def __call__(self):
wf = getToolByName(self.context, 'portal_workflow')
part = _createObjectByType("SamplePartition", self.context, tmpID())
part.processForm()
SamplingWorkflowEnabled = part.bika_setup.getSamplingWorkflowEnabled()
## We force the object to have the same state as the parent
sample_state = wf.getInfoFor(self.context, 'review_state')
changeWorkflowState(part, "bika_sample_workflow", sample_state)
self.request.RESPONSE.redirect(self.context.absolute_url() +
"/partitions")
return
def __call__(self):
wf = getToolByName(self.context, 'portal_workflow')
part = _createObjectByType("SamplePartition", self.context, tmpID())
part.processForm()
SamplingWorkflowEnabled = part.bika_setup.getSamplingWorkflowEnabled()
## We force the object to have the same state as the parent
sample_state = wf.getInfoFor(self.context, 'review_state')
changeWorkflowState(part, "bika_sample_workflow", sample_state)
self.request.RESPONSE.redirect(self.context.absolute_url() +
"/partitions")
return
def ObjectInitializedEventHandler(instance, event):
# This handler fires for DuplicateAnalysis because
# DuplicateAnalysis also provides IAnalysis.
# DuplicateAnalysis doesn't have analysis_workflow.
if instance.portal_type == "DuplicateAnalysis":
return
if instance.portal_type == 'Analysis':
alsoProvides(instance, IRoutineAnalysis)
workflow = getToolByName(instance, 'portal_workflow')
ar = instance.aq_parent
ar_state = workflow.getInfoFor(ar, 'review_state')
ar_ws_state = workflow.getInfoFor(ar, 'worksheetanalysis_review_state')
# Set the state of the analysis depending on the state of the AR.
if ar_state in ('sample_registered',
'to_be_sampled',
'sampled',
'to_be_preserved',
'sample_due',
'sample_received'):
changeWorkflowState(instance, "bika_analysis_workflow", ar_state)
elif ar_state in ('to_be_verified'):
# Apply to AR only; we don't want this transition to cascade.
if 'workflow_skiplist' not in ar.REQUEST:
ar.REQUEST['workflow_skiplist'] = []
ar.REQUEST['workflow_skiplist'].append("retract all analyses")
workflow.doActionFor(ar, 'retract')
ar.REQUEST['workflow_skiplist'].remove("retract all analyses")
if ar_ws_state == 'assigned':
workflow.doActionFor(ar, 'unassign')
skip(ar, 'unassign', unskip=True)
instance.updateDueDate()
return
def workflow_script_reject(self):
"""Copy real analyses to RejectAnalysis, with link to real
create a new worksheet, with the original analyses, and new
duplicates and references to match the rejected
worksheet.
"""
if skip(self, "reject"):
return
utils = getToolByName(self, 'plone_utils')
workflow = self.portal_workflow
def copy_src_fields_to_dst(src, dst):
# These will be ignored when copying field values between analyses
ignore_fields = [
'UID',
'id',
'title',
'allowDiscussion',
'subject',
'description',
'location',
'contributors',
'creators',
'effectiveDate',
'expirationDate',
'language',
'rights',
'creation_date',
'modification_date',
'Layout', # ws
'Analyses', # ws
]
fields = src.Schema().fields()
for field in fields:
fieldname = field.getName()
if fieldname in ignore_fields:
continue
getter = getattr(
src, 'get' + fieldname,
src.Schema().getField(fieldname).getAccessor(src))
setter = getattr(
dst, 'set' + fieldname,
dst.Schema().getField(fieldname).getMutator(dst))
if getter is None or setter is None:
# ComputedField
continue
setter(getter())
analysis_positions = {}
for item in self.getLayout():
analysis_positions[item['analysis_uid']] = item['position']
old_layout = []
new_layout = []
# New worksheet
worksheets = self.aq_parent
new_ws = _createObjectByType('Worksheet', worksheets, tmpID())
new_ws.unmarkCreationFlag()
new_ws_id = renameAfterCreation(new_ws)
copy_src_fields_to_dst(self, new_ws)
new_ws.edit(Number=new_ws_id, Remarks=self.getRemarks())
