def test_searches_fields_filters_response_field_make_filter(dummy_parent):
dummy_parent._meta['params_parser']._request.environ['QUERY_STRING'] = (
'type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap'
'&limit=all&frame=embedded&restricted!=*&searchTerm=ctcf')
from snovault.elasticsearch.searches.fields import FiltersResponseField
frf = FiltersResponseField()
frf.parent = dummy_parent
frf._make_filter('type', 'Experiment')
assert frf.filters[0] == {
'field': 'type',
'remove':
'/dummy?assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all&frame=embedded&restricted%21=%2A&searchTerm=ctcf',
'term': 'Experiment'
}
def test_searches_fields_filters_response_field_get_filters_and_search_terms_from_query_string(
dummy_parent):
dummy_parent._meta['params_parser']._request.environ['QUERY_STRING'] = (
'type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap'
'&limit=all&frame=embedded&restricted!=*&searchTerm=ctcf')
from snovault.elasticsearch.searches.fields import FiltersResponseField
frf = FiltersResponseField()
frf.parent = dummy_parent
expected = [('assay_title', 'Histone ChIP-seq'),
('award.project', 'Roadmap'), ('restricted!', '*'),
('type', 'Experiment'), ('searchTerm', 'ctcf')]
actual = frf._get_filters_and_search_terms_from_query_string()
assert len(actual) == len(expected)
assert all([e in actual for e in expected])
def audit(context, request):
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title=AUDIT_TITLE
),
TypeResponseField(
at_type=[AUDIT_TITLE]
),
IDResponseField(),
SearchBaseResponseField(),
ContextResponseField(),
AuditMatrixWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES
),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def search(context, request):
# Note the order of rendering matters for some fields, e.g. AllResponseField and
# NotificationResponseField depend on results from BasicSearchWithFacetsResponseField.
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title=SEARCH_TITLE
),
TypeResponseField(
at_type=[SEARCH_TITLE]
),
IDResponseField(),
ContextResponseField(),
BasicSearchWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES
),
AllResponseField(),
NotificationResponseField(),
FiltersResponseField(),
ClearFiltersResponseField(),
ColumnsResponseField(),
SortResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def summary(context, request):
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title=SUMMARY_TITLE
),
TypeResponseField(
at_type=[SUMMARY_TITLE]
),
IDResponseField(),
SearchBaseResponseField(),
ContextResponseField(),
BasicMatrixWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES,
matrix_definition_name=SUMMARY_MATRIX
),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def mouse_development(context, request):
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title='Mouse Development Matrix'
),
TypeResponseField(
at_type=['MouseDevelopmentMatrix']
),
IDResponseField(),
SearchBaseResponseField(),
ContextResponseField(),
BasicMatrixWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES,
matrix_definition_name='mouse_development'
),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def entex_matrix(context, request):
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title='Epigenomes from four individuals (ENTEx)'
),
TypeResponseField(
at_type=['EntexMatrix']
),
IDResponseField(),
SearchBaseResponseField(),
ContextResponseField(),
MissingMatrixWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES,
matrix_definition_name='entex'
),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def report(context, request):
fr = FieldedResponse(
_meta={
'params_parser': ParamsParser(request)
},
response_fields=[
TitleResponseField(
title=REPORT_TITLE
),
TypeResponseField(
at_type=[REPORT_TITLE]
),
IDResponseField(),
ContextResponseField(),
BasicReportWithFacetsResponseField(),
AllResponseField(),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
ColumnsResponseField(),
NonSortableResponseField(),
SortResponseField(),
DebugQueryResponseField()
]
)
return fr.render()
def test_searches_fields_filters_response_field_make_filters(dummy_parent):
dummy_parent._meta['params_parser']._request.environ['QUERY_STRING'] = (
'type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap'
'&limit=all&frame=embedded&restricted!=*&searchTerm=ctcf')
from snovault.elasticsearch.searches.fields import FiltersResponseField
frf = FiltersResponseField()
frf.parent = dummy_parent
frf._make_filters()
expected = [{
'remove':
'/dummy?type=Experiment&award.project=Roadmap&limit=all&frame=embedded&restricted%21=%2A&searchTerm=ctcf',
'field': 'assay_title',
'term': 'Histone ChIP-seq'
}, {
'remove':
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&limit=all&frame=embedded&restricted%21=%2A&searchTerm=ctcf',
'field': 'award.project',
'term': 'Roadmap'
}, {
'remove':
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all&frame=embedded&searchTerm=ctcf',
'field': 'restricted!',
'term': '*'
}, {
'remove':
'/dummy?assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all&frame=embedded&restricted%21=%2A&searchTerm=ctcf',
'field': 'type',
'term': 'Experiment'
}, {
'remove':
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all&frame=embedded&restricted%21=%2A',
'field': 'searchTerm',
'term': 'ctcf'
}]
actual = frf.filters
assert len(actual) == len(expected)
assert all([e in actual for e in expected])
def collection_view_listing_es(context, request):
if not hasattr(request,
'datastore') or request.datastore != ELASTIC_SEARCH:
return collection_view_listing_db(context, request)
fr = FieldedResponse(_meta={'params_parser': ParamsParser(request)},
response_fields=[
IDResponseField(),
CollectionSearchWithFacetsResponseField(),
AllResponseField(),
NotificationResponseField(),
FiltersResponseField(),
CollectionClearFiltersResponseField(),
ColumnsResponseField()
])
return fr.render()
def encore_rna_seq_matrix(context, request):
fr = FieldedResponse(
_meta={'params_parser': ParamsParser(request)},
response_fields=[
TitleResponseField(title='ENCORE RNA-seq Matrix'),
TypeResponseField(at_type=['EncoreRnaSeqMatrix']),
IDResponseField(),
SearchBaseResponseField(),
ContextResponseField(),
MissingMatrixWithFacetsResponseField(
default_item_types=DEFAULT_ITEM_TYPES,
matrix_definition_name='encore_rna_seq_matrix'),
NotificationResponseField(),
FiltersResponseField(),
TypeOnlyClearFiltersResponseField(),
DebugQueryResponseField()
])
return fr.render()
def test_searches_fields_filters_response_field_get_path_qs_without_filter(
dummy_parent):
dummy_parent._meta['params_parser']._request.environ['QUERY_STRING'] = (
'type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap'
'&limit=all&frame=embedded&restricted!=*&searchTerm=ctcf')
from snovault.elasticsearch.searches.fields import FiltersResponseField
frf = FiltersResponseField()
frf.parent = dummy_parent
assert frf._get_path_qs_without_filter('type', 'Experiment') == (
'/dummy?assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all'
'&frame=embedded&restricted%21=%2A&searchTerm=ctcf')
assert frf._get_path_qs_without_filter('searchTerm', 'ctcf') == (
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all'
'&frame=embedded&restricted%21=%2A')
assert frf._get_path_qs_without_filter('searchTerm', 'ctcaf') == (
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all'
'&frame=embedded&restricted%21=%2A&searchTerm=ctcf')
assert frf._get_path_qs_without_filter('restricted!', '*') == (
'/dummy?type=Experiment&assay_title=Histone+ChIP-seq&award.project=Roadmap&limit=all'
'&frame=embedded&searchTerm=ctcf')
def test_searches_fields_filters_response_field_init(dummy_parent):
from snovault.elasticsearch.searches.fields import FiltersResponseField
frf = FiltersResponseField()
assert isinstance(frf, FiltersResponseField)
