def folderitems(self):
items = AnalysesView.folderitems(self)
# Group items by RefSample - Worksheet - Position
for i in range(len(items)):
obj = items[i]['obj']
wss = obj.getBackReferences('WorksheetAnalysis')
wsid = wss[0].id if wss and len(wss) > 0 else ''
wshref = wss[0].absolute_url() if wss and len(wss) > 0 else None
if wshref:
items[i]['replace']['Worksheet'] = "<a href='%s'>%s</a>" % (wshref, wsid)
imgtype = ""
if obj.portal_type == 'ReferenceAnalysis':
antype = QCANALYSIS_TYPES.getValue(obj.getReferenceType())
if obj.getReferenceType() == 'c':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/control.png'/> " % (antype, self.context.absolute_url())
if obj.getReferenceType() == 'b':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/blank.png'/> " % (antype, self.context.absolute_url())
items[i]['replace']['Partition'] = "<a href='%s'>%s</a>" % (obj.aq_parent.absolute_url(), obj.aq_parent.id)
elif obj.portal_type == 'DuplicateAnalysis':
antype = QCANALYSIS_TYPES.getValue('d')
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/duplicate.png'/> " % (antype, self.context.absolute_url())
items[i]['sortcode'] = '%s_%s' % (obj.getSample().id, obj.getService().getKeyword())
items[i]['before']['Service'] = imgtype
items[i]['sortcode'] = '%s_%s' % (obj.getReferenceAnalysesGroupID(),
obj.getService().getKeyword())
# Sort items
items = sorted(items, key=itemgetter('sortcode'))
return items
def folderitems(self):
items = AnalysesView.folderitems(self)
# Group items by RefSample - Worksheet - Position
for i in range(len(items)):
obj = items[i]['obj']
wss = obj.getBackReferences('WorksheetAnalysis')
wsid = wss[0].id if wss and len(wss) > 0 else ''
wshref = wss[0].absolute_url() if wss and len(wss) > 0 else None
if wshref:
items[i]['replace']['Worksheet'] = "<a href='%s'>%s</a>" % (wshref, wsid)
imgtype = ""
if obj.portal_type == 'ReferenceAnalysis':
antype = QCANALYSIS_TYPES.getValue(obj.getReferenceType())
if obj.getReferenceType() == 'c':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/control.png'/> " % (antype, self.context.absolute_url())
if obj.getReferenceType() == 'b':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/blank.png'/> " % (antype, self.context.absolute_url())
items[i]['replace']['Partition'] = "<a href='%s'>%s</a>" % (obj.aq_parent.absolute_url(), obj.aq_parent.id)
elif obj.portal_type == 'DuplicateAnalysis':
antype = QCANALYSIS_TYPES.getValue('d')
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/duplicate.png'/> " % (antype, self.context.absolute_url())
items[i]['sortcode'] = '%s_%s' % (obj.getSample().id, obj.getService().getKeyword())
items[i]['before']['Service'] = imgtype
items[i]['sortcode'] = '%s_%s' % (obj.getReferenceAnalysesGroupID(),
obj.getService().getKeyword())
# Sort items
items = sorted(items, key = itemgetter('sortcode'))
return items
def folderitem(self, obj, item, index):
item = super(QCAnalysesView, self).folderitem(obj, item, index)
obj = self.get_object(obj)
# Fill Worksheet cell
worksheet = obj.getWorksheet()
if not worksheet:
return item
# Fill the Worksheet cell
ws_id = api.get_id(worksheet)
ws_url = api.get_url(worksheet)
item["replace"]["Worksheet"] = get_link(ws_url, value=ws_id)
if IDuplicateAnalysis.providedBy(obj):
an_type = "d"
img_name = "duplicate.png"
parent = obj.getRequest()
else:
an_type = obj.getReferenceType()
img_name = an_type == "c" and "control.png" or "blank.png"
parent = obj.aq_parent
# Render the image
an_type = QCANALYSIS_TYPES.getValue(an_type)
item['before']['Service'] = get_image(img_name, title=an_type)
# Fill the Parent cell
parent_url = api.get_url(parent)
parent_id = api.get_id(parent)
item["replace"]["Parent"] = get_link(parent_url, value=parent_id)
return item
def folderitem(self, obj, item, index):
"""Prepare a data item for the listing.
