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#!/usr/bin/env python
# -*- coding: utf-8 -*-
#
# Copyright (C) 2012-2013 Tobias Klauser <tklauser@distanz.ch>
#
# This program is free software; you can redistribute it and/or modify
# it under the terms of the GNU General Public License version 2 as
# published by the Free Software Foundation.
import os, sys
import getopt
import csv
import numpy as np
DEFAULT_NAME = 'control'
DEFAULT_MAXTIME = 100.0
def usage():
print("""usage: {} [OPTION...] CSV-FILE... STO-FILE
-f force overwrite of existing files
-m NAMES use names from comma-separated list NAMES to name muscles instead
of CSV file name (# of names in list must match # of CSV files)
-n name of the activation data in sto file (default: {})
-T N scale time such that it goes from 0.0 to N
-h show this help and exit""".format(os.path.basename(sys.argv[0]), DEFAULT_NAME))
def main():
try:
opts, args = getopt.getopt(sys.argv[1:], "fm:n:hT:")
except getopt.GetoptError as err:
print(str(err))
usage()
sys.exit(-1)
if len(args) < 2:
usage()
sys.exit(-1)
overwrite = False
muscles = None
name = DEFAULT_NAME
maxtime = DEFAULT_MAXTIME
for o, a in opts:
if o == '-f':
overwrite = True
elif o == '-m':
muscles = [ x.strip() for x in a.split(',') ]
elif o == '-n':
name = a
elif o == '-T':
maxtime = float(a)
elif o == '-h':
usage()
sys.exit(0)
else:
assert False, "unhandled option"
fs_csv = args[0:-1]
for f_csv in fs_csv:
if not os.path.exists(f_csv):
print("Error: CSV file {} does not exist".format(f_csv))
sys.exit(-1)
if muscles and len(muscles) != len(fs_csv):
print("Error: number of names ({}) provided does not match number of CSV files ({})".format(len(muscles), len(fs_csv)))
sys.exit(-1)
f_sto = args[-1]
if not overwrite and os.path.exists(f_sto):
print("Error: STO file {} already exists".format(f_sto))
sys.exit(-1)
# determine number of columns and rows
tot_nRows = 0
tot_nCols = 1 # initial time column (as we omit it when taking data from each CSV)
for f_csv in fs_csv:
fd = open(f_csv, 'r')
nRows = nCols = 0
for line in fd:
if nRows == 0:
nCols = len(line.split(','))
nRows += 1
if tot_nRows == 0:
tot_nRows = nRows
elif tot_nRows != nRows:
print("Error: Number of rows in CSV files do not match")
sys.exit(-1)
# add up to the total number of colums but omit time column
tot_nCols += nCols - 1
fd.close()
# don't count the header line
tot_nRows -= 1
print("Writing sto file {} with name {} ({} muscles)".format(f_sto, name, len(fs_csv)))
if maxtime != DEFAULT_MAXTIME:
print("Scaling to maxtime {}".format(maxtime))
fd_sto = open(f_sto, 'w')
fd_sto.write(name + "\n")
fd_sto.write("version=1\n")
fd_sto.write("nRows=" + str(tot_nRows) + "\n")
fd_sto.write("nColumns=" + str(tot_nCols) + "\n")
fd_sto.write("endheader\n")
fd_sto.write("time")
i = 0
for f_csv in fs_csv:
if muscles:
colname = muscles[i]
i += 1
else:
colname = os.path.splitext(os.path.basename(f_csv))[0]
print("[+] Adding muscle {}...".format(colname))
fd_sto.write("\t" + colname)
fd_sto.write("\n")
fds_csv = [ open(f_csv, 'r') for f_csv in fs_csv ]
crs = []
for fd_csv in fds_csv:
dialect = csv.Sniffer().sniff(fd_csv.read(1024))
fd_csv.seek(0)
crs.append(csv.reader(fd_csv, dialect))
times = np.zeros((tot_nRows, len(fds_csv)))
vals = np.zeros((tot_nRows, len(fds_csv)))
for i, cr in enumerate(crs):
cr.next() # skip header line
for j, row in enumerate(cr):
t,y = map(float, row)
if maxtime != DEFAULT_MAXTIME:
# Assume default 0-100 time in all input files for now
t = (t / 100.0) * maxtime
times[j,i] = t
vals[j,i] = y
# XXX: For now assume same time spacing in all CSV files
for i, row in enumerate(times):
fd_sto.write(str(row[0]))
for val in vals[i]:
fd_sto.write("\t" + str(val))
fd_sto.write("\n");
for fd_csv in fds_csv:
fd_csv.close()
fd_sto.close()
if __name__ == '__main__':
main()
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