# Objects are being created inside other contexts, but we want their
# workflow handlers to be aware of which worksheet this is occurring in.
# We save the worksheet in request['context_uid'].
# We reset it again below.... be very sure that this is set to the
# UID of the containing worksheet before invoking any transitions on
# analyses.
self.REQUEST['context_uid'] = new_ws.UID()
# loop all analyses
analyses = self.getAnalyses()
new_ws_analyses = []
old_ws_analyses = []
for analysis in analyses:
# Skip published or verified analyses
review_state = workflow.getInfoFor(analysis, 'review_state', '')
if review_state in ['published', 'verified', 'retracted']:
old_ws_analyses.append(analysis.UID())
old_layout.append({
'position': position,
'type': 'a',
'analysis_uid': analysis.UID(),
'container_uid': analysis.aq_parent.UID()
})
continue
# Normal analyses:
# - Create matching RejectAnalysis inside old WS
# - Link analysis to new WS in same position
# - Copy all field values
# - Clear analysis result, and set Retested flag
if analysis.portal_type == 'Analysis':
reject = _createObjectByType('RejectAnalysis', self, tmpID())
reject.unmarkCreationFlag()
reject_id = renameAfterCreation(reject)
copy_src_fields_to_dst(analysis, reject)
reject.setAnalysis(analysis)
reject.reindexObject()
analysis.edit(
Result=None,
Retested=True,
)
analysis.reindexObject()
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(reject.UID())
old_layout.append({
'position': position,
'type': 'r',
'analysis_uid': reject.UID(),
'container_uid': self.UID()
})
new_ws_analyses.append(analysis.UID())
new_layout.append({
'position': position,
'type': 'a',
'analysis_uid': analysis.UID(),
'container_uid': analysis.aq_parent.UID()
})
# Reference analyses
# - Create a new reference analysis in the new worksheet
# - Transition the original analysis to 'rejected' state
if analysis.portal_type == 'ReferenceAnalysis':
service_uid = analysis.getService().UID()
reference = analysis.aq_parent
reference_type = analysis.getReferenceType()
new_analysis_uid = reference.addReferenceAnalysis(
service_uid, reference_type)
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(analysis.UID())
old_layout.append({
'position': position,
'type': reference_type,
'analysis_uid': analysis.UID(),
'container_uid': reference.UID()
})
new_ws_analyses.append(new_analysis_uid)
new_layout.append({
'position': position,
'type': reference_type,
'analysis_uid': new_analysis_uid,
'container_uid': reference.UID()
})
workflow.doActionFor(analysis, 'reject')
new_reference = reference.uid_catalog(
UID=new_analysis_uid)[0].getObject()
workflow.doActionFor(new_reference, 'assign')
analysis.reindexObject()
# Duplicate analyses
# - Create a new duplicate inside the new worksheet
# - Transition the original analysis to 'rejected' state
if analysis.portal_type == 'DuplicateAnalysis':
src_analysis = analysis.getAnalysis()
ar = src_analysis.aq_parent
service = src_analysis.getService()
duplicate_id = new_ws.generateUniqueId('DuplicateAnalysis')
new_duplicate = _createObjectByType('DuplicateAnalysis',
new_ws, duplicate_id)
new_duplicate.unmarkCreationFlag()
copy_src_fields_to_dst(analysis, new_duplicate)
workflow.doActionFor(new_duplicate, 'assign')
new_duplicate.reindexObject()
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(analysis.UID())
old_layout.append({
'position': position,
'type': 'd',
'analysis_uid': analysis.UID(),
'container_uid': self.UID()
})
new_ws_analyses.append(new_duplicate.UID())
new_layout.append({
'position': position,
'type': 'd',
'analysis_uid': new_duplicate.UID(),
'container_uid': new_ws.UID()
})
workflow.doActionFor(analysis, 'reject')
analysis.reindexObject()
new_ws.setAnalyses(new_ws_analyses)
new_ws.setLayout(new_layout)
new_ws.replaces_rejected_worksheet = self.UID()
for analysis in new_ws.getAnalyses():
review_state = workflow.getInfoFor(analysis, 'review_state', '')
if review_state == 'to_be_verified':
changeWorkflowState(analysis, "bika_analysis_workflow",
"sample_received")
self.REQUEST['context_uid'] = self.UID()
self.setLayout(old_layout)
self.setAnalyses(old_ws_analyses)
self.replaced_by = new_ws.UID()
def workflow_action_save_analyses_button(self):
form = self.request.form
workflow = getToolByName(self.context, 'portal_workflow')
bsc = self.context.bika_setup_catalog
action, came_from = WorkflowAction._get_form_workflow_action(self)
# AR Manage Analyses: save Analyses
ar = self.context
sample = ar.getSample()
objects = WorkflowAction._get_selected_items(self)
if not objects:
message = _("No analyses have been selected")
self.context.plone_utils.addPortalMessage(message, 'info')
self.destination_url = self.context.absolute_url() + "/analyses"
self.request.response.redirect(self.destination_url)
return
Analyses = objects.keys()
prices = form.get("Price", [None])[0]