:param obj: The catalog brain or content object
:param item: Listing item (dictionary)
:param index: Index of the listing item
:returns: Augmented listing data item
"""
obj = obj.getObject()
# Group items by RefSample - Worksheet - Position
wss = obj.getBackReferences('WorksheetAnalysis')
wsid = wss[0].id if wss and len(wss) > 0 else ''
wshref = wss[0].absolute_url() if wss and len(wss) > 0 else None
if wshref:
item['replace']['Worksheet'] = "<a href='%s'>%s</a>" % (wshref,
wsid)
imgtype = ""
if obj.portal_type == 'ReferenceAnalysis':
antype = QCANALYSIS_TYPES.getValue(obj.getReferenceType())
if obj.getReferenceType() == 'c':
imgtype = "<img title='%s' " \
"src='%s/++resource++bika.lims.images/control.png" \
"'/> " % (
antype, self.context.absolute_url())
if obj.getReferenceType() == 'b':
imgtype = "<img title='%s' " \
"src='%s/++resource++bika.lims.images/blank.png" \
"'/> " % (
antype, self.context.absolute_url())
item['replace']['Partition'] = "<a href='%s'>%s</a>" % (
obj.aq_parent.absolute_url(), obj.aq_parent.id)
elif obj.portal_type == 'DuplicateAnalysis':
antype = QCANALYSIS_TYPES.getValue('d')
imgtype = "<img title='%s' " \
"src='%s/++resource++bika.lims.images/duplicate.png" \
"'/> " % (
antype, self.context.absolute_url())
item['sortcode'] = '%s_%s' % (obj.getSample().id, obj.getKeyword())
item['before']['Service'] = imgtype
item['sortcode'] = '%s_%s' % (obj.getReferenceAnalysesGroupID(),
obj.getKeyword())
return item
def getLatestReferenceAnalyses(self):
""" Returns a list with the latest Reference analyses performed
for this instrument and Analysis Service.
References the latest ReferenceAnalysis done for this instrument.
Duplicate Analyses and Regular Analyses are not included.
Only contains the last ReferenceAnalysis done for this
instrument, Analysis Service and Reference type (blank or control).
The list is created 'on-fly' if the method hasn't been already
called or a new ReferenceAnalysis has been added by using
addReferences() since its last call. Otherwise, uses the
private accessor _LatestReferenceAnalyses as a cache
(prevents overload).
As an example:
[0]: RefAnalysis for Ethanol, QC-001 (Blank)
[1]: RefAnalysis for Ethanol, QC-002 (Control)
[2]: RefAnalysis for Methanol, QC-001 (Blank)
"""
field = self.getField('_LatestReferenceAnalyses')
refs = field and field.get(self) or []
if len(refs) == 0:
latest = {}
# Since the results file importer uses Date from the results
# file as Analysis 'Capture Date', we cannot assume the last
# item from the list is the latest analysis done, so we must
# pick up the latest analyses using the Results Capture Date
for ref in self.getReferenceAnalyses():
antype = QCANALYSIS_TYPES.getValue(ref.getReferenceType())
key = '%s.%s' % (ref.getServiceUID(), antype)
last = latest.get(key, ref)
if ref.getResultCaptureDate() > last.getResultCaptureDate():
latest[key] = ref
else:
latest[key] = last
refs = [r for r in latest.itervalues()]
# Add to the cache
self.getField('_LatestReferenceAnalyses').set(self, refs)
return refs
def getLatestReferenceAnalyses(self):
""" Returns a list with the latest Reference analyses performed
for this instrument and Analysis Service.
