mattcieslak/dmri_convert

Code for converting between MRtrix and DSI Studio

dmri_convert's Issues

FileNotFoundError: [Errno 2] No such file or directory: 'amp2sh'

Hi,
I'm trying to use dsistudio_to_mrtrix(), but I've the following error:

87 np.savetxt(dirs_txt, np.column_stack([phi, theta])) 88 ---> 89 popen_run(["amp2sh", "-force", "-directions", dirs_txt, "odf_values.nii", sh_mif]) 90 os.remove("odf_values.nii")
15 16 def popen_run(arg_list): ---> 17 cmd = subprocess.Popen(arg_list, stdout=subprocess.PIPE, 18 stderr=subprocess.PIPE) 19 out, err = cmd.communicate()

~/opt/anaconda3/lib/python3.8/subprocess.py in __init__(self, args, bufsize, executable, stdin, stdout, stderr, preexec_fn, close_fds, shell, cwd, env, universal_newlines, startupinfo, creationflags, restore_signals, start_new_session, pass_fds, encoding, errors, text) 852 encoding=encoding, errors=errors) 853 --> 854 self._execute_child(args, executable, preexec_fn, close_fds, 855 pass_fds, cwd, env, 856 startupinfo, creationflags, shell,

`~/opt/anaconda3/lib/python3.8/subprocess.py in _execute_child(self, args, executable, preexec_fn, close_fds, pass_fds, cwd, env, startupinfo, creationflags, shell, p2cread, p2cwrite, c2pread, c2pwrite, errread, errwrite, restore_signals, start_new_session)
1700 if errno_num != 0:
1701 err_msg = os.strerror(errno_num)
-> 1702 raise child_exception_type(errno_num, err_msg, err_filename)
1703 raise child_exception_type(err_msg)
1704

FileNotFoundError: [Errno 2] No such file or directory: 'amp2sh'`