# Hidden analyses?
# https://jira.bikalabs.com/browse/LIMS-1324
outs = []
hiddenans = form.get('Hidden', {})
for uid in Analyses:
hidden = hiddenans.get(uid, '')
hidden = True if hidden == 'on' else False
outs.append({'uid':uid, 'hidden':hidden})
ar.setAnalysisServicesSettings(outs)
specs = {}
if form.get("min", None):
for service_uid in Analyses:
service = bsc(UID=service_uid)[0].getObject()
keyword = service.getKeyword()
specs[service_uid] = {
"min": form["min"][0][service_uid],
"max": form["max"][0][service_uid],
"error": form["error"][0][service_uid],
"keyword": keyword,
"uid": service_uid,
}
else:
for service_uid in Analyses:
service = bsc(UID=service_uid)[0].getObject()
keyword = service.getKeyword()
specs[service_uid] = {"min": "", "max": "", "error": "",
"keyword": keyword, "uid": service_uid}
new = ar.setAnalyses(Analyses, prices=prices, specs=specs.values())
# link analyses and partitions
# If Bika Setup > Analyses > 'Display individual sample
# partitions' is checked, no Partitions available.
# https://github.com/bikalabs/Bika-LIMS/issues/1030
if 'Partition' in form:
for service_uid, service in objects.items():
part_id = form['Partition'][0][service_uid]
part = sample[part_id]
analysis = ar[service.getKeyword()]
analysis.setSamplePartition(part)
analysis.reindexObject()
if new:
for analysis in new:
# if the AR has progressed past sample_received, we need to bring it back.
ar_state = workflow.getInfoFor(ar, 'review_state')
if ar_state in ('attachment_due', 'to_be_verified'):
# Apply to AR only; we don't want this transition to cascade.
ar.REQUEST['workflow_skiplist'].append("retract all analyses")
workflow.doActionFor(ar, 'retract')
ar.REQUEST['workflow_skiplist'].remove("retract all analyses")
ar_state = workflow.getInfoFor(ar, 'review_state')
# Then we need to forward new analyses state
analysis.updateDueDate()
changeWorkflowState(analysis, 'bika_analysis_workflow', ar_state)
message = PMF("Changes saved.")
