def select_praxis_branch(parent=None): branches = gmPraxis.get_praxis_branches() if len(branches) == 0: if not set_active_praxis_branch(parent = parent, no_parent = False): return None
def select_praxis_branch(parent=None):
branches = gmPraxis.get_praxis_branches()
if len(branches) == 0:
if not set_active_praxis_branch(parent=parent, no_parent=False):
return None
def refresh(lctrl):
branches = gmPraxis.get_praxis_branches()
items = [[b['branch'],
gmTools.coalesce(b['l10n_unit_category'], u'')]
for b in branches]
lctrl.set_string_items(items=items)
lctrl.set_data(data=branches)
def test_get_scan2pay_data():
prax = gmPraxis.get_praxis_branches()[0]
bills = get_bills(pk_patient=12)
print(
get_scan2pay_data(prax,
bills[0],
provider=None,
comment='GNUmed test harness' + ('x' * 400)))
def refresh(lctrl): branches = gmPraxis.get_praxis_branches() items = [ [ b['branch'], gmTools.coalesce(b['l10n_unit_category'], u'') ] for b in branches ] lctrl.set_string_items(items = items) lctrl.set_data(data = branches)
def test_get_scan2pay_data():
prax = gmPraxis.get_praxis_branches()[0]
bills = get_bills(pk_patient = 12)
print(get_scan2pay_data (
prax,
bills[0],
provider=None,
comment = 'GNUmed test harness' + ('x' * 400)
))
def refresh(lctrl):
branches = gmPraxis.get_praxis_branches()
items = [[b['branch'],
gmTools.coalesce(b['l10n_unit_category'], '')]
for b in branches]
lctrl.set_string_items(items=items)
lctrl.set_data(data=branches)
if most_recent_branch is not None:
for idx in range(len(branches)):
if branches[idx].format(one_line=True) == most_recent_branch:
lctrl.selections = [idx]
break
def test_clin_calc():
from Gnumed.business import gmPraxis
branches = gmPraxis.get_praxis_branches()
praxis = gmPraxis.gmCurrentPraxisBranch(branches[0])
from Gnumed.business.gmPerson import cPatient
pat = cPatient(aPK_obj = 201)
calc = cClinicalCalculator(patient = pat)
#result = calc.eGFR_MDRD_short
#result = calc.eGFR_Schwartz
result = calc.eGFR
#result = calc.body_surface_area
#result = calc.get_EDC(lmp = gmDateTime.pydt_now_here())
#result = calc.body_mass_index
#result = calc.eGFRs
print('%s' % result.format(with_formula = True, with_warnings = True, with_variables = True, with_sub_results = True))
def __populate_candidates_list(self):
list_items = [[_('Patient'), self.__patient['description_gender'].strip()]]
list_data = [(self.__patient['description'].strip(), self.__patient.get_addresses(), '', None)]
candidate_type = _('Emergency contact')
if self.__patient['emergency_contact'] is not None:
name = self.__patient['emergency_contact'].strip()
list_items.append([candidate_type, name])
list_data.append((name, [], '', None))
contact = self.__patient.emergency_contact_in_database
if contact is not None:
list_items.append([candidate_type, contact['description_gender']])
list_data.append((contact['description'].strip(), contact.get_addresses(), '', None))
candidate_type = _('Primary doctor')
prov = self.__patient.primary_provider
if prov is not None:
ident = prov.identity
list_items.append([candidate_type, '%s: %s' % (prov['short_alias'], ident['description_gender'])])
list_data.append((ident['description'].strip(), ident.get_addresses(), _('in-praxis primary provider'), None))
candidate_type = _('This praxis')
branches = gmPraxis.get_praxis_branches(order_by = 'branch')
for branch in branches:
adr = branch.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (branch['branch'], branch['praxis'])])
list_data.append(('%s @ %s' % (branch['branch'], branch['praxis']), [adr], branch.format(), None))
del branches
candidate_type = _('External care')
cares = gmExternalCare.get_external_care_items(pk_identity = self.__patient.ID)
for care in cares:
details = '%s%s@%s (%s)' % (
gmTools.coalesce(care['provider'], '', '%s: '),
care['unit'],
care['organization'],
care['issue']
)
name = ('%s%s' % (
gmTools.coalesce(care['provider'], '', '%s, '),
'%s @ %s' % (care['unit'], care['organization'])
)).strip()
org_unit = care.org_unit
adr = org_unit.address
if adr is None:
addresses = []
else:
addresses = [adr]
list_items.append([candidate_type, details])
tt = '\n'.join(care.format(with_health_issue = True, with_address = True, with_comms = True))
list_data.append((name, addresses, tt, org_unit))
del cares
emr = self.__patient.emr
candidate_type = _('Hospital stay')
depts = emr.get_attended_hospitals_as_org_units()
for dept in depts:
adr = dept.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (dept['unit'], dept['organization'])])
list_data.append(('%s @ %s' % (dept['unit'], dept['organization']), [adr], '\n'.join(dept.format(with_comms = True)), dept))
del depts
candidate_type = _('Procedure')
proc_locs = emr.get_procedure_locations_as_org_units()
for proc_loc in proc_locs:
adr = proc_loc.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (proc_loc['unit'], proc_loc['organization'])])
list_data.append(('%s @ %s' % (proc_loc['unit'], proc_loc['organization']), [adr], '\n'.join(proc_loc.format(with_comms = True)), proc_loc))
