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uncommented some debug output for mcsm, pandas and numpy conflict. So temporarily resolved it by running from base env

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This commit is contained in:
Tanushree Tunstall 2021-02-11 10:53:23 +00:00
parent acd51ab3e4
commit e302aafacf
3 changed files with 9 additions and 4 deletions
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1
mcsm/mcsm.py
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@ -166,6 +166,7 @@ def build_result_dict(web_result_raw):
if len(fields) > 1: # since Mutaton information is empty
dict_entry = dict([(x, y) for x, y in zip(fields[::2], fields[1::2])])
result_dict.update(dict_entry)
print(result_dict)
return result_dict
#%%
#=======================================================================

4
mcsm/run_mcsm.py
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@ -163,7 +163,7 @@ def get_results():
output_df = pd.DataFrame()
url_counter = 1 # HURR DURR COUNT STARTEDS AT ONE1`!1
success_counter = 1
infile_len = os.popen('wc -l < %s' % result_urls).read() # quicker than using Python :-) #FIXME filenme (infile_urls)
infile_len = os.popen('wc -l < %s' % result_urls).read() # quicker than using Python :-)
print('Total URLs:', infile_len)
@ -181,7 +181,7 @@ def get_results():
url_counter += 1
print('Total URLs: %s Successful: %s Failed: %s' % (url_counter-1, success_counter-1, (url_counter - success_counter)))
#print('\nOutput file created:', output_dir + gene.lower() + '_mcsm_output.csv')
output_df.to_csv(mcsm_output, index = None, header = True)
#%%=====================================================================
def format_results():