649 lines
28 KiB
Python
649 lines
28 KiB
Python
# -*- coding: utf-8 -*-
|
|
# This file is part of lims_instrument module for Tryton.
|
|
# The COPYRIGHT file at the top level of this repository contains
|
|
# the full copyright notices and license terms.
|
|
try:
|
|
import cStringIO as StringIO
|
|
except ImportError:
|
|
import StringIO
|
|
import traceback
|
|
import xlrd
|
|
from xlutils.copy import copy
|
|
from datetime import datetime
|
|
|
|
from trytond.model import ModelView, ModelSQL, fields, Unique
|
|
from trytond.wizard import Wizard, StateView, StateTransition, Button
|
|
from trytond.pool import Pool, PoolMeta
|
|
from trytond.transaction import Transaction
|
|
|
|
|
|
__all__ = ['NotebookLine', 'ResultsImport', 'NotebookLoadResultsFileStart',
|
|
'NotebookLoadResultsFileEmpty',
|
|
'NotebookLoadResultsFileResult', 'NotebookLoadResultsFileWarning',
|
|
'NotebookLoadResultsFileExport', 'NotebookLoadResultsFile']
|
|
|
|
|
|
class NotebookLine:
|
|
__name__ = 'lims.notebook.line'
|
|
__metaclass__ = PoolMeta
|
|
|
|
imported_result = fields.Char('Result')
|
|
imported_literal_result = fields.Char('Literal result')
|
|
imported_end_date = fields.Date('End date')
|
|
imported_professionals = fields.Char('Professionals')
|
|
imported_chromatogram = fields.Char('Chromatogram')
|
|
imported_device = fields.Many2One('lims.lab.device', 'Device')
|
|
imported_dilution_factor = fields.Float('Dilution factor')
|
|
imported_rm_correction_formula = fields.Char('RM Correction Formula')
|
|
imported_inj_date = fields.Date('Inject date')
|
|
|
|
|
|
class ResultsImport(ModelSQL, ModelView):
|
|
'Results Import'
|
|
__name__ = 'lims.resultsimport'
|
|
_rec_name = 'description'
|
|
|
|
name = fields.Selection([], 'Name', required=True, sort=False,
|
|
depends=['description'])
|
|
description = fields.Char('Description', required=True)
|
|
controller = None
|
|
_infile = None
|
|
header = []
|
|
rawresults = {}
|
|
mimetype = None
|
|
numline = 0
|
|
|
|
@classmethod
|
|
def __setup__(cls):
|
|
super(ResultsImport, cls).__setup__()
|
|
t = cls.__table__()
|
|
cls._sql_constraints += [
|
|
('name_uniq', Unique(t, t.name),
|
|
'The results importer name must be unique'),
|
|
]
|
|
cls._error_messages.update({
|
|
'not_module': 'No module for importer type "%s"',
|
|
'not_implemented': ('The function "%s" is not implemented for'
|
|
' this importer'),
|
|
})
|
|
|
|
@fields.depends('name')
|
|
def on_change_with_description(self, name=None):
|
|
description = None
|
|
if self.name:
|
|
self.loadController()
|
|
if self.controller:
|
|
try:
|
|
description = self.controller.getControllerName()
|
|
except AttributeError:
|
|
self.raise_user_error('not_implemented',
|
|
('getControllerName',))
|
|
return description
|
|
|
|
def loadController(self):
|
|
self.raise_user_error('not_module', (self.name,))
|
|
|
|
def getInputFile(self):
|
|
return self._infile
|
|
|
|
def setInputFile(self, infile):
|
|
self._infile = infile
|
|
|
|
def parse(self, infile):
|
|
if not self.controller:
|
|
self.loadController()
|
|
try:
|
|
return self.controller.parse(self, infile)
|
|
except AttributeError:
|
|
traceback.print_exc()
|
|
self.raise_user_error('not_implemented', ('parse',))
|
|
|
|
def exportResults(self):
|
|
'''
|
|
This function defines whether the importer
|
|
export results to a file at the end of the process.