del proc_locs
candidate_type = _('Lab')
labs = emr.get_labs_as_org_units()
for lab in labs:
adr = lab.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (lab['unit'], lab['organization'])])
list_data.append(('%s @ %s' % (lab['unit'], lab['organization']), [adr], '\n'.join(lab.format(with_comms = True)), lab))
del labs
candidate_type = _('Bill receiver')
bills = self.__patient.bills
adrs_seen = []
for bill in bills:
if bill['pk_receiver_address'] in adrs_seen:
continue
adr = bill.address
if adr is None:
continue
adrs_seen.append(bill['pk_receiver_address'])
details = '%s%s' % (bill['invoice_id'], gmDateTime.pydt_strftime(dt = bill['close_date'], format = ' (%Y %b %d)', none_str = ''))
list_items.append([candidate_type, details])
list_data.append(('', [adr], '\n'.join(adr.format()), None))
candidate_type = _('Document')
doc_folder = self.__patient.document_folder
doc_units = doc_folder.all_document_org_units
for doc_unit in doc_units:
adr = doc_unit.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (doc_unit['unit'], doc_unit['organization'])])
list_data.append(('%s @ %s' % (doc_unit['unit'], doc_unit['organization']), [adr], '\n'.join(doc_unit.format(with_comms = True)), doc_unit))
del doc_units
self._LCTRL_candidates.set_string_items(list_items)
self._LCTRL_candidates.set_column_widths()
self._LCTRL_candidates.set_data(list_data)
def __populate_candidates_list(self):
list_items = [[_('Patient'), self.__patient.description_gender.strip()]]
list_data = [(self.__patient.description.strip(), self.__patient.get_addresses(), '', None)]
candidate_type = _('Emergency contact')
if self.__patient['emergency_contact'] is not None:
name = self.__patient['emergency_contact'].strip()
list_items.append([candidate_type, name])
list_data.append((name, [], '', None))
contact = self.__patient.emergency_contact_in_database
if contact is not None:
list_items.append([candidate_type, contact.description_gender])
list_data.append((contact.description.strip(), contact.get_addresses(), '', None))
candidate_type = _('Primary doctor')
prov = self.__patient.primary_provider
if prov is not None:
ident = prov.identity
list_items.append([candidate_type, '%s: %s' % (prov['short_alias'], ident.description_gender)])
list_data.append((ident.description.strip(), ident.get_addresses(), _('in-praxis primary provider'), None))
candidate_type = _('This praxis')
branches = gmPraxis.get_praxis_branches(order_by = 'branch')
for branch in branches:
adr = branch.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (branch['branch'], branch['praxis'])])
list_data.append(('%s @ %s' % (branch['branch'], branch['praxis']), [adr], branch.format(), None))
del branches
candidate_type = _('External care')
cares = gmExternalCare.get_external_care_items(pk_identity = self.__patient.ID)
for care in cares:
details = '%s%s@%s (%s)' % (
gmTools.coalesce(care['provider'], '', '%s: '),
care['unit'],
care['organization'],
care['issue']
)
name = ('%s%s' % (
gmTools.coalesce(care['provider'], '', '%s, '),
'%s @ %s' % (care['unit'], care['organization'])
)).strip()
org_unit = care.org_unit
adr = org_unit.address
if adr is None:
addresses = []
else:
addresses = [adr]
list_items.append([candidate_type, details])
tt = '\n'.join(care.format(with_health_issue = True, with_address = True, with_comms = True))
list_data.append((name, addresses, tt, org_unit))
del cares
emr = self.__patient.emr
candidate_type = _('Hospital stay')
depts = emr.get_attended_hospitals_as_org_units()
for dept in depts:
adr = dept.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (dept['unit'], dept['organization'])])
list_data.append(('%s @ %s' % (dept['unit'], dept['organization']), [adr], '\n'.join(dept.format(with_comms = True)), dept))
del depts
candidate_type = _('Procedure')
proc_locs = emr.get_procedure_locations_as_org_units()
for proc_loc in proc_locs:
adr = proc_loc.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (proc_loc['unit'], proc_loc['organization'])])
list_data.append(('%s @ %s' % (proc_loc['unit'], proc_loc['organization']), [adr], '\n'.join(proc_loc.format(with_comms = True)), proc_loc))
del proc_locs
candidate_type = _('Lab')
labs = emr.get_labs_as_org_units()
for lab in labs:
adr = lab.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (lab['unit'], lab['organization'])])
list_data.append(('%s @ %s' % (lab['unit'], lab['organization']), [adr], '\n'.join(lab.format(with_comms = True)), lab))
del labs
candidate_type = _('Bill receiver')
bills = self.__patient.bills
adrs_seen = []
for bill in bills:
if bill['pk_receiver_address'] in adrs_seen:
continue
adr = bill.address
if adr is None:
continue
adrs_seen.append(bill['pk_receiver_address'])
details = '%s%s' % (bill['invoice_id'], gmDateTime.pydt_strftime(dt = bill['close_date'], format = ' (%Y %b %d)', none_str = ''))
list_items.append([candidate_type, details])
list_data.append(('', [adr], '\n'.join(adr.format()), None))
candidate_type = _('Document')