self.context.plone_utils.addPortalMessage(message, 'info')
self.destination_url = self.context.absolute_url()
self.request.response.redirect(self.destination_url)
def cloneAR(self, ar):
newar = _createObjectByType("AnalysisRequest", ar.aq_parent, tmpID())
newar.title = ar.title
newar.description = ar.description
newar.setContact(ar.getContact())
newar.setCCContact(ar.getCCContact())
newar.setCCEmails(ar.getCCEmails())
newar.setBatch(ar.getBatch())
newar.setTemplate(ar.getTemplate())
newar.setProfile(ar.getProfile())
newar.setSamplingDate(ar.getSamplingDate())
newar.setSampleType(ar.getSampleType())
newar.setSamplePoint(ar.getSamplePoint())
newar.setStorageLocation(ar.getStorageLocation())
newar.setSamplingDeviation(ar.getSamplingDeviation())
newar.setPriority(ar.getPriority())
newar.setSampleCondition(ar.getSampleCondition())
newar.setSample(ar.getSample())
newar.setClientOrderNumber(ar.getClientOrderNumber())
newar.setClientReference(ar.getClientReference())
newar.setClientSampleID(ar.getClientSampleID())
newar.setDefaultContainerType(ar.getDefaultContainerType())
newar.setAdHoc(ar.getAdHoc())
newar.setComposite(ar.getComposite())
newar.setReportDryMatter(ar.getReportDryMatter())
newar.setInvoiceExclude(ar.getInvoiceExclude())
newar.setAttachment(ar.getAttachment())
newar.setInvoice(ar.getInvoice())
newar.setDateReceived(ar.getDateReceived())
newar.setMemberDiscount(ar.getMemberDiscount())
# Set the results for each AR analysis
ans = ar.getAnalyses(full_objects=True)
for an in ans:
nan = _createObjectByType("Analysis", newar, an.getKeyword())
nan.setService(an.getService())
nan.setCalculation(an.getCalculation())
nan.setInterimFields(an.getInterimFields())
nan.setResult(an.getResult())
nan.setResultDM(an.getResultDM())
nan.setRetested = False,
nan.setMaxTimeAllowed(an.getMaxTimeAllowed())
nan.setDueDate(an.getDueDate())
nan.setDuration(an.getDuration())
nan.setReportDryMatter(an.getReportDryMatter())
nan.setAnalyst(an.getAnalyst())
nan.setInstrument(an.getInstrument())
nan.setSamplePartition(an.getSamplePartition())
nan.unmarkCreationFlag()
notify(ObjectInitializedEvent(nan))
changeWorkflowState(nan, 'bika_analysis_workflow',
'to_be_verified')
nan.reindexObject()
newar.reindexObject()
newar.aq_parent.reindexObject()
renameAfterCreation(newar)
newar.setRequestID(newar.getId())
if hasattr(ar, 'setChildAnalysisRequest'):
ar.setChildAnalysisRequest(newar)
newar.setParentAnalysisRequest(ar)
return newar
def workflow_action_retract_ar(self):
workflow = getToolByName(self.context, 'portal_workflow')
# AR should be retracted
# Can't transition inactive ARs
if not isActive(self.context):
message = _('Item is inactive.')
self.context.plone_utils.addPortalMessage(message, 'info')
self.request.response.redirect(self.context.absolute_url())
return
# 1. Copies the AR linking the original one and viceversa
ar = self.context
newar = self.cloneAR(ar)
# 2. The old AR gets a status of 'invalid'
workflow.doActionFor(ar, 'retract_ar')
# 3. The new AR copy opens in status 'to be verified'
changeWorkflowState(newar, 'bika_ar_workflow', 'to_be_verified')
# 4. The system immediately alerts the client contacts who ordered
# the results, per email and SMS, that a possible mistake has been
# picked up and is under investigation.
# A much possible information is provided in the email, linking
# to the AR online.
laboratory = self.context.bika_setup.laboratory
lab_address = "<br/>".join(laboratory.getPrintAddress())
mime_msg = MIMEMultipart('related')
mime_msg['Subject'] = t(_("Erroneus result publication from ${request_id}",
mapping={"request_id": ar.getRequestID()}))
mime_msg['From'] = formataddr(
(encode_header(laboratory.getName()),
laboratory.getEmailAddress()))
to = []
contact = ar.getContact()
if contact:
to.append(formataddr((encode_header(contact.Title()),
contact.getEmailAddress())))
for cc in ar.getCCContact():
formatted = formataddr((encode_header(cc.Title()),
cc.getEmailAddress()))
if formatted not in to:
to.append(formatted)
managers = self.context.portal_groups.getGroupMembers('LabManagers')
for bcc in managers:
user = self.portal.acl_users.getUser(bcc)
if user:
uemail = user.getProperty('email')
ufull = user.getProperty('fullname')
formatted = formataddr((encode_header(ufull), uemail))
if formatted not in to:
to.append(formatted)
mime_msg['To'] = ','.join(to)
aranchor = "<a href='%s'>%s</a>" % (ar.absolute_url(),
ar.getRequestID())
naranchor = "<a href='%s'>%s</a>" % (newar.absolute_url(),
newar.getRequestID())
addremarks = ('addremarks' in self.request
and ar.getRemarks()) \
and ("<br/><br/>"
+ _("Additional remarks:")
+ "<br/>"
+ ar.getRemarks().split("===")[1].strip()
+ "<br/><br/>") \
or ''
sub_d = dict(request_link=aranchor,
new_request_link=naranchor,
remarks=addremarks,
lab_address=lab_address)
body = Template("Some errors have been detected in the results report "
"published from the Analysis Request $request_link. The Analysis "
"Request $new_request_link has been created automatically and the "
"previous has been invalidated.<br/>The possible mistake "
"has been picked up and is under investigation.<br/><br/>"
"$remarks $lab_address").safe_substitute(sub_d)
msg_txt = MIMEText(safe_unicode(body).encode('utf-8'),
_subtype='html')
mime_msg.preamble = 'This is a multi-part MIME message.'