|
|
Default is False
|
|
'''
|
|
if not self.controller:
|
|
self.loadController()
|
|
try:
|
|
return self.controller.exportResults(self)
|
|
except AttributeError:
|
|
return False
|
|
|
|
|
|
class NotebookLoadResultsFileStart(ModelView):
|
|
'Load Results from File'
|
|
__name__ = 'lims.notebook.load_results_file.start'
|
|
|
|
results_importer = fields.Many2One('lims.resultsimport',
|
|
'Results importer', required=True)
|
|
infile_01 = fields.Binary('File 01', filename='name_01')
|
|
name_01 = fields.Char('Name 01', readonly=True)
|
|
infile_02 = fields.Binary('File 02', filename='name_02')
|
|
name_02 = fields.Char('Name 02', readonly=True)
|
|
infile_03 = fields.Binary('File 03', filename='name_03')
|
|
name_03 = fields.Char('Name 03', readonly=True)
|
|
infile_04 = fields.Binary('File 04', filename='name_04')
|
|
name_04 = fields.Char('Name 04', readonly=True)
|
|
infile_05 = fields.Binary('File 05', filename='name_05')
|
|
name_05 = fields.Char('Name 05', readonly=True)
|
|
infile_06 = fields.Binary('File 06', filename='name_06')
|
|
name_06 = fields.Char('Name 06', readonly=True)
|
|
infile_07 = fields.Binary('File 07', filename='name_07')
|
|
name_07 = fields.Char('Name 07', readonly=True)
|
|
infile_08 = fields.Binary('File 08', filename='name_08')
|
|
name_08 = fields.Char('Name 08', readonly=True)
|
|
infile_09 = fields.Binary('File 09', filename='name_09')
|
|
name_09 = fields.Char('Name 09', readonly=True)
|
|
infile_10 = fields.Binary('File 10', filename='name_10')
|
|
name_10 = fields.Char('Name 10', readonly=True)
|
|
infile_11 = fields.Binary('File 11', filename='name_11')
|
|
name_11 = fields.Char('Name 11', readonly=True)
|
|
infile_12 = fields.Binary('File 12', filename='name_12')
|
|
name_12 = fields.Char('Name 12', readonly=True)
|
|
infile_13 = fields.Binary('File 13', filename='name_13')
|
|
name_13 = fields.Char('Name 13', readonly=True)
|
|
infile_14 = fields.Binary('File 14', filename='name_14')
|
|
name_14 = fields.Char('Name 14', readonly=True)
|
|
infile_15 = fields.Binary('File 15', filename='name_15')
|
|
name_15 = fields.Char('Name 15', readonly=True)
|
|
infile_16 = fields.Binary('File 16', filename='name_16')
|
|
name_16 = fields.Char('Name 16', readonly=True)
|
|
infile_17 = fields.Binary('File 17', filename='name_17')
|
|
name_17 = fields.Char('Name 17', readonly=True)
|
|
infile_18 = fields.Binary('File 18', filename='name_18')
|
|
name_18 = fields.Char('Name 18', readonly=True)
|
|
infile_19 = fields.Binary('File 19', filename='name_19')
|
|
name_19 = fields.Char('Name 19', readonly=True)
|
|
infile_20 = fields.Binary('File 20', filename='name_20')
|
|
name_20 = fields.Char('Name 20', readonly=True)
|
|
infile_21 = fields.Binary('File 21', filename='name_21')
|
|
name_21 = fields.Char('Name 21', readonly=True)
|
|
infile_22 = fields.Binary('File 22', filename='name_22')
|
|
name_22 = fields.Char('Name 22', readonly=True)
|
|
infile_23 = fields.Binary('File 23', filename='name_23')
|
|
name_23 = fields.Char('Name 23', readonly=True)
|
|
infile_24 = fields.Binary('File 24', filename='name_24')
|
|
name_24 = fields.Char('Name 24', readonly=True)
|
|
infile_25 = fields.Binary('File 25', filename='name_25')
|
|
name_25 = fields.Char('Name 25', readonly=True)
|
|
infile_26 = fields.Binary('File 26', filename='name_26')
|
|
name_26 = fields.Char('Name 26', readonly=True)
|
|
infile_27 = fields.Binary('File 27', filename='name_27')
|
|
name_27 = fields.Char('Name 27', readonly=True)