doc_folder = self.__patient.document_folder
doc_units = doc_folder.all_document_org_units
for doc_unit in doc_units:
adr = doc_unit.address
if adr is None:
continue
list_items.append([candidate_type, '%s @ %s' % (doc_unit['unit'], doc_unit['organization'])])
list_data.append(('%s @ %s' % (doc_unit['unit'], doc_unit['organization']), [adr], '\n'.join(doc_unit.format(with_comms = True)), doc_unit))
del doc_units
self._LCTRL_candidates.set_string_items(list_items)
self._LCTRL_candidates.set_column_widths()
self._LCTRL_candidates.set_data(list_data)
def run_tool():
tool = _cfg.get(option='--tool', source_order=[('cli', 'return')])
if tool is None:
# not running a tool
return None
if tool not in _known_tools:
_log.error('unknown tool requested: %s', tool)
print('GNUmed startup: Unknown tool [%s] requested.' % tool)
print('GNUmed startup: Known tools: %s' % _known_tools)
return -1
print('')
print('==============================================')
print('Running tool: %s' % tool)
print('----------------------------------------------')
print('')
if tool == 'check_enc_epi_xref':
from Gnumed.business import gmEMRStructItems
return gmEMRStructItems.check_fk_encounter_fk_episode_x_ref()
if tool == 'export_pat_emr_structure':
# setup praxis
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(
branch=gmPraxis.get_praxis_branches()[0])
# get patient
from Gnumed.business import gmPersonSearch
pat = gmPersonSearch.ask_for_patient()
# setup exporters
from Gnumed.business import gmEMRStructItems
from Gnumed.exporters import gmTimelineExporter
from Gnumed.exporters import gmPatientExporter
while pat is not None:
print('patient:', pat['description_gender'])
# as EMR structure
fname = os.path.expanduser('~/gnumed/gm-emr_structure-%s.txt' %
pat.subdir_name)
print(
'EMR structure:',
gmEMRStructItems.export_emr_structure(patient=pat,
filename=fname))
# as timeline
fname = os.path.expanduser('~/gnumed/gm-emr-%s.timeline' %
pat.subdir_name)
try:
print(
'EMR timeline:',
gmTimelineExporter.create_timeline_file(
patient=pat,
filename=fname,
include_documents=True,
include_vaccinations=True,
include_encounters=True))
finally:
pass
# as journal by encounter
exporter = gmPatientExporter.cEMRJournalExporter()
fname = os.path.expanduser(
'~/gnumed/gm-emr-journal_by_encounter-%s.txt' %
pat.subdir_name)
print(
'EMR journal (by encounter):',
exporter.save_to_file_by_encounter(patient=pat,
filename=fname))
# as journal by mod time
fname = os.path.expanduser(
'~/gnumed/gm-emr-journal_by_mod_time-%s.txt' % pat.subdir_name)
print(
'EMR journal (by mod time):',
exporter.save_to_file_by_mod_time(patient=pat, filename=fname))
# as statistical summary
fname = os.path.expanduser('~/gnumed/gm-emr-statistics-%s.txt' %
pat.subdir_name)
output_file = io.open(fname,
mode='wt',
encoding='utf8',
errors='replace')
emr = pat.emr
output_file.write(emr.format_statistics())
output_file.close()
print('EMR statistics:', fname)
# as text file
exporter = gmPatientExporter.cEmrExport(patient=pat)
fname = os.path.expanduser('~/gnumed/gm-emr-text_export-%s.txt' %
pat.subdir_name)
output_file = io.open(fname,
mode='wt',
encoding='utf8',
errors='replace')
exporter.set_output_file(output_file)
exporter.dump_constraints()
exporter.dump_demographic_record(True)
exporter.dump_clinical_record()
exporter.dump_med_docs()
output_file.close()
print('EMR text file:', fname)
# another patient ?
pat = gmPersonSearch.ask_for_patient()
return 0
# tool export_patient_as (vcf, gdt, ...)
#if tool == 'export_pat_demographics':
# should not happen (because checked against _known_tools)
return -1
def test_import_HL7(filename): # would normally be set by external configuration: from Gnumed.business import gmPraxis gmPraxis.gmCurrentPraxisBranch(branch = gmPraxis.get_praxis_branches()[0]) if not import_hl7_file(filename): print "error with", filename
#============================================================
# main
#------------------------------------------------------------
if __name__ == '__main__':
if len(sys.argv) < 2:
sys.exit()
if sys.argv[1] != "test":
sys.exit()
gmI18N.activate_locale()
gmI18N.install_domain('gnumed')
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(branch = gmPraxis.get_praxis_branches()[0])
from Gnumed.business import gmPerson
# 14 / 20 / 138 / 58 / 20 / 5
pat = gmPerson.gmCurrentPatient(gmPerson.cPatient(aPK_obj = 14))
fname = '~/gnumed/gm2tl-%s.timeline' % pat.subdir_name
print (create_timeline_file (
patient = pat,
filename = os.path.expanduser(fname),
include_documents = True,
include_vaccinations = True,
include_encounters = True
))
def run_tool():
"""Run a console tool.
Exit codes as per man page:
0: normal termination of the client
< 0: some error occurred while trying to run a console tool
-1: an unknown console tool was requested
< -1: an error occurred while a console tool was run
-999: hard abort of the client
One of these needs to be returned from this function (and,
by extension from the tool having been run, if any).