mime_msg.attach(msg_txt)
try:
host = getToolByName(self.context, 'MailHost')
host.send(mime_msg.as_string(), immediate=True)
except Exception as msg:
message = _('Unable to send an email to alert lab '
'client contacts that the Analysis Request has been '
'retracted: ${error}',
mapping={'error': safe_unicode(msg)})
self.context.plone_utils.addPortalMessage(message, 'warning')
message = _('${items} invalidated.',
mapping={'items': ar.getRequestID()})
self.context.plone_utils.addPortalMessage(message, 'warning')
self.request.response.redirect(newar.absolute_url())
def workflow_action_save_analyses_button(self):
form = self.request.form
workflow = getToolByName(self.context, 'portal_workflow')
bsc = self.context.bika_setup_catalog
action, came_from = WorkflowAction._get_form_workflow_action(self)
# AR Manage Analyses: save Analyses
ar = self.context
sample = ar.getSample()
objects = WorkflowAction._get_selected_items(self)
if not objects:
message = _("No analyses have been selected")
self.context.plone_utils.addPortalMessage(message, 'info')
self.destination_url = self.context.absolute_url() + "/analyses"
self.request.response.redirect(self.destination_url)
return
Analyses = objects.keys()
prices = form.get("Price", [None])[0]
# Hidden analyses?
# https://jira.bikalabs.com/browse/LIMS-1324
outs = []
hiddenans = form.get('Hidden', {})
for uid in Analyses:
hidden = hiddenans.get(uid, '')
hidden = True if hidden == 'on' else False
outs.append({'uid': uid, 'hidden': hidden})
ar.setAnalysisServicesSettings(outs)
specs = {}
if form.get("min", None):
for service_uid in Analyses:
service = bsc(UID=service_uid)[0].getObject()
keyword = service.getKeyword()
specs[service_uid] = {
"min": form["min"][0][service_uid],
"max": form["max"][0][service_uid],
"error": form["error"][0][service_uid],
"keyword": keyword,
"uid": service_uid,
}
else:
for service_uid in Analyses:
service = bsc(UID=service_uid)[0].getObject()
keyword = service.getKeyword()
specs[service_uid] = {
"min": "",
"max": "",
"error": "",
"keyword": keyword,
"uid": service_uid
}
new = ar.setAnalyses(Analyses, prices=prices, specs=specs.values())
# link analyses and partitions
# If Bika Setup > Analyses > 'Display individual sample
# partitions' is checked, no Partitions available.
# https://github.com/bikalabs/Bika-LIMS/issues/1030
if 'Partition' in form:
for service_uid, service in objects.items():
part_id = form['Partition'][0][service_uid]
part = sample[part_id]
analysis = ar[service.getKeyword()]
analysis.setSamplePartition(part)
analysis.reindexObject()
if new:
for analysis in new:
# if the AR has progressed past sample_received, we need to bring it back.
ar_state = workflow.getInfoFor(ar, 'review_state')
if ar_state in ('attachment_due', 'to_be_verified'):
# Apply to AR only; we don't want this transition to cascade.
ar.REQUEST['workflow_skiplist'].append(
"retract all analyses")
workflow.doActionFor(ar, 'retract')
ar.REQUEST['workflow_skiplist'].remove(
"retract all analyses")
ar_state = workflow.getInfoFor(ar, 'review_state')
# Then we need to forward new analyses state
analysis.updateDueDate()
changeWorkflowState(analysis, 'bika_analysis_workflow',
ar_state)
message = PMF("Changes saved.")
