def sequence_group_tag_field(selected=None, empty='--'):
if not wowo('contractor'):
tag_q = Session.query(SequenceGroupTag).order_by(SequenceGroupTag.name)
tags = tag_q.all()
else:
tags = []
return {'value': selected or '',
'options': [('',empty)]+[(tag.id, tag.name) for tag in tags]}
def total_events():
plate_query = Session.query(QLBPlate,
func.sum(QLBWell.event_count).label('total_count')).\
join(QLBWell).\
join(QLBPlate.plate).\
join(Plate.box2).\
filter(and_(QLBPlate.plate_id != None, QLBWell.file_id != None)).\
group_by(QLBWell.plate_id)
if wowo('contractor'):
plate_query = plate_query.filter(Box2.prod_query())
return sum([total_count or 0 for plate, total_count in plate_query.all()])
def dr_url(box2, **kwargs):
if not wowo('dr_subdomains'):
return url(**kwargs)
subdomain = get_dr_subdomain(box2)
if not subdomain:
return url(**kwargs)
else:
kwargs['qualified'] = True
# because I can't get the Routes subdomain URL bullcrap to work
kwargs['host'] = subdomain
return url(**kwargs)
def wrapper(self, *args, **kwargs):
if wowo("contractor"):
id = kwargs.get("id")
if id is None:
abort(404, "Error: no plate id.")
plate = Session.query(Plate).get(id)
if not plate:
abort(404, 'Plate id error. got "%s"' % str(id))
box2 = plate.box2
if not box2.is_prod or plate.onsite:
abort(403)
return func.__call__(self, *args, **kwargs)
def time_events(start, end):
plate_query = QLBPlate.filter_by_host_datetime(Session.query(QLBPlate,
func.sum(QLBWell.event_count).label('total_count')).
join(QLBWell).\
join(QLBPlate.plate).\
join(Plate.box2).\
filter(and_(QLBPlate.plate_id != None,
QLBWell.file_id != None)),
start, end)
if wowo('contractor'):
plate_query = plate_query.filter(Box2.prod_query())
return sum([total_count or 0 for plate, total_count in plate_query.all()])
def wrapper(self, *args, **kwargs):
if wowo("contractor"):
id = kwargs.get("id")
well = (
Session.query(QLBWell)
.filter(QLBWell.id == id)
.options(joinedload_all(QLBWell.plate, QLBPlate.plate, Plate.box2, innerjoin=True))
.first()
)
if not well:
abort(404)
if not well.plate.plate.box2.is_prod or well.plate.plate.onsite:
abort(403)
return func(self, *args, **kwargs)
def box2_field(selected=None, empty='--', prod_only=False, exclude_fluidics_modules=False,order_by='name',order_desc=False):
if ( order_desc ):
box_q = Session.query(Box2).order_by( getattr(Box2,order_by).desc() )
else:
box_q = Session.query(Box2).order_by( getattr(Box2,order_by) )
if prod_only or wowo('contractor'):
box_q = box_q.filter(Box2.prod_query())
if exclude_fluidics_modules:
box_q = box_q.filter(Box2.whole_readers_only_query())
boxes = box_q.all()
return {'value': selected or '',
'options': [('',empty)]+
[(box.id, box.name) for box in boxes]}
def project_field(selected=None, active_only=False, validation_only=False, empty='--'):
if not wowo('contractor'):
project_q = Session.query(Project).order_by(Project.name)
if active_only:
project_q = project_q.filter(Project.active == True)
# should prob fix this...
if validation_only:
project_q = project_q.filter(or_(Project.name.like('%Beta%'),
Project.name.like('%Validation%'),
Project.name.like('%Alpha%')))
projects = project_q.all()
else:
projects = []
return {'value': selected or '',
'options': [('',empty)]+[(project.id, project.name) for project in projects]}
def plate_runtimes_for_operator_range(start, end):
plate_query = QLBPlate.filter_by_host_datetime(Session.query(QLBPlate,
func.count(QLBWell).label('wells'),
func.sum(func.if_(QLBWell.event_count >= 1000, 1, 0)).label('data_wells'),
func.sum(QLBWell.event_count).label('data_well_events')).
join(QLBWell).\
join(QLBPlate.plate).\
join(Plate.box2).\
filter(and_(QLBPlate.plate_id != None,
QLBWell.file_id != None)),
start, end).group_by(QLBWell.plate_id).options(joinedload_all('plate.box2', innerjoin=True),
joinedload_all('plate.operator'))
if wowo('contractor'):
plate_query = plate_query.filter(Box2.prod_query())
return plate_query.all()
def plate_runtimes_for_box_range(start, end):
plate_query = QLBPlate.filter_by_host_datetime(Session.query(QLBPlate,
func.min(QLBWell.host_datetime).label('start_time'),
func.max(QLBWell.host_datetime).label('end_time')).
join(QLBWell).\
join(QLBPlate.plate).\
join(Plate.box2).\
filter(and_(QLBPlate.plate_id != None,
QLBWell.file_id != None)),
start, end).group_by(QLBWell.plate_id).options(joinedload_all('plate.box2', innerjoin=True),
joinedload_all('plate.operator'))
if wowo('contractor'):
plate_query = plate_query.filter(Box2.prod_query())
runtimes = plate_query.all()
# TODO: engineer quick fix for this
return [runtime for runtime in runtimes if runtime.start_time and runtime.end_time]
def lab_reader_group_field(empty='--'):
"""
Intended to be set in a manual environment. Should be ported
to a Bootstrap-type scheme like comparable_metric_field()
"""
box_q = Session.query(Box2).order_by(Box2.name)
lab_readers = box_q.filter(Box2.lab_query()).all()
prod_readers = box_q.filter(Box2.prod_query()).all()
# htmlfill-compatible.
if not wowo('contractor'):
return [('',empty),
([(box.id, box.name) for box in lab_readers], 'Lab'),
([(box.id, box.name) for box in prod_readers],'Production')]
else:
return [('',empty),
([(box.id, box.name) for box in prod_readers],'Production')]
def __inhouse_readers(self, admin=True):
if wowo('contractor'):
return []
# redmine 875 -- fix this with single flag
box2_query = Session.query(Box2).filter(or_(Box2.name.like('Alpha 0%'),
Box2.name.like('Beta 0%'),
Box2.name.like('Beta 1%'),
Box2.name.like('ENG%'),
Box2.name.like('GXD%'),
Box2.name.like('RevC %'))).order_by(Box2.name)
c.admin = admin != 'False'
if not c.admin:
box2_query = box2_query.filter_by(active=True)
box2s = box2_query.all()
return box2s
def wrapper(self, *args, **kwargs):
if wowo("contractor"):
abort(403)
else:
return func.__call__(self, *args, **kwargs)