"""
tool = _cfg.get(option='--tool', source_order=[('cli', 'return')])
if tool is None:
# not running a tool
return None
if tool not in _known_tools:
_log.error('unknown tool requested: %s', tool)
print('GNUmed startup: Unknown tool [%s] requested.' % tool)
print('GNUmed startup: Known tools: %s' % _known_tools)
return -1
print('')
print('==============================================')
print('Running tool: %s' % tool)
print('----------------------------------------------')
print('')
if tool == 'generate_man_page':
man_page_fname = os.path.abspath(os.path.join('.', 'gnumed.1'))
man_page_file = open(man_page_fname, mode='wt', encoding='utf8')
man_page_file.write(__doc__ % datetime.date.today().strftime('%x'))
man_page_file.close()
print('MAN page saved as:', man_page_fname)
return 0
login, creds = gmPG2.request_login_params()
pool = gmConnectionPool.gmConnectionPool()
pool.credentials = creds
print('')
if tool == 'read_all_rows_of_table':
result = gmPG2.read_all_rows_of_table()
if result in [None, True]:
print('Success.')
return 0
print('Failed. Check the log for details.')
return -2
if tool == 'check_mimetypes_in_archive':
from Gnumed.business import gmDocuments
return gmDocuments.check_mimetypes_in_archive()
if tool == 'check_enc_epi_xref':
from Gnumed.business import gmEMRStructItems
return gmEMRStructItems.check_fk_encounter_fk_episode_x_ref()
if tool == 'fingerprint_db':
fname = 'db-fingerprint.txt'
result = gmPG2.get_db_fingerprint(fname=fname, with_dump=True)
if result == fname:
print('Success: %s' % fname)
return 0
print('Failed. Check the log for details.')
return -2
if tool == 'export_pat_emr_structure':
# setup praxis
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(
branch=gmPraxis.get_praxis_branches()[0])
# get patient
from Gnumed.business import gmPersonSearch
pat = gmPersonSearch.ask_for_patient()
# setup exporters
from Gnumed.business import gmEMRStructItems
from Gnumed.exporters import gmTimelineExporter
from Gnumed.exporters import gmPatientExporter
while pat is not None:
print('patient:', pat.description_gender)
# as EMR structure
fname = os.path.expanduser('~/gnumed/gm-emr_structure-%s.txt' %
pat.subdir_name)
print(
'EMR structure:',
gmEMRStructItems.export_emr_structure(patient=pat,
filename=fname))
# as timeline
fname = os.path.expanduser('~/gnumed/gm-emr-%s.timeline' %
pat.subdir_name)
try:
print(
'EMR timeline:',
gmTimelineExporter.create_timeline_file(
patient=pat,
filename=fname,
include_documents=True,
include_vaccinations=True,
include_encounters=True))
finally:
pass
# as journal by encounter
exporter = gmPatientExporter.cEMRJournalExporter()
fname = os.path.expanduser(
'~/gnumed/gm-emr-journal_by_encounter-%s.txt' %
pat.subdir_name)
print(
'EMR journal (by encounter):',
exporter.save_to_file_by_encounter(patient=pat,
filename=fname))
# as journal by mod time
fname = os.path.expanduser(
'~/gnumed/gm-emr-journal_by_mod_time-%s.txt' % pat.subdir_name)
print(
'EMR journal (by mod time):',
exporter.save_to_file_by_mod_time(patient=pat, filename=fname))
# as statistical summary
fname = os.path.expanduser('~/gnumed/gm-emr-statistics-%s.txt' %
pat.subdir_name)
output_file = open(fname,
mode='wt',
encoding='utf8',
errors='replace')
emr = pat.emr
output_file.write(emr.format_statistics())
output_file.close()
print('EMR statistics:', fname)
# as text file
exporter = gmPatientExporter.cEmrExport(patient=pat)
fname = os.path.expanduser('~/gnumed/gm-emr-text_export-%s.txt' %
pat.subdir_name)
output_file = open(fname,
mode='wt',
encoding='utf8',
errors='replace')
exporter.set_output_file(output_file)
exporter.dump_constraints()
exporter.dump_demographic_record(True)
exporter.dump_clinical_record()
exporter.dump_med_docs()
output_file.close()
print('EMR text file:', fname)
# another patient ?
pat = gmPersonSearch.ask_for_patient()