self.context.plone_utils.addPortalMessage(message, 'info')
self.destination_url = self.context.absolute_url()
self.request.response.redirect(self.destination_url)
def cloneAR(self, ar):
newar = _createObjectByType("AnalysisRequest", ar.aq_parent, tmpID())
newar.title = ar.title
newar.description = ar.description
newar.setContact(ar.getContact())
newar.setCCContact(ar.getCCContact())
newar.setCCEmails(ar.getCCEmails())
newar.setBatch(ar.getBatch())
newar.setTemplate(ar.getTemplate())
newar.setProfile(ar.getProfile())
newar.setSamplingDate(ar.getSamplingDate())
newar.setSampleType(ar.getSampleType())
newar.setSamplePoint(ar.getSamplePoint())
newar.setStorageLocation(ar.getStorageLocation())
newar.setSamplingDeviation(ar.getSamplingDeviation())
newar.setPriority(ar.getPriority())
newar.setSampleCondition(ar.getSampleCondition())
newar.setSample(ar.getSample())
newar.setClientOrderNumber(ar.getClientOrderNumber())
newar.setClientReference(ar.getClientReference())
newar.setClientSampleID(ar.getClientSampleID())
newar.setDefaultContainerType(ar.getDefaultContainerType())
newar.setAdHoc(ar.getAdHoc())
newar.setComposite(ar.getComposite())
newar.setReportDryMatter(ar.getReportDryMatter())
newar.setInvoiceExclude(ar.getInvoiceExclude())
newar.setAttachment(ar.getAttachment())
newar.setInvoice(ar.getInvoice())
newar.setDateReceived(ar.getDateReceived())
newar.setMemberDiscount(ar.getMemberDiscount())
# Set the results for each AR analysis
ans = ar.getAnalyses(full_objects=True)
for an in ans:
nan = _createObjectByType("Analysis", newar, an.getKeyword())
nan.setService(an.getService())
nan.setCalculation(an.getCalculation())
nan.setInterimFields(an.getInterimFields())
nan.setResult(an.getResult())
nan.setResultDM(an.getResultDM())
nan.setRetested = False,
nan.setMaxTimeAllowed(an.getMaxTimeAllowed())
nan.setDueDate(an.getDueDate())
nan.setDuration(an.getDuration())
nan.setReportDryMatter(an.getReportDryMatter())
nan.setAnalyst(an.getAnalyst())
nan.setInstrument(an.getInstrument())
nan.setSamplePartition(an.getSamplePartition())
nan.unmarkCreationFlag()
notify(ObjectInitializedEvent(nan))
changeWorkflowState(nan, 'bika_analysis_workflow',
'to_be_verified')
nan.reindexObject()
newar.reindexObject()
newar.aq_parent.reindexObject()
renameAfterCreation(newar)
newar.setRequestID(newar.getId())
if hasattr(ar, 'setChildAnalysisRequest'):
ar.setChildAnalysisRequest(newar)
newar.setParentAnalysisRequest(ar)
return newar
def workflow_action_retract_ar(self):
workflow = getToolByName(self.context, 'portal_workflow')
# AR should be retracted
# Can't transition inactive ARs
if not isActive(self.context):
message = _('Item is inactive.')
self.context.plone_utils.addPortalMessage(message, 'info')
self.request.response.redirect(self.context.absolute_url())
return
# 1. Copies the AR linking the original one and viceversa
ar = self.context
newar = self.cloneAR(ar)
# 2. The old AR gets a status of 'invalid'
workflow.doActionFor(ar, 'retract_ar')
# 3. The new AR copy opens in status 'to be verified'
changeWorkflowState(newar, 'bika_ar_workflow', 'to_be_verified')