References the latest ReferenceAnalysis done for this instrument.
Duplicate Analyses and Regular Analyses are not included.
Only contains the last ReferenceAnalysis done for this
instrument, Analysis Service and Reference type (blank or control).
The list is created 'on-fly' if the method hasn't been already
called or a new ReferenceAnalysis has been added by using
addReferences() since its last call. Otherwise, uses the
private accessor _LatestReferenceAnalyses as a cache
(prevents overload).
As an example:
[0]: RefAnalysis for Ethanol, QC-001 (Blank)
[1]: RefAnalysis for Ethanol, QC-002 (Control)
[2]: RefAnalysis for Methanol, QC-001 (Blank)
"""
field = self.getField('_LatestReferenceAnalyses')
refs = field and field.get(self) or []
if len(refs) == 0:
latest = {}
# Since the results file importer uses Date from the results
# file as Analysis 'Capture Date', we cannot assume the last
# item from the list is the latest analysis done, so we must
# pick up the latest analyses using the Results Capture Date
for ref in self.getReferenceAnalyses():
antype = QCANALYSIS_TYPES.getValue(ref.getReferenceType())
key = '%s.%s' % (ref.getServiceUID(), antype)
last = latest.get(key, ref)
if ref.getResultCaptureDate() > last.getResultCaptureDate():
latest[key] = ref
else:
latest[key] = last
refs = [r for r in latest.itervalues()]
# Add to the cache
self.getField('_LatestReferenceAnalyses').set(self, refs)
return refs
def folderitems(self):
items = AnalysesView.folderitems(self)
items.sort(key=itemgetter('CaptureDate'), reverse=True)
for i in range(len(items)):
obj = items[i]['obj']
imgtype = ""
if obj.portal_type == 'ReferenceAnalysis':
antype = QCANALYSIS_TYPES.getValue(obj.getReferenceType())
if obj.getReferenceType() == 'c':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/control.png'/> " % (
antype, self.context.absolute_url())
if obj.getReferenceType() == 'b':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/blank.png'/> " % (
antype, self.context.absolute_url())
items[i]['replace']['Partition'] = "<a href='%s'>%s</a>" % (
obj.aq_parent.absolute_url(), obj.aq_parent.id)
elif obj.portal_type == 'DuplicateAnalysis':
antype = QCANALYSIS_TYPES.getValue('d')
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/duplicate.png'/> " % (
antype, self.context.absolute_url())
items[i]['sortcode'] = '%s_%s' % (
obj.getSample().id, obj.getService().getKeyword())
else:
items[i]['sortcode'] = '%s_%s' % (
obj.getSample().id, obj.getService().getKeyword())
items[i]['before']['Service'] = imgtype
# Get retractions field
pdf = obj.getRetractedAnalysesPdfReport()
title = ''
anchor = ''
try:
if pdf:
filesize = 0
title = _('Retractions')
anchor = "<a class='pdf' target='_blank' href='%s/at_download/RetractedAnalysesPdfReport'>%s</a>" % \
(obj.absolute_url(), _("Retractions"))
filesize = pdf.get_size()
filesize = filesize / 1024 if filesize > 0 else 0
except:
# POSKeyError: 'No blob file'
# Show the record, but not the link
title = _('Retraction report unavailable')
anchor = title
items[i]['Retractions'] = title
items[i]['replace']['Retractions'] = anchor
# Create json
qcid = obj.aq_parent.id
serviceref = "%s (%s)" % (items[i]['Service'], items[i]['Keyword'])
trows = self.anjson.get(serviceref, {})
anrows = trows.get(qcid, [])
anid = '%s.%s' % (items[i]['getReferenceAnalysesGroupID'],
items[i]['id'])
rr = obj.aq_parent.getResultsRangeDict()