return 0
# tool export_patient_as (vcf, gdt, ...)
#if tool == 'export_pat_demographics':
# should not happen (because checked against _known_tools)
return -1
def set_active_praxis_branch(parent=None, no_parent=False):
if no_parent:
parent = None
else:
if parent is None:
parent = wx.GetApp().GetTopWindow()
branches = gmPraxis.get_praxis_branches()
if len(branches) == 1:
_log.debug('only one praxis branch configured')
gmPraxis.gmCurrentPraxisBranch(branches[0])
return True
if len(branches) == 0:
orgs = gmOrganization.get_orgs()
if len(orgs) == 0:
pk_cat = gmOrganization.create_org_category(category = u'Praxis')
org = gmOrganization.create_org(_('Your praxis'), pk_cat)
unit = org.add_unit(_('Your branch'))
branch = gmPraxis.create_praxis_branch(pk_org_unit = unit['pk_org_unit'])
_log.debug('auto-created praxis branch because no organizations existed: %s', branch)
gmPraxis.gmCurrentPraxisBranch(branch)
gmGuiHelpers.gm_show_info (
title = _('Praxis configuration ...'),
info = _(
'GNUmed has auto-created the following\n'
'praxis branch for you (which you can\n'
'later configure as needed):\n'
'\n'
'%s'
) % branch.format()
)
return True
if len(orgs) == 1:
units = orgs[0].units
if len(units) == 1:
branch = gmPraxis.create_praxis_branch(pk_org_unit = units[0]['pk_org_unit'])
_log.debug('auto-selected praxis branch because only one organization with only one unit existed: %s', branch)
gmPraxis.gmCurrentPraxisBranch(branch)
gmGuiHelpers.gm_show_info (
title = _('Praxis configuration ...'),
info = _(
'GNUmed has auto-selected the following\n'
'praxis branch for you (which you can\n'
'later configure as needed):\n'
'\n'
'%s'
) % branch.format()
)
return True
_log.debug('no praxis branches configured, selecting from organization units')
msg = _(
'No praxis branches configured currently.\n'
'\n'
'You MUST select one unit of an organization to be the initial\n'
'branch (site, office) which you are logging in from.'
)
unit = gmOrganizationWidgets.select_org_unit(msg = msg, no_parent = True)
if unit is None:
_log.warning('no organization unit selected, aborting')
return False
_log.debug('org unit selected as praxis branch: %s', unit)
branch = gmPraxis.create_praxis_branch(pk_org_unit = unit['pk_org_unit'])
_log.debug('created praxis branch: %s', branch)
gmPraxis.gmCurrentPraxisBranch(branch)
return True
#--------------------
def refresh(lctrl):
branches = gmPraxis.get_praxis_branches()
items = [
[ b['branch'],
gmTools.coalesce(b['l10n_unit_category'], u'')
] for b in branches
]
lctrl.set_string_items(items = items)
lctrl.set_data(data = branches)
#--------------------
branch = gmListWidgets.get_choices_from_list (
parent = parent,
msg = _("Select branch (of praxis [%s]) which you are logging in from.\n") % branches[0]['praxis'],
caption = _('Praxis branch selection ...'),
columns = [_('Branch'), _('Branch type')],
can_return_empty = False,
single_selection = True,
refresh_callback = refresh
)
if branch is None:
_log.warning('no praxis branch selected, aborting')
return False
gmPraxis.gmCurrentPraxisBranch(branch)
return True
def manage_praxis_branches(parent=None):
if parent is None:
parent = wx.GetApp().GetTopWindow()
#---------------------------
def get_unit_tooltip(unit):
if unit is None:
return None
return u'\n'.join(
unit.format(with_address=True, with_org=True, with_comms=True))
#---------------------------
def manage_orgs():
gmOrganizationWidgets.manage_orgs(parent=parent)
#---------------------------
branches = gmPraxis.get_praxis_branches()
org = branches[0].organization
praxis = branches[0]['praxis']
msg = _('Pick those units of "%s" which are branches of your praxis !\n'
'\n'
'Note that no other client should be connected at this time.\n'
'\n'
'If you want to select another organization entirely\n'
'first remove all existing branches.\n') % praxis
picker = gmListWidgets.cItemPickerDlg(parent, -1, msg=msg)
picker.extra_button = (_('Manage units'),
_('Manage organizations and their units'),
manage_orgs)
picker.left_item_tooltip_callback = get_unit_tooltip
picker.right_item_tooltip_callback = get_unit_tooltip
picker.set_columns(columns=[_('Units of "%s"') % praxis],
columns_right=[_('Branches of your praxis')])
units = org.units
branch_unit_pks = [b['pk_org_unit'] for b in branches]
branch_units = []
for unit in units:
if unit['pk_org_unit'] in branch_unit_pks:
branch_units.append(unit)
items = [
u'%s%s' %
(u['unit'], gmTools.coalesce(u['l10n_unit_category'], u'', u' (%s)'))
for u in units
]
picker.set_choices(choices=items, data=units)
items = [
u'%s%s' %
(u['unit'], gmTools.coalesce(u['l10n_unit_category'], u'', u' (%s)'))
for u in branch_units
]
picker.set_picks(picks=items, data=branch_units)
del units
del branch_unit_pks
del branch_units
del items
result = picker.ShowModal()
if result == wx.ID_CANCEL:
picker.Destroy()
return None
picks = picker.picks
picker.Destroy()
failed_delete_msg = _('Cannot delete praxis branch(es).\n'
'\n'
'There are probably clients logged in\n'
'from other locations. You need to log out\n'
'all but this client before the praxis can\n'
'be reconfigured.')
if len(picks) == 0:
if not gmPraxis.delete_praxis_branches():
gmGuiHelpers.gm_show_error(error=failed_delete_msg,
title=_('Configuring praxis ...'))
return False
while not set_active_praxis_branch(parent=parent):
pass
return
pk_picked_units = [p['pk_org_unit'] for p in picks]
pk_branches_to_keep = [
b['pk_praxis_branch'] for b in gmPraxis.get_praxis_branches()
if b['pk_org_unit'] in pk_picked_units
]
if len(pk_branches_to_keep) == 0:
if not gmPraxis.delete_praxis_branches():
gmGuiHelpers.gm_show_error(error=failed_delete_msg,
title=_('Configuring praxis ...'))