# 4. The system immediately alerts the client contacts who ordered
# the results, per email and SMS, that a possible mistake has been
# picked up and is under investigation.
# A much possible information is provided in the email, linking
# to the AR online.
laboratory = self.context.bika_setup.laboratory
lab_address = "<br/>".join(laboratory.getPrintAddress())
mime_msg = MIMEMultipart('related')
mime_msg['Subject'] = t(
_("Erroneus result publication from ${request_id}",
mapping={"request_id": ar.getRequestID()}))
mime_msg['From'] = formataddr((encode_header(laboratory.getName()),
laboratory.getEmailAddress()))
to = []
contact = ar.getContact()
if contact:
to.append(
formataddr((encode_header(contact.Title()),
contact.getEmailAddress())))
for cc in ar.getCCContact():
formatted = formataddr(
(encode_header(cc.Title()), cc.getEmailAddress()))
if formatted not in to:
to.append(formatted)
managers = self.context.portal_groups.getGroupMembers('LabManagers')
for bcc in managers:
user = self.portal.acl_users.getUser(bcc)
if user:
uemail = user.getProperty('email')
ufull = user.getProperty('fullname')
formatted = formataddr((encode_header(ufull), uemail))
if formatted not in to:
to.append(formatted)
mime_msg['To'] = ','.join(to)
aranchor = "<a href='%s'>%s</a>" % (ar.absolute_url(),
ar.getRequestID())
naranchor = "<a href='%s'>%s</a>" % (newar.absolute_url(),
newar.getRequestID())
addremarks = ('addremarks' in self.request
and ar.getRemarks()) \
and ("<br/><br/>"
+ _("Additional remarks:")
+ "<br/>"
+ ar.getRemarks().split("===")[1].strip()
+ "<br/><br/>") \
or ''
sub_d = dict(request_link=aranchor,
new_request_link=naranchor,
remarks=addremarks,
lab_address=lab_address)
body = Template(
"Some errors have been detected in the results report "
"published from the Analysis Request $request_link. The Analysis "
"Request $new_request_link has been created automatically and the "
"previous has been invalidated.<br/>The possible mistake "
"has been picked up and is under investigation.<br/><br/>"
"$remarks $lab_address").safe_substitute(sub_d)
msg_txt = MIMEText(safe_unicode(body).encode('utf-8'), _subtype='html')
mime_msg.preamble = 'This is a multi-part MIME message.'
mime_msg.attach(msg_txt)
try:
host = getToolByName(self.context, 'MailHost')
host.send(mime_msg.as_string(), immediate=True)
except Exception as msg:
message = _(
'Unable to send an email to alert lab '
'client contacts that the Analysis Request has been '
'retracted: ${error}',
mapping={'error': safe_unicode(msg)})
self.context.plone_utils.addPortalMessage(message, 'warning')
message = _('${items} invalidated.',
mapping={'items': ar.getRequestID()})
self.context.plone_utils.addPortalMessage(message, 'warning')
self.request.response.redirect(newar.absolute_url())
def workflow_script_reject(self):
"""Copy real analyses to RejectAnalysis, with link to real
create a new worksheet, with the original analyses, and new
duplicates and references to match the rejected
worksheet.
"""
if skip(self, "reject"):
return
utils = getToolByName(self, 'plone_utils')
workflow = self.portal_workflow
def copy_src_fields_to_dst(src, dst):
# These will be ignored when copying field values between analyses
ignore_fields = ['UID',
'id',
'title',
'allowDiscussion',
'subject',
'description',
'location',
'contributors',
'creators',
'effectiveDate',
'expirationDate',
'language',
'rights',
'creation_date',
'modification_date',
'Layout', # ws
'Analyses', # ws
]
fields = src.Schema().fields()
for field in fields:
fieldname = field.getName()
if fieldname in ignore_fields:
continue
getter = getattr(src, 'get'+fieldname,
src.Schema().getField(fieldname).getAccessor(src))
setter = getattr(dst, 'set'+fieldname,
dst.Schema().getField(fieldname).getMutator(dst))
if getter is None or setter is None:
# ComputedField
continue
setter(getter())
analysis_positions = {}
for item in self.getLayout():
analysis_positions[item['analysis_uid']] = item['position']
old_layout = []
new_layout = []
# New worksheet
worksheets = self.aq_parent
new_ws = _createObjectByType('Worksheet', worksheets, tmpID())
new_ws.unmarkCreationFlag()
new_ws_id = renameAfterCreation(new_ws)
copy_src_fields_to_dst(self, new_ws)
new_ws.edit(
Number = new_ws_id,
Remarks = self.getRemarks()
)