|
|
infile_28 = fields.Binary('File 28', filename='name_28')
|
|
name_28 = fields.Char('Name 28', readonly=True)
|
|
infile_29 = fields.Binary('File 29', filename='name_29')
|
|
name_29 = fields.Char('Name 29', readonly=True)
|
|
infile_30 = fields.Binary('File 30', filename='name_30')
|
|
name_30 = fields.Char('Name 30', readonly=True)
|
|
infile_31 = fields.Binary('File 31', filename='name_31')
|
|
name_31 = fields.Char('Name 31', readonly=True)
|
|
infile_32 = fields.Binary('File 32', filename='name_32')
|
|
name_32 = fields.Char('Name 32', readonly=True)
|
|
infile_33 = fields.Binary('File 33', filename='name_33')
|
|
name_33 = fields.Char('Name 33', readonly=True)
|
|
infile_34 = fields.Binary('File 34', filename='name_34')
|
|
name_34 = fields.Char('Name 34', readonly=True)
|
|
infile_35 = fields.Binary('File 35', filename='name_35')
|
|
name_35 = fields.Char('Name 35', readonly=True)
|
|
infile_36 = fields.Binary('File 36', filename='name_36')
|
|
name_36 = fields.Char('Name 36', readonly=True)
|
|
infile_37 = fields.Binary('File 37', filename='name_37')
|
|
name_37 = fields.Char('Name 37', readonly=True)
|
|
infile_38 = fields.Binary('File 38', filename='name_38')
|
|
name_38 = fields.Char('Name 38', readonly=True)
|
|
infile_39 = fields.Binary('File 39', filename='name_39')
|
|
name_39 = fields.Char('Name 39', readonly=True)
|
|
infile_40 = fields.Binary('File 40', filename='name_40')
|
|
name_40 = fields.Char('Name 40', readonly=True)
|
|
infile_41 = fields.Binary('File 41', filename='name_41')
|
|
name_41 = fields.Char('Name 41', readonly=True)
|
|
infile_42 = fields.Binary('File 42', filename='name_42')
|
|
name_42 = fields.Char('Name 42', readonly=True)
|
|
infile_43 = fields.Binary('File 43', filename='name_43')
|
|
name_43 = fields.Char('Name 43', readonly=True)
|
|
infile_44 = fields.Binary('File 44', filename='name_44')
|
|
name_44 = fields.Char('Name 44', readonly=True)
|
|
infile_45 = fields.Binary('File 45', filename='name_45')
|
|
name_45 = fields.Char('Name 45', readonly=True)
|
|
infile_46 = fields.Binary('File 46', filename='name_46')
|
|
name_46 = fields.Char('Name 46', readonly=True)
|
|
infile_47 = fields.Binary('File 47', filename='name_47')
|
|
name_47 = fields.Char('Name 47', readonly=True)
|
|
infile_48 = fields.Binary('File 48', filename='name_48')
|
|
name_48 = fields.Char('Name 48', readonly=True)
|
|
infile_49 = fields.Binary('File 49', filename='name_49')
|
|
name_49 = fields.Char('Name 49', readonly=True)
|
|
infile_50 = fields.Binary('File 50', filename='name_50')
|
|
name_50 = fields.Char('Name 50', readonly=True)
|
|
infile_51 = fields.Binary('File 51', filename='name_51')
|
|
name_51 = fields.Char('Name 51', readonly=True)
|
|
infile_52 = fields.Binary('File 52', filename='name_52')
|
|
name_52 = fields.Char('Name 52', readonly=True)
|
|
infile_53 = fields.Binary('File 53', filename='name_53')
|
|
name_53 = fields.Char('Name 53', readonly=True)
|
|
infile_54 = fields.Binary('File 54', filename='name_54')
|
|
name_54 = fields.Char('Name 54', readonly=True)
|
|
infile_55 = fields.Binary('File 55', filename='name_55')
|
|
name_55 = fields.Char('Name 55', readonly=True)
|
|
infile_56 = fields.Binary('File 56', filename='name_56')
|
|
name_56 = fields.Char('Name 56', readonly=True)
|
|
infile_57 = fields.Binary('File 57', filename='name_57')
|
|
name_57 = fields.Char('Name 57', readonly=True)
|
|
infile_58 = fields.Binary('File 58', filename='name_58')
|
|
name_58 = fields.Char('Name 58', readonly=True)
|
|
infile_59 = fields.Binary('File 59', filename='name_59')
|
|
name_59 = fields.Char('Name 59', readonly=True)
|
|
infile_60 = fields.Binary('File 60', filename='name_60')
|
|
name_60 = fields.Char('Name 60', readonly=True)
|
|
|
|
|
|
class NotebookLoadResultsFileEmpty(ModelView):
|
|
'Load Results from File Empty'
|
|
__name__ = 'lims.notebook.load_results_file.empty'
|
|
|
|
|
|
class NotebookLoadResultsFileResult(ModelView):
|
|
'Process Results from File'
|
|
__name__ = 'lims.notebook.load_results_file.result'
|
|
|
|
result_lines = fields.One2Many('lims.notebook.line', None, 'Lines',
|
|
readonly=True)
|
|
|
|
|
|
class NotebookLoadResultsFileWarning(ModelView):
|
|
'Load Results from File Warning'
|
|
__name__ = 'lims.notebook.load_results_file.warning'
|
|
|
|
msg = fields.Text('Message')
|
|
|
|
|
|
class NotebookLoadResultsFileExport(ModelView):
|
|
"Export Results from File"
|
|
__name__ = 'lims.notebook.load_results_file.export'
|
|
|
|
file = fields.Binary('File', readonly=True)
|
|
|
|
|
|
class NotebookLoadResultsFile(Wizard):
|
|
'Load Results from File'
|
|
__name__ = 'lims.notebook.load_results_file'
|
|
|
|
start = StateView('lims.notebook.load_results_file.start',
|
|
'lims_instrument.lims_load_results_file_start_view_form', [
|
|
Button('Cancel', 'end', 'tryton-cancel'),
|
|
Button('Collect', 'collect', 'tryton-forward', default=True),
|
|
])
|
|
collect = StateTransition()
|
|
empty = StateView('lims.notebook.load_results_file.empty',
|
|
'lims_instrument.lims_load_results_file_empty_view_form', [
|
|
Button('Try again', 'start', 'tryton-forward'),
|
|
Button('Close', 'end', 'tryton-close', default=True),
|
|
])
|
|
result = StateView('lims.notebook.load_results_file.result',
|
|
'lims_instrument.lims_load_results_file_result_view_form', [
|
|
Button('Cancel', 'cancel', 'tryton-cancel'),
|
|
Button('Confirm', 'confirm', 'tryton-ok', default=True),
|
|
])
|
|
confirm = StateTransition()
|
|
cancel = StateTransition()
|
|
warning = StateView('lims.notebook.load_results_file.warning',
|
|
'lims_instrument.lims_load_results_file_warning_view_form', [
|
|
Button('Ok', 'close', 'tryton-ok'),
|
|
])
|
|
close = StateTransition()
|
|
export = StateView('lims.notebook.load_results_file.export',
|
|
'lims_instrument.lims_load_results_file_export_view_form', [
|
|
Button('Done', 'end', 'tryton-close', default=True),
|
|
])
|
|
|
|
def transition_collect(self):
|
|
cursor = Transaction().connection.cursor()
|
|
pool = Pool()
|
|
Fraction = pool.get('lims.fraction')
|
|
Notebook = pool.get('lims.notebook')
|
|
NotebookLine = pool.get('lims.notebook.line')
|
|
Analysis = pool.get('lims.analysis')
|
|
|
|
lines = []
|
|
for fline in [str(item).zfill(2) for item in range(1, 61)]:
|
|
file_ = getattr(self.start, 'infile_%s' % fline)
|
|
if not file_:
|
|
continue
|
|
self.start.results_importer.rawresults = {}
|
|
self.start.results_importer.parse(file_)
|
|
raw_results = self.start.results_importer.rawresults
|
|
fractions_numbers = list(raw_results.keys())
|
|
if not fractions_numbers:
|
|
continue
|
|
|
|
numbers = '\', \''.join(str(n) for n in fractions_numbers)
|
|
cursor.execute('SELECT id, number '
|
|
'FROM "' + Fraction._table + '" '
|
|
'WHERE number IN (\'' + numbers + '\') '
|
|
'ORDER BY number ASC')
|
|
|
|
for f in cursor.fetchall():
|
|
cursor.execute('SELECT id '
|
|
'FROM "' + Notebook._table + '" '
|
|
'WHERE fraction = %s '
|
|
'LIMIT 1', (f[0],))
|
|
notebook = cursor.fetchone()
|
|
if not notebook:
|
|
continue
|
|
|
|
for analysis in raw_results[f[1]].keys():
|
|
cursor.execute('SELECT id '
|
|
'FROM "' + Analysis._table + '" '
|
|
'WHERE code = %s '
|
|
'AND automatic_acquisition = TRUE '
|
|
'LIMIT 1', (analysis,))
|
|
if not cursor.fetchone():
|
|
continue
|
|
|
|
for rep in raw_results[f[1]][analysis].keys():
|
|
clause = [
|
|
('notebook', '=', notebook[0]),
|
|
('analysis', '=', analysis),
|
|
('repetition', '=', rep),
|
|
('result', 'in', [None, '']),
|
|
('converted_result', 'in', [None, '']),
|
|
('literal_result', 'in', [None, '']),
|
|
('result_modifier', 'not in', ['nd', 'pos', 'neg',
|
|
'ni', 'abs', 'pre', 'na']),
|
|
('converted_result_modifier', 'not in',
|
|
['nd', 'pos', 'neg', 'ni', 'abs', 'pre']),
|
|
]
|
|
line = NotebookLine.search(clause)
|
|
if line:
|
|
data = raw_results[f[1]][analysis][rep]
|
|
res = self.get_results(line[0], data)
|
|
if res:
|
|
NotebookLine.write([line[0]], res)
|
|
lines.append(line[0])
|
|
|
|
if lines:
|
|
self.result.result_lines = [l.id for l in lines]
|
|
return 'result'
|
|
return 'empty'
|
|
|
|
def get_results(self, line, data):
|
|
pool = Pool()
|
|
Device = pool.get('lims.lab.device')
|
|
|
|
res = {}
|
|
if 'result' in data or 'literal_result' in data:
|
|
if 'result' in data:
|
|
res['imported_result'] = unicode(float(data['result']))
|
|
if 'literal_result' in data:
|
|
res['imported_literal_result'] = data['literal_result']
|
|
res['imported_end_date'] = (data['end_date'] if 'end_date' in data
|
|
else line.end_date)
|
|
res['imported_inj_date'] = (data['injection_date']
|
|
if 'injection_date' in data else None)
|
|
if 'professionals' in data:
|
|
res['imported_professionals'] = data['professionals']
|
|
if 'chromatogram' in data:
|
|
res['imported_chromatogram'] = data['chromatogram']
|
|
device = data['device'] if 'device' in data else None
|
|
if device:
|
|
dev = Device.search([('code', '=', device)])
|
|
if dev:
|
|
res['imported_device'] = dev[0].id
|
|
if 'dilution_factor' in data:
|
|
res['imported_dilution_factor'] = data['dilution_factor']
|
|
if 'rm_correction_formula' in data:
|
|
res['imported_rm_correction_formula'] = (
|
|
data['rm_correction_formula'])
|
|
return res
|
|
|
|
def default_result(self, fields):
|
|
default = {}
|
|
default['result_lines'] = [l.id for l in self.result.result_lines]
|
|
return default
|
|
|
|
def get_professionals(self, professionals_codes):
|
|
'''
|
|
This function gets a string with one or more professionals codes,
|
|
separated by commas, like: 'ABC' or 'JLB, ABC'
|
|
It returns the professionals
|
|
'''
|
|
cursor = Transaction().connection.cursor()
|
|
pool = Pool()
|
|
Professional = pool.get('lims.laboratory.professional')
|
|
|
|
res = []
|
|
professionals = ''.join(professionals_codes.split())
|
|
professionals = professionals.split(',')
|
|
for professional in professionals:
|
|
cursor.execute('SELECT id, code '
|
|
'FROM "' + Professional._table + '" '
|
|
'WHERE code = %s '
|
|
'LIMIT 1', (professional,))
|
|
prof = cursor.fetchone()
|
|
if prof:
|
|
res.append(prof)
|
|
return res
|
|
|
|
def check_professionals(self, professionals, method):
|
|
cursor = Transaction().connection.cursor()
|
|
pool = Pool()
|
|
LabProfessionalMethod = pool.get('lims.lab.professional.method')
|
|
|
|
validated = False
|
|
msg = ''
|
|
for professional in professionals:
|
|
cursor.execute('SELECT state '
|
|
'FROM "' + LabProfessionalMethod._table + '" '
|
|
'WHERE professional = %s '
|
|
'AND method = %s '
|
|
'AND type = \'analytical\' '
|
|
'LIMIT 1', (professional[0], method.id))
|
|
qualification = cursor.fetchone()
|
|
if not qualification:
|
|
validated = False
|
|
msg += '%s not qualified for method: %s' % (
|
|
professional[1], method.code)
|
|
return validated, msg
|
|
elif qualification[0] == 'training':
|
|
if not validated:
|
|
msg += '%s in training for method: %s. ' \
|
|
'Add qualified professional' % (
|
|
professional[1], method.code)
|
|
elif (qualification[0] in ('qualified', 'requalified')):
|
|
validated = True
|
|
|
|
return validated, msg
|
|
|
|
def transition_confirm(self):
|
|
pool = Pool()
|
|
NotebookLine = pool.get('lims.notebook.line')
|
|
|
|
NOW = datetime.now()
|
|
warnings = False
|
|
messages = ''
|
|
# Write Results to Notebook lines
|
|
for line in self.result.result_lines:
|
|
notebook_line_write = {
|
|
'imported_result': None,
|
|
'imported_literal_result': None,
|
|
'imported_end_date': None,
|
|
'imported_professionals': None,
|
|
'imported_chromatogram': None,
|
|
'imported_device': None,
|
|
'imported_dilution_factor': None,
|
|
'imported_rm_correction_formula': None,
|
|
'imported_inj_date': None,
|
|
}
|
|
|
|
prevent_line = False
|
|
outcome = ''
|
|
if line.result != line.imported_result:
|
|
if line.imported_result != '-1000.0':
|
|
notebook_line_write['result'] = line.imported_result
|
|
else:
|
|
notebook_line_write['result'] = None
|
|
notebook_line_write['result_modifier'] = 'na'
|
|
notebook_line_write['report'] = False
|
|
notebook_line_write['annulled'] = True
|
|
notebook_line_write['annulment_date'] = NOW
|
|
if line.literal_result != line.imported_literal_result:
|
|
notebook_line_write['literal_result'] = (
|
|
line.imported_literal_result)
|
|
if line.end_date != line.imported_end_date:
|
|
if line.imported_result != '-1000.0':
|
|
if (line.start_date and
|
|
line.start_date <= line.imported_end_date):
|
|
notebook_line_write['end_date'] = (
|
|
line.imported_end_date)
|
|
else:
|
|
prevent_line = True
|
|
outcome = 'End date cannot be lower than Start date'
|
|
else:
|
|
notebook_line_write['end_date'] = None
|
|
if line.injection_date != line.imported_inj_date:
|
|
if line.imported_result != '-1000.0':
|
|
if (line.start_date and
|
|
line.start_date <= line.imported_inj_date):
|
|
notebook_line_write['injection_date'] = (
|
|
line.imported_inj_date)
|
|
else:
|
|
prevent_line = True
|
|
outcome = \
|
|
'Injection date cannot be lower than Start date'
|
|
else:
|
|
notebook_line_write['injection_date'] = None
|
|
if line.chromatogram != line.imported_chromatogram:
|
|
notebook_line_write['chromatogram'] = (
|
|
line.imported_chromatogram)
|
|
if line.device != line.imported_device:
|
|
notebook_line_write['device'] = line.imported_device
|
|
if line.dilution_factor != line.imported_dilution_factor:
|
|
notebook_line_write['dilution_factor'] = (
|
|
line.imported_dilution_factor)
|
|
if (line.rm_correction_formula !=
|
|
line.imported_rm_correction_formula):
|
|
notebook_line_write['rm_correction_formula'] = (
|
|
line.imported_rm_correction_formula)
|
|
|
|
if line.imported_professionals:
|
|
profs = self.get_professionals(line.imported_professionals)
|
|
if profs:
|
|
validated, msg = self.check_professionals(
|
|
profs, line.method)
|
|
if validated:
|
|
professionals = [{'professional': p[0]}
|
|
for p in profs]
|
|
notebook_line_write['professionals'] = (
|
|
[('delete', [p.id for p in line.professionals])]
|
|
+ [('create', professionals)])
|
|
else:
|
|
prevent_line = True
|
|
outcome = msg
|
|
else:
|
|
prevent_line = True
|
|
outcome = ('Professional(s) with code '
|
|
+ unicode(line.imported_professionals)
|
|
+ ' not identified')
|
|
|
|
if not prevent_line:
|
|
try:
|
|
NotebookLine.write([line], notebook_line_write)
|
|
except Exception as e:
|
|
prevent_line = True
|
|
outcome = unicode(e)
|
|
original_profs = [{'professional': p.professional}
|
|
for p in line.professionals]
|
|
notebook_line_original_values = {
|
|
'result': line.result,
|
|
'literal_result': line.literal_result,
|
|
'end_date': line.end_date,
|
|
'professionals': (
|
|
[('delete', [p.id for p in line.professionals])]
|
|
+ [('create', original_profs,)]),
|
|
'chromatogram': line.chromatogram,
|
|
'device': line.device,
|
|
'dilution_factor': line.dilution_factor,
|
|
'rm_correction_formula': line.rm_correction_formula,
|
|
'injection_date': line.injection_date,
|
|
}
|
|
NotebookLine.write(
|
|
[line], notebook_line_original_values)
|
|
else:
|
|
outcome = 'OK'
|
|
|
|
# Update rawresults
|
|
row_num = 0
|
|
if self.start.results_importer.exportResults() or prevent_line:
|
|
rawresults = self.start.results_importer.rawresults
|
|
number = line.fraction.number
|
|
if number in rawresults:
|
|
code = line.analysis.code
|
|
if code in rawresults[number]:
|
|
rep = line.repetition
|
|
if rep in rawresults[number][code]:
|
|
rawresults[number][code][rep]['outcome'] = outcome
|
|
row_num = rawresults[number][code][rep][
|
|
'row_number']
|
|
|
|
if prevent_line:
|
|
warnings = True
|
|
messages += str(row_num) + ': ' + outcome + '\n'
|
|
|
|
if warnings:
|
|
self.warning.msg = messages
|
|
return 'warning'
|
|
else:
|
|
if self.start.results_importer.exportResults():
|
|
return 'end' # 'export'
|
|
return 'end'
|
|
|
|
def transition_cancel(self):
|
|
NotebookLine = Pool().get('lims.notebook.line')
|
|
# Clean results froms Notebook lines
|
|
notebook_line_clean = {
|
|
'imported_result': None,
|
|
'imported_literal_result': None,
|
|
'imported_end_date': None,
|
|
'imported_professionals': None,
|
|
'imported_chromatogram': None,
|
|
'imported_device': None,
|
|
'imported_dilution_factor': None,
|
|
'imported_rm_correction_formula': None,
|
|
'imported_inj_date': None,
|
|
}
|
|
NotebookLine.write(
|
|
list(self.result.result_lines), notebook_line_clean)
|
|
return 'end'
|
|
|
|
def default_warning(self, fields):
|
|
defaults = {}
|
|
if self.warning.msg:
|
|
defaults['msg'] = self.warning.msg
|
|
return defaults
|
|
|
|
def transition_close(self):
|
|
if self.start.results_importer.exportResults():
|
|
return 'end' # 'export'
|
|
return 'end'
|
|
|
|
def default_export(self, fields):
|
|
rawresults = self.start.results_importer.rawresults
|
|
filedata = StringIO.StringIO(self.start.infile) # TODO: refactoring
|
|
workbook = xlrd.open_workbook(file_contents=filedata.getvalue(),
|
|
formatting_info=True)
|
|
wb_copy = copy(workbook)
|
|
for fraction in rawresults:
|
|
for analysis in rawresults[fraction]:
|
|
for rep in rawresults[fraction][analysis]:
|
|
repetition = rawresults[fraction][analysis][rep]
|
|
if 'outcome' in repetition and 'status_cell' in repetition:
|
|
sheet, row, col = repetition['status_cell']
|
|
wb_sheet = wb_copy.get_sheet(sheet)
|
|
wb_sheet.write(row, col, repetition['outcome'])
|
|
output = StringIO.StringIO()
|
|
wb_copy.save(output)
|
|
return {'file': bytearray(output.getvalue())}
|