uid = obj.getServiceUID()
if uid in rr:
specs = rr[uid]
try:
smin = float(specs.get('min', 0))
smax = float(specs.get('max', 0))
error = float(specs.get('error', 0))
target = float(specs.get('result', 0))
result = float(items[i]['Result'])
error_amount = ((target / 100) *
error) if target > 0 else 0
upper = smax + error_amount
lower = smin - error_amount
anrow = {
'date': items[i]['CaptureDate'],
'min': smin,
'max': smax,
'target': target,
'error': error,
'erroramount': error_amount,
'upper': upper,
'lower': lower,
'result': result,
'unit': items[i]['Unit'],
'id': items[i]['uid']
}
anrows.append(anrow)
trows[qcid] = anrows
self.anjson[serviceref] = trows
except:
pass
return items
def folderitems(self):
items = AnalysesView.folderitems(self)
items.sort(key=itemgetter('CaptureDate'), reverse=True)
for i in range(len(items)):
obj = items[i]['obj']
imgtype = ""
if obj.portal_type == 'ReferenceAnalysis':
antype = QCANALYSIS_TYPES.getValue(obj.getReferenceType())
if obj.getReferenceType() == 'c':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/control.png'/> " % (antype, self.context.absolute_url())
if obj.getReferenceType() == 'b':
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/blank.png'/> " % (antype, self.context.absolute_url())
items[i]['replace']['Partition'] = "<a href='%s'>%s</a>" % (obj.aq_parent.absolute_url(), obj.aq_parent.id)
elif obj.portal_type == 'DuplicateAnalysis':
antype = QCANALYSIS_TYPES.getValue('d')
imgtype = "<img title='%s' src='%s/++resource++bika.lims.images/duplicate.png'/> " % (antype, self.context.absolute_url())
items[i]['sortcode'] = '%s_%s' % (obj.getSample().id, obj.getService().getKeyword())
else:
items[i]['sortcode'] = '%s_%s' % (obj.getSample().id, obj.getService().getKeyword())
items[i]['before']['Service'] = imgtype
# Get retractions field
pdf = obj.getRetractedAnalysesPdfReport()
title = ''
anchor = ''
try:
if pdf:
filesize = 0
title = _('Retractions')
anchor = "<a class='pdf' target='_blank' href='%s/at_download/RetractedAnalysesPdfReport'>%s</a>" % \
(obj.absolute_url(), _("Retractions"))
filesize = pdf.get_size()
filesize = filesize / 1024 if filesize > 0 else 0
except:
# POSKeyError: 'No blob file'
# Show the record, but not the link
title = _('Retraction report unavailable')
anchor = title
items[i]['Retractions'] = title
items[i]['replace']['Retractions'] = anchor
# Create json
qcid = obj.aq_parent.id;
serviceref = "%s (%s)" % (items[i]['Service'], items[i]['Keyword'])
trows = self.anjson.get(serviceref, {});
anrows = trows.get(qcid, []);
anid = '%s.%s' % (items[i]['getReferenceAnalysesGroupID'],
items[i]['id'])
rr = obj.aq_parent.getResultsRangeDict()
uid = obj.getServiceUID()
if uid in rr:
specs = rr[uid];
try:
smin = float(specs.get('min', 0))
smax = float(specs.get('max', 0))
error = float(specs.get('error', 0))
target = float(specs.get('result', 0))
result = float(items[i]['Result'])
error_amount = ((target / 100) * error) if target > 0 else 0
upper = smax + error_amount
lower = smin - error_amount
anrow = { 'date': items[i]['CaptureDate'],
'min': smin,
'max': smax,
'target': target,
'error': error,
'erroramount': error_amount,
'upper': upper,
'lower': lower,
'result': result,
'unit': items[i]['Unit'],
'id': items[i]['uid'] }
anrows.append(anrow);
trows[qcid] = anrows;
self.anjson[serviceref] = trows
except:
pass
return items