return False
else:
if not gmPraxis.delete_praxis_branches(
except_pk_praxis_branches=pk_branches_to_keep):
gmGuiHelpers.gm_show_error(error=failed_delete_msg,
title=_('Configuring praxis ...'))
return False
gmPraxis.create_praxis_branches(pk_org_units=pk_picked_units)
# detect whether active branch in kept branches
if gmPraxis.gmCurrentPraxisBranch(
)['pk_praxis_branch'] in pk_branches_to_keep:
return
while not set_active_praxis_branch(parent=parent):
pass
def set_active_praxis_branch(parent=None, no_parent=False):
if no_parent:
parent = None
else:
if parent is None:
parent = wx.GetApp().GetTopWindow()
branches = gmPraxis.get_praxis_branches()
if len(branches) == 1:
_log.debug('only one praxis branch configured, activating')
gmPraxis.gmCurrentPraxisBranch(branches[0])
return True
if len(branches) == 0:
orgs = gmOrganization.get_orgs()
if len(orgs) == 0:
new_branch_of_new_praxis = __create_praxis_and_branch()
gmPraxis.gmCurrentPraxisBranch(new_branch_of_new_praxis)
return True
if len(orgs) == 1:
units = orgs[0].units
if len(units) == 1:
branch = __create_branch_for_praxis(units[0]['pk_org_unit'])
gmPraxis.gmCurrentPraxisBranch(branch)
return True
branch = __select_org_unit_as_branch()
if branch is None:
return False
gmPraxis.gmCurrentPraxisBranch(branch)
return True
most_recent_branch = __get_most_recently_selected_branch()
#--------------------
def refresh(lctrl):
branches = gmPraxis.get_praxis_branches()
items = [[b['branch'],
gmTools.coalesce(b['l10n_unit_category'], '')]
for b in branches]
lctrl.set_string_items(items=items)
lctrl.set_data(data=branches)
if most_recent_branch is not None:
for idx in range(len(branches)):
if branches[idx].format(one_line=True) == most_recent_branch:
lctrl.selections = [idx]
break
#--------------------
branch = gmListWidgets.get_choices_from_list(
parent=parent,
msg=_(
"Select the branch of praxis [%s] which you are logging in from.\n"
) % branches[0]['praxis'],
caption=_('Praxis branch selection ...'),
columns=[_('Branch'), _('Branch type')],
can_return_empty=False,
single_selection=True,
refresh_callback=refresh)
if branch is None:
_log.warning('no praxis branch selected, aborting')
return False
__update_most_recently_selected_branch(branch)
gmPraxis.gmCurrentPraxisBranch(branch)
return True
def manage_praxis_branches(parent=None):
if parent is None:
parent = wx.GetApp().GetTopWindow()
#---------------------------
def get_unit_tooltip(unit):
if unit is None:
return None
return u'\n'.join(unit.format(with_address = True, with_org = True, with_comms = True))
#---------------------------
def manage_orgs():
gmOrganizationWidgets.manage_orgs(parent = parent)
#---------------------------
branches = gmPraxis.get_praxis_branches()
org = branches[0].organization
praxis = branches[0]['praxis']
msg = _(
'Pick those units of "%s" which are branches of your praxis !\n'
'\n'
'Note that no other client should be connected at this time.\n'
'\n'
'If you want to select another organization entirely\n'
'first remove all existing branches.\n'
) % praxis
picker = gmListWidgets.cItemPickerDlg(parent, -1, msg = msg)
picker.extra_button = (
_('Manage units'),
_('Manage organizations and their units'),
manage_orgs
)
picker.left_item_tooltip_callback = get_unit_tooltip
picker.right_item_tooltip_callback = get_unit_tooltip
picker.set_columns(columns = [_('Units of "%s"') % praxis], columns_right = [_('Branches of your praxis')])
units = org.units
branch_unit_pks = [b['pk_org_unit'] for b in branches]
branch_units = []
for unit in units:
if unit['pk_org_unit'] in branch_unit_pks:
branch_units.append(unit)
items = [ u'%s%s' % (u['unit'], gmTools.coalesce(u['l10n_unit_category'], u'', u' (%s)')) for u in units ]
picker.set_choices(choices = items, data = units)
items = [ u'%s%s' % (u['unit'], gmTools.coalesce(u['l10n_unit_category'], u'', u' (%s)')) for u in branch_units ]
picker.set_picks(picks = items, data = branch_units)
del units
del branch_unit_pks
del branch_units
del items
result = picker.ShowModal()
if result == wx.ID_CANCEL:
picker.Destroy()
return None
picks = picker.picks
picker.Destroy()
failed_delete_msg = _(
'Cannot delete praxis branch(es).\n'
'\n'
'There are probably clients logged in\n'
'from other locations. You need to log out\n'
'all but this client before the praxis can\n'
'be reconfigured.'
)
if len(picks) == 0:
if not gmPraxis.delete_praxis_branches():
gmGuiHelpers.gm_show_error (
error = failed_delete_msg,
title = _('Configuring praxis ...')
