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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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""" Generic controller for instrument results import view |
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""" |
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import json |
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import traceback |
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from bika.lims.exportimport.instruments.resultsimport import AnalysisResultsImporter |
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def getFileFormat(request): |
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return request.form['instrument_results_file_format'] |
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def getResultsInputFile(request): |
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return request.form['instrument_results_file'] |
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def GenericImport(context, request, parser, importer=None): |
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infile = getResultsInputFile(request) |
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fileformat = getFileFormat(request) |
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artoapply = request.form['artoapply'] |
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override = request.form['results_override'] |
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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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if not hasattr(infile, 'filename'): |
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errors.append(_("No file selected")) |
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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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imp = importer |
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if not imp: |
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imp = AnalysisResultsImporter(parser=parser, |
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context=context, |
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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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imp.process() |
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except: |
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tbex = traceback.format_exc() |
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errors = imp.errors |
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logs = imp.logs |
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warns = imp.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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def format_keyword(keyword): |
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""" |
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Removing special character from a keyword. Analysis Services must have |
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this kind of keywords. E.g. if assay name from the Instrument is |
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'HIV-1 2.0', an AS must be created on Bika with the keyword 'HIV120' |
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""" |
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import re |
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result = '' |
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if keyword: |
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result = re.sub(r"\W", "", keyword) |
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result = re.sub("_", "", result) |
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return result |
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senaite /
senaite.core
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