] = "75"
def test_iterate_fields(self):
result = list(iterate_fields(OUTPUT, PROCESS_OUTPUT_SCHEMA))
# result object is iterator - we use lists to pull all elements
expected = [({
'type': 'basic:string:',
'name': 'id',
'label': 'ID'
}, {
'k': 123,
'id': 'abc'
}),
({
'type': 'basic:string:',
'name': 'bases',
'label': 'Number of bases'
}, {
'options': {
'k': 123,
'id': 'abc'
},
'bases': '75',
'fastq': {
'file': 'example.fastq.gz'
}
}),
({
'type': 'basic:file:',
'name': 'fastq',
'label': 'Reads file'
}, {
'options': {
'k': 123,
'id': 'abc'
},
'bases': '75',
'fastq': {
'file': 'example.fastq.gz'
}
}),
({
'type': 'basic:integer:',
'name': 'k',
'label': 'k-mer size'
}, {
'k': 123,
'id': 'abc'
})]
self.assertCountEqual(result, expected)
def test_iterate_fields(self):
result = list(iterate_fields(OUTPUT, PROCESS_OUTPUT_SCHEMA))
# result object is iterator - we use lists to pull all elements
expected = [
({
'type': 'basic:string:',
'name': 'id',
'label': 'ID'
}, {
'k': 123,
'id': 'abc'
}), ({
'type': 'basic:string:',
'name': 'bases',
'label': 'Number of bases'
}, {
'options': {
'k': 123,
'id': 'abc'
},
'bases': '75',
'fastq': {
'file': 'example.fastq.gz'
}
}), ({
'type': 'basic:file:',
'name': 'fastq',
'label': 'Reads file'
}, {
'options': {
'k': 123,
'id': 'abc'
},
'bases': '75',
'fastq': {
'file': 'example.fastq.gz'
}
}), ({
'type': 'basic:integer:',
'name': 'k',
'label': 'k-mer size'
}, {
'k': 123,
'id': 'abc'
})
]
self.assertCountEqual(result, expected)
def test_iterate_fields(self):
result = list(iterate_fields(OUTPUT, PROCESS_OUTPUT_SCHEMA))
# result object is iterator - we use lists to pull all elements
expected = [
(
{
"type": "basic:string:",
"name": "id",
"label": "ID"
},
{
"k": 123,
"id": "abc"
},
),
(
{
"type": "basic:string:",
"name": "bases",
"label": "Number of bases"
},
{
"options": {
"k": 123,
"id": "abc"
},
"bases": "75",
"fastq": {
"file": "example.fastq.gz"
},
},
),
(
{
"type": "basic:file:",
"name": "fastq",
"label": "Reads file"
},
{
"options": {
"k": 123,
"id": "abc"
},
"bases": "75",
"fastq": {
"file": "example.fastq.gz"
},
},
),
(
{
"type": "basic:integer:",
"name": "k",
"label": "k-mer size"
},
{
"k": 123,
"id": "abc"
},
),
]
self.assertCountEqual(result, expected)