)
return False
while not set_active_praxis_branch(parent = parent):
pass
return
pk_picked_units = [p['pk_org_unit'] for p in picks]
pk_branches_to_keep = [
b['pk_praxis_branch'] for b in gmPraxis.get_praxis_branches()
if b['pk_org_unit'] in pk_picked_units
]
if len(pk_branches_to_keep) == 0:
if not gmPraxis.delete_praxis_branches():
gmGuiHelpers.gm_show_error (
error = failed_delete_msg,
title = _('Configuring praxis ...')
)
return False
else:
if not gmPraxis.delete_praxis_branches(except_pk_praxis_branches = pk_branches_to_keep):
gmGuiHelpers.gm_show_error (
error = failed_delete_msg,
title = _('Configuring praxis ...')
)
return False
gmPraxis.create_praxis_branches(pk_org_units = pk_picked_units)
# detect whether active branch in kept branches
if gmPraxis.gmCurrentPraxisBranch()['pk_praxis_branch'] in pk_branches_to_keep:
return
while not set_active_praxis_branch(parent = parent):
pass
def set_active_praxis_branch(parent=None, no_parent=False):
if no_parent:
parent = None
else:
if parent is None:
parent = wx.GetApp().GetTopWindow()
branches = gmPraxis.get_praxis_branches()
if len(branches) == 1:
_log.debug('only one praxis branch configured')
gmPraxis.gmCurrentPraxisBranch(branches[0])
return True
if len(branches) == 0:
orgs = gmOrganization.get_orgs()
if len(orgs) == 0:
pk_cat = gmOrganization.create_org_category(category=u'Praxis')
org = gmOrganization.create_org(_('Your praxis'), pk_cat)
unit = org.add_unit(_('Your branch'))
branch = gmPraxis.create_praxis_branch(
pk_org_unit=unit['pk_org_unit'])
_log.debug(
'auto-created praxis branch because no organizations existed: %s',
branch)
gmPraxis.gmCurrentPraxisBranch(branch)
gmGuiHelpers.gm_show_info(
title=_('Praxis configuration ...'),
info=_('GNUmed has auto-created the following\n'
'praxis branch for you (which you can\n'
'later configure as needed):\n'
'\n'
'%s') % branch.format())
return True
if len(orgs) == 1:
units = orgs[0].units
if len(units) == 1:
branch = gmPraxis.create_praxis_branch(
pk_org_unit=units[0]['pk_org_unit'])
_log.debug(
'auto-selected praxis branch because only one organization with only one unit existed: %s',
branch)
gmPraxis.gmCurrentPraxisBranch(branch)
gmGuiHelpers.gm_show_info(
title=_('Praxis configuration ...'),
info=_('GNUmed has auto-selected the following\n'
'praxis branch for you (which you can\n'
'later configure as needed):\n'
'\n'
'%s') % branch.format())
return True
_log.debug(
'no praxis branches configured, selecting from organization units')
msg = _(
'No praxis branches configured currently.\n'
'\n'
'You MUST select one unit of an organization to be the initial\n'
'branch (site, office) which you are logging in from.')
unit = gmOrganizationWidgets.select_org_unit(msg=msg, no_parent=True)
if unit is None:
_log.warning('no organization unit selected, aborting')
return False
_log.debug('org unit selected as praxis branch: %s', unit)
branch = gmPraxis.create_praxis_branch(pk_org_unit=unit['pk_org_unit'])
_log.debug('created praxis branch: %s', branch)
gmPraxis.gmCurrentPraxisBranch(branch)
return True
#--------------------
def refresh(lctrl):
branches = gmPraxis.get_praxis_branches()
items = [[b['branch'],
gmTools.coalesce(b['l10n_unit_category'], u'')]
for b in branches]
lctrl.set_string_items(items=items)
lctrl.set_data(data=branches)
#--------------------
branch = gmListWidgets.get_choices_from_list(
parent=parent,
msg=_(
"Select the branch of praxis [%s] which you are logging in from.\n"
) % branches[0]['praxis'],
caption=_('Praxis branch selection ...'),
columns=[_('Branch'), _('Branch type')],
can_return_empty=False,
single_selection=True,
refresh_callback=refresh)
if branch is None:
_log.warning('no praxis branch selected, aborting')
return False
gmPraxis.gmCurrentPraxisBranch(branch)
return True
def test_import_HL7(filename):
# would normally be set by external configuration:
from Gnumed.business import gmPraxis
gmPraxis.gmCurrentPraxisBranch(branch = gmPraxis.get_praxis_branches()[0])
if not import_hl7_file(filename):
print("error with", filename)
def run_tool():
tool = _cfg.get(option = '--tool', source_order = [('cli', 'return')])
if tool is None:
# not running a tool
return None
if tool not in _known_tools:
_log.error('unknown tool requested: %s', tool)
print('GNUmed startup: Unknown tool [%s] requested.' % tool)
print('GNUmed startup: Known tools: %s' % _known_tools)
return -1
print('')
print('==============================================')
print('Running tool: %s' % tool)
print('----------------------------------------------')
print('')
if tool == 'check_enc_epi_xref':
from Gnumed.business import gmEMRStructItems
return gmEMRStructItems.check_fk_encounter_fk_episode_x_ref()
if tool == 'export_pat_emr_structure':
