def _build_sample_summary(study_id, user_id):
"""Builds the row object for SlickGrid
Parameters
----------
study_id : int
Study to get samples from
user_id : str
User requesting the information
Returns
-------
columns : dicts
keys represent fields and values names for the columns in SlickGrid
rows : list of dicts
[ {field_1: 'value', ...}, ...]
"""
# Load all samples available into dictionary and set
rows = {s: {'sample': s} for s in sample_template_samples_get_req(
study_id, user_id)['samples']}
samples = rows.keys()
# Add one column per prep template highlighting what samples exist
preps = study_prep_get_req(study_id, user_id)["info"]
columns = {}
for preptype in preps:
for prep in preps[preptype]:
field = "prep%d" % prep["id"]
name = "%s (%d)" % (prep["name"], prep["id"])
columns[field] = name
prep_samples = prep_template_samples_get_req(
prep['id'], user_id)['samples']
for s in samples:
rows[s][field] = 'X' if s in prep_samples else ''
return columns, rows
def _build_sample_summary(study_id, user_id):
"""Builds the row object for SlickGrid
Parameters
----------
study_id : int
Study to get samples from
user_id : str
User requesting the information
Returns
-------
columns : dicts
keys represent fields and values names for the columns in SlickGrid
rows : list of dicts
[ {field_1: 'value', ...}, ...]
"""
# Load all samples available into dictionary and set
rows = {s: {'sample': s} for s in sample_template_samples_get_req(
study_id, user_id)['samples']}
samples = rows.keys()
# Add one column per prep template highlighting what samples exist
preps = study_prep_get_req(study_id, user_id)["info"]
columns = {}
for preptype in preps:
for prep in preps[preptype]:
field = "prep%d" % prep["id"]
name = "%s (%d)" % (prep["name"], prep["id"])
columns[field] = name
prep_samples = prep_template_samples_get_req(
prep['id'], user_id)['samples']
for s in samples:
rows[s][field] = 'X' if s in prep_samples else ''
return columns, rows
def _build_sample_summary(study_id, user_id):
"""Builds the initial table of samples associated with prep templates
Parameters
----------
study_id : int
Study to get samples from
user_id : str
User requesting the information
Returns
-------
columns : list of dict
SlickGrid formatted list of columns
samples_table : list of dict
SlickGrid formatted table information
"""
# Load all samples available into dictionary and set
samps_table = {
s: {
'sample': s
}
for s in sample_template_samples_get_req(study_id, user_id)['samples']
}
all_samps = set(samps_table.keys())
columns = [{
"id": "sample",
"name": "Sample",
"field": "sample",
"width": 240,
"sortable": False
}]
# Add one column per prep template highlighting what samples exist
preps = study_prep_get_req(study_id, user_id)["info"]
for dt in preps:
for prep in preps[dt]:
col_field = "prep%d" % prep["id"]
col_name = "%s - %d" % (prep["name"], prep["id"])
columns.append({
"id": col_field,
"name": col_name,
"field": col_field,
"sortable": False,
"width": 240
})
prep_samples = prep_template_samples_get_req(prep['id'],
user_id)['samples']
# Empty cell for samples not in the prep template
for s in all_samps.difference(prep_samples):
samps_table[s][col_field] = ""
# X in cell for samples in the prep template
for s in all_samps.intersection(prep_samples):
samps_table[s][col_field] = "X"
return columns, samps_table.values()
def get(self):
study_id = to_int(self.get_argument('study_id'))
# Retrieve the prep template information for the menu
prep_info = study_prep_get_req(study_id, self.current_user.id)
# Make sure study exists
if prep_info['status'] != 'success':
raise HTTPError(404, prep_info['message'])
prep_info = prep_info['info']
self.render('study_ajax/data_type_menu.html', prep_info=prep_info,
study_id=study_id)
def get(self):
study_id = to_int(self.get_argument('study_id'))
# Retrieve the prep template information for the menu
prep_info = study_prep_get_req(study_id, self.current_user.id)
# Make sure study exists
if prep_info['status'] != 'success':
raise HTTPError(404, prep_info['message'])
prep_info = prep_info['info']
self.render('study_ajax/data_type_menu.html',
prep_info=prep_info,
study_id=study_id)
def _build_sample_summary(study_id, user_id):
"""Builds the initial table of samples associated with prep templates
Parameters
----------
study_id : int
Study to get samples from
user_id : str
User requesting the information
Returns
-------
columns : list of dict
SlickGrid formatted list of columns
samples_table : list of dict
SlickGrid formatted table information
"""
# Load all samples available into dictionary and set
samps_table = {s: {'sample': s} for s in
sample_template_samples_get_req(
study_id, user_id)['samples']}
all_samps = set(samps_table.keys())
columns = [{"id": "sample", "name": "Sample", "field": "sample",
"width": 240, "sortable": False}]
# Add one column per prep template highlighting what samples exist
preps = study_prep_get_req(study_id, user_id)["info"]
for dt in preps:
for prep in preps[dt]:
col_field = "prep%d" % prep["id"]
col_name = "%s - %d" % (prep["name"], prep["id"])
columns.append({"id": col_field,
"name": col_name,
"field": col_field,
"sortable": False,
"width": 240})
prep_samples = prep_template_samples_get_req(
prep['id'], user_id)['samples']
# Empty cell for samples not in the prep template
for s in all_samps.difference(prep_samples):
samps_table[s][col_field] = ""
# X in cell for samples in the prep template
for s in all_samps.intersection(prep_samples):
samps_table[s][col_field] = "X"
return columns, samps_table.values()
