fsl_sub changed

run_template_construction.py

@@