From f5241048b4bebec5b2241801eb9a16d664d10bae Mon Sep 17 00:00:00 2001 From: Tanushree Tunstall Date: Thu, 9 Apr 2020 16:40:45 +0100 Subject: [PATCH] saving work for today --- mcsm/mcsm_results.py | 9 ++++----- scripts/data_extraction.py | 6 +++--- 2 files changed, 7 insertions(+), 8 deletions(-) diff --git a/mcsm/mcsm_results.py b/mcsm/mcsm_results.py index af3519e..03de9db 100755 --- a/mcsm/mcsm_results.py +++ b/mcsm/mcsm_results.py @@ -110,17 +110,16 @@ def build_result_dict(web_result_raw): mytext = mytext.replace('ange:\n', 'ange: ') #print(mytext) - # initiliase results_dict - results_dict = {} + # initiliase result_dict + result_dict = {} for line in mytext.split('\n'): fields = line.split(':') #print(fields) if len(fields) > 1: # since Mutaton information is empty dict_entry = dict([(x, y) for x, y in zip(fields[::2], fields[1::2])]) - results_dict.update(dict_entry) + result_dict.update(dict_entry) - return results_dict - + return result_dict #======================================================================= #%% call function #request_results(infile_url) diff --git a/scripts/data_extraction.py b/scripts/data_extraction.py index 863ab67..322429c 100755 --- a/scripts/data_extraction.py +++ b/scripts/data_extraction.py @@ -745,9 +745,9 @@ del(c1, c2, col_to_split1, col_to_split2, comp_gene_samples, dr_WF0, dr_df, dr_m out_filename1 = gene.lower() + '_ambiguous_muts.csv' outfile1 = outdir + '/' + out_filename1 -print('Writing file: ambiguous muts', - '\nFilename:', out_filename1, - '\nPath:', outdir) +print('Writing file: ambiguous muts' + , '\nFilename:', out_filename1 + , '\nPath:', outdir) #common_muts = ['gene_matchVal180Phe','gene_matchGln10Pro'] # test inspect = gene_LF1[gene_LF1['mutation'].isin(common_muts)]