# Objects are being created inside other contexts, but we want their
# workflow handlers to be aware of which worksheet this is occurring in.
# We save the worksheet in request['context_uid'].
# We reset it again below.... be very sure that this is set to the
# UID of the containing worksheet before invoking any transitions on
# analyses.
self.REQUEST['context_uid'] = new_ws.UID()
# loop all analyses
analyses = self.getAnalyses()
new_ws_analyses = []
old_ws_analyses = []
for analysis in analyses:
# Skip published or verified analyses
review_state = workflow.getInfoFor(analysis, 'review_state', '')
if review_state in ['published', 'verified', 'retracted']:
old_ws_analyses.append(analysis.UID())
old_layout.append({'position': position,
'type':'a',
'analysis_uid':analysis.UID(),
'container_uid':analysis.aq_parent.UID()})
continue
# Normal analyses:
# - Create matching RejectAnalysis inside old WS
# - Link analysis to new WS in same position
# - Copy all field values
# - Clear analysis result, and set Retested flag
if analysis.portal_type == 'Analysis':
reject = _createObjectByType('RejectAnalysis', self, tmpID())
reject.unmarkCreationFlag()
reject_id = renameAfterCreation(reject)
copy_src_fields_to_dst(analysis, reject)
reject.setAnalysis(analysis)
reject.reindexObject()
analysis.edit(
Result = None,
Retested = True,
)
analysis.reindexObject()
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(reject.UID())
old_layout.append({'position': position,
'type':'r',
'analysis_uid':reject.UID(),
'container_uid':self.UID()})
new_ws_analyses.append(analysis.UID())
new_layout.append({'position': position,
'type':'a',
'analysis_uid':analysis.UID(),
'container_uid':analysis.aq_parent.UID()})
# Reference analyses
# - Create a new reference analysis in the new worksheet
# - Transition the original analysis to 'rejected' state
if analysis.portal_type == 'ReferenceAnalysis':
service_uid = analysis.getService().UID()
reference = analysis.aq_parent
reference_type = analysis.getReferenceType()
new_analysis_uid = reference.addReferenceAnalysis(service_uid,
reference_type)
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(analysis.UID())
old_layout.append({'position': position,
'type':reference_type,
'analysis_uid':analysis.UID(),
'container_uid':reference.UID()})
new_ws_analyses.append(new_analysis_uid)
new_layout.append({'position': position,
'type':reference_type,
'analysis_uid':new_analysis_uid,
'container_uid':reference.UID()})
workflow.doActionFor(analysis, 'reject')
new_reference = reference.uid_catalog(UID=new_analysis_uid)[0].getObject()
workflow.doActionFor(new_reference, 'assign')
analysis.reindexObject()
# Duplicate analyses
# - Create a new duplicate inside the new worksheet
# - Transition the original analysis to 'rejected' state
if analysis.portal_type == 'DuplicateAnalysis':
src_analysis = analysis.getAnalysis()
ar = src_analysis.aq_parent
service = src_analysis.getService()
duplicate_id = new_ws.generateUniqueId('DuplicateAnalysis')
new_duplicate = _createObjectByType('DuplicateAnalysis',
new_ws, duplicate_id)
new_duplicate.unmarkCreationFlag()
copy_src_fields_to_dst(analysis, new_duplicate)
workflow.doActionFor(new_duplicate, 'assign')
new_duplicate.reindexObject()
position = analysis_positions[analysis.UID()]
old_ws_analyses.append(analysis.UID())
old_layout.append({'position': position,
'type':'d',
'analysis_uid':analysis.UID(),
'container_uid':self.UID()})
new_ws_analyses.append(new_duplicate.UID())
new_layout.append({'position': position,
'type':'d',
'analysis_uid':new_duplicate.UID(),
'container_uid':new_ws.UID()})
workflow.doActionFor(analysis, 'reject')
analysis.reindexObject()
new_ws.setAnalyses(new_ws_analyses)
new_ws.setLayout(new_layout)
new_ws.replaces_rejected_worksheet = self.UID()
for analysis in new_ws.getAnalyses():
review_state = workflow.getInfoFor(analysis, 'review_state', '')
if review_state == 'to_be_verified':
changeWorkflowState(analysis, "bika_analysis_workflow", "sample_received")
self.REQUEST['context_uid'] = self.UID()
self.setLayout(old_layout)
self.setAnalyses(old_ws_analyses)
self.replaced_by = new_ws.UID()
