Mercurial > repos > pieterlukasse > prims_metabolomics
changeset 16:53e1eee93430
Last tested version
| author | pieter.lukasse@wur.nl |
|---|---|
| date | Fri, 24 Jan 2014 10:38:31 +0100 |
| parents | 777c1c2a17a2 |
| children | eefa842507cd |
| files | MsClust.jar rankfilter_GCMS/test/test_pdfread.py test/integration_tests.py test/test_library_lookup.py |
| diffstat | 4 files changed, 4 insertions(+), 4 deletions(-) [+] |
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--- a/rankfilter_GCMS/test/test_pdfread.py Tue Jan 21 16:50:15 2014 +0100 +++ b/rankfilter_GCMS/test/test_pdfread.py Fri Jan 24 10:38:31 2014 +0100 @@ -17,7 +17,7 @@ ''' Tests the reading and parsing of a NIST PDF file ''' - [hitlist, hitlist_missed] = pdfread.getPDF(self.nist_pdf) + [hitlist, hitlist_missed] = pdfread.getPDF(self.nist_pdf, True) rows = [hitlist[row] for row in hitlist.keys()] data = [set(row) for row in zip(*rows)] expected_element = set(('12.3', ' Sucrose ', '14', 'undef', ' standards 2009', ' 660', 'not_def',
--- a/test/integration_tests.py Tue Jan 21 16:50:15 2014 +0100 +++ b/test/integration_tests.py Fri Jan 24 10:38:31 2014 +0100 @@ -119,7 +119,7 @@ #Build up arguments and run input_txt = resource_filename(__name__, "data/integration/NIST_identification_results_tabular.txt") - library = resource_filename(__name__, "data/integration/Library_RI_DB_capillary_columns-noDuplicates.txt") + library = resource_filename(__name__, "../repositories/PRIMS-metabolomics/RI_DB_libraries/Library_RI_DB_capillary_columns-noDuplicates.txt") regress_model = resource_filename(__name__, "data/integration/regression_MODEL_for_columns.txt") sys.argv = ['test', library,
--- a/test/test_library_lookup.py Tue Jan 21 16:50:15 2014 +0100 +++ b/test/test_library_lookup.py Fri Jan 24 10:38:31 2014 +0100 @@ -147,9 +147,9 @@ ''' Tests the match_library.py functionality ''' - riqc_libs_dir = resource_filename(__name__, "../repositories") + riqc_libs_dir = resource_filename(__name__, "../repositories/PRIMS-metabolomics/RI_DB_libraries") get_library_files_output = match_library.get_directory_files(riqc_libs_dir) - self.assertEqual(4, len(get_library_files_output)) + self.assertEqual(1, len(get_library_files_output)) self.assertEqual("Library_RI_DB_capillary_columns-noDuplicates", get_library_files_output[0][0]) #TODO change assert below to assert that the result is a file, so the test can run on other dirs as well: #self.assertEqual("E:\\workspace\\PRIMS-metabolomics\\python-tools\\tools\\GCMS\\test\\data\\riqc_libs\\RI DB library (capillary columns) Dec.2012.txt", get_library_files_output[0][1])