# setup praxis
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(branch = gmPraxis.get_praxis_branches()[0])
# get patient
from Gnumed.business import gmPersonSearch
pat = gmPersonSearch.ask_for_patient()
# setup exporters
from Gnumed.business import gmEMRStructItems
from Gnumed.exporters import gmTimelineExporter
from Gnumed.exporters import gmPatientExporter
while pat is not None:
print('patient:', pat['description_gender'])
# as EMR structure
fname = os.path.expanduser('~/gnumed/gm-emr_structure-%s.txt' % pat.subdir_name)
print('EMR structure:', gmEMRStructItems.export_emr_structure(patient = pat, filename = fname))
# as timeline
fname = os.path.expanduser('~/gnumed/gm-emr-%s.timeline' % pat.subdir_name)
try:
print('EMR timeline:', gmTimelineExporter.create_timeline_file (
patient = pat,
filename = fname,
include_documents = True,
include_vaccinations = True,
include_encounters = True
))
finally:
pass
# as journal by encounter
exporter = gmPatientExporter.cEMRJournalExporter()
fname = os.path.expanduser('~/gnumed/gm-emr-journal_by_encounter-%s.txt' % pat.subdir_name)
print('EMR journal (by encounter):', exporter.save_to_file_by_encounter(patient = pat, filename = fname))
# as journal by mod time
fname = os.path.expanduser('~/gnumed/gm-emr-journal_by_mod_time-%s.txt' % pat.subdir_name)
print('EMR journal (by mod time):', exporter.save_to_file_by_mod_time(patient = pat, filename = fname))
# as statistical summary
fname = os.path.expanduser('~/gnumed/gm-emr-statistics-%s.txt' % pat.subdir_name)
output_file = io.open(fname, mode = 'wt', encoding = 'utf8', errors = 'replace')
emr = pat.emr
output_file.write(emr.format_statistics())
output_file.close()
print('EMR statistics:', fname)
# as text file
exporter = gmPatientExporter.cEmrExport(patient = pat)
fname = os.path.expanduser('~/gnumed/gm-emr-text_export-%s.txt' % pat.subdir_name)
output_file = io.open(fname, mode = 'wt', encoding = 'utf8', errors = 'replace')
exporter.set_output_file(output_file)
exporter.dump_constraints()
exporter.dump_demographic_record(True)
exporter.dump_clinical_record()
exporter.dump_med_docs()
output_file.close()
print('EMR text file:', fname)
# another patient ?
pat = gmPersonSearch.ask_for_patient()
return 0
# tool export_patient_as (vcf, gdt, ...)
#if tool == 'export_pat_demographics':
# should not happen (because checked against _known_tools)
return -1
#============================================================
# main
#------------------------------------------------------------
if __name__ == '__main__':
if len(sys.argv) < 2:
sys.exit()
if sys.argv[1] != "test":
sys.exit()
gmI18N.activate_locale()
gmI18N.install_domain('gnumed')
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(branch = gmPraxis.get_praxis_branches()[0])
from Gnumed.business import gmPerson
# 14 / 20 / 138 / 58 / 20 / 5
pat = gmPerson.gmCurrentPatient(gmPerson.cPatient(aPK_obj = 14))
fname = '~/gnumed/gm2tl-%s.timeline' % pat.subdir_name
print (create_timeline_file (
patient = pat,
filename = os.path.expanduser(fname),
include_documents = True,
include_vaccinations = True,
include_encounters = True
))
#============================================================
# main
#------------------------------------------------------------
if __name__ == '__main__':
if len(sys.argv) < 2:
sys.exit()
if sys.argv[1] != "test":
sys.exit()
gmI18N.activate_locale()
gmI18N.install_domain('gnumed')
from Gnumed.business import gmPraxis
praxis = gmPraxis.gmCurrentPraxisBranch(
branch=gmPraxis.get_praxis_branches()[0])
from Gnumed.business import gmPerson
# 14 / 20 / 138 / 58 / 20 / 5
pat = gmPerson.gmCurrentPatient(gmPerson.cPatient(aPK_obj=14))
fname = '~/gnumed/gm2tl-%s.timeline' % pat.subdir_name
print(
create_timeline_file(patient=pat,
filename=os.path.expanduser(fname),
include_documents=True,
include_vaccinations=True,
include_encounters=True))
wx.GetApp().MainLoop()
#----------------------------------------------------------------
def test_health_issue_edit_area_dlg():
app = wx.PyWidgetTester(size = (200, 300))
edit_health_issue(parent=app.frame, issue=None)
#----------------------------------------------------------------
def test_health_issue_edit_area_pnl():
app = wx.PyWidgetTester(size = (200, 300))
app.SetWidget(cHealthIssueEditAreaPnl, id=-1, size = (400,400))
app.MainLoop()
#================================================================
branch = gmPraxis.get_praxis_branches()[0]
prax = gmPraxis.gmCurrentPraxisBranch(branch)
print(prax)
#app = wx.PyWidgetTester(size = (400, 40))
app = wx.App()#size = (400, 40))
# obtain patient
pat = gmPersonSearch.ask_for_patient()
if pat is None:
print("No patient. Exiting gracefully...")
sys.exit(0)
gmPatSearchWidgets.set_active_patient(patient=pat)
# try:
# lauch emr dialogs test application