Comments (1)
Just pushed an update to invResults.py with the following code:
Also updated GUI with new Option: "Save traces in CSV"
def save_csv_traces(sol):
"""
Saves the traces contained in mcmcinv
object sol to a single csv file.
call with sol.save_csv_traces()
"""
# Get some basic information from the mcmc object
MDL, filepath = sol.MDL, sol.filename
model = get_model_type(sol)
sample_name = filepath.replace("\\", "/").split("/")[-1].split(".")[0]
if sol.model in ['ColeCole', 'Dias', 'Shin']:
tagno = 1 # Tags for CC model starts with 1 (m1, m2, tau1, tau2, c1, c2)
else:
tagno = 0 # Tags for DD model starts with 0 (a0, a1, a2, a3, a4, ...)
# Decide where to save the csv
save_where = '/TraceResults/'
working_path = getcwd().replace("\\", "/")+"/"
save_path = working_path + save_where + "%s/"%sample_name # Add subfolder for the sample
# Get names of parameters for save file
pm_names = [x.__name__ for x in MDL.stochastics]
pm_shapes = [x.shape for x in MDL.stochastics]
pm_shapes = [1 if len(v) == 0 else v[0] for v in pm_shapes]
# Reshaping names for proper format
all_pm_names = [x*[y] for x,y in zip(pm_shapes, pm_names)]
all_pm_names = [item for sublist in all_pm_names for item in sublist]
all_pm_names = [v + str(all_pm_names[:i].count(v) + tagno) if all_pm_names.count(v) > 1 else v for i, v in enumerate(all_pm_names)]
all_pm_names = [model+"_"+s for s in all_pm_names]
headers = ','.join(list(all_pm_names)) # Headers for CSV file
# Start getting the traces from mcmcinv object
trace_matrix = []
for n, s in zip(pm_names,pm_shapes):
trace_matrix.append(MDL.trace(n)[:])
trace_matrix = np.hstack([x[:,np.newaxis] if x.ndim==1 else x for x in trace_matrix])
# Do the saving
print("\nSaving CSV traces in:\n", save_path)
if not path.exists(save_path):
makedirs(save_path)
np.savetxt(save_path+'TRACES_%s-%s_%s.csv' %(sol.model,model,sample_name), trace_matrix, delimiter=',', header=headers, comments="")
closing issue
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