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# -*- coding: utf-8 -*- |
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# |
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# This file is part of SENAITE.CORE |
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# |
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# Copyright 2018 by it's authors. |
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# Some rights reserved. See LICENSE.rst, CONTRIBUTORS.rst. |
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""" Beckman Coulter Access 2 |
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""" |
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from bika.lims import bikaMessageFactory as _ |
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from bika.lims.utils import t |
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from . import TaqMan96DNA212BSCSVParser, TaqMan96DNA212BSImporter |
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import json |
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import traceback |
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title = "TaqMan96 DNA212BS" |
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def Import(context, request): |
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""" TaqMan96 DNA212BS analysis results |
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""" |
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infile = request.form['taqman96_dna212bs_file'] |
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fileformat = request.form['taqman96_dna212bs_format'] |
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artoapply = request.form['taqman96_dna212bs_artoapply'] |
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override = request.form['taqman96_dna212bs_override'] |
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sample = request.form.get('taqman96_dna212bs_sample', |
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'requestid') |
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instrument = request.form.get('instrument', None) |
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errors = [] |
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logs = [] |
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warns = [] |
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# Load the most suitable parser according to file extension/options/etc... |
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parser = None |
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if not hasattr(infile, 'filename'): |
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errors.append(_("No file selected")) |
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if fileformat == 'csv': |
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parser = TaqMan96DNA212BS2CSVParser(infile) |
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else: |
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errors.append(t(_("Unrecognized file format ${fileformat}", |
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mapping={"fileformat": fileformat}))) |
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if parser: |
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# Load the importer |
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status = ['sample_received', 'attachment_due', 'to_be_verified'] |
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if artoapply == 'received': |
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status = ['sample_received'] |
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elif artoapply == 'received_tobeverified': |
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status = ['sample_received', 'attachment_due', 'to_be_verified'] |
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over = [False, False] |
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if override == 'nooverride': |
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over = [False, False] |
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elif override == 'override': |
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over = [True, False] |
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elif override == 'overrideempty': |
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over = [True, True] |
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sam = ['getId', 'getSampleID', 'getClientSampleID'] |
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if sample == 'requestid': |
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sam = ['getId'] |
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if sample == 'sampleid': |
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sam = ['getSampleID'] |
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elif sample == 'clientsid': |
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sam = ['getClientSampleID'] |
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elif sample == 'sample_clientsid': |
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sam = ['getSampleID', 'getClientSampleID'] |
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importer = TaqMan96DNA212BS2Importer(parser=parser, |
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context=context, |
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idsearchcriteria=sam, |
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allowed_ar_states=status, |
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allowed_analysis_states=None, |
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override=over, |
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instrument_uid=instrument) |
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tbex = '' |
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try: |
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importer.process() |
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except: |
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tbex = traceback.format_exc() |
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errors = importer.errors |
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logs = importer.logs |
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warns = importer.warns |
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if tbex: |
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errors.append(tbex) |
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results = {'errors': errors, 'log': logs, 'warns': warns} |
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return json.dumps(results) |
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class TaqMan96DNA212BS2CSVParser(TaqMan96DNA212BSCSVParser): |
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def getAttachmentFileType(self): |
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return "TaqMan96 DNA212BS " |
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class TaqMan96DNA212BS2Importer(TaqMan96DNA212BSImporter): |
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def getKeywordsToBeExcluded(self): |
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return [] |
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senaite /
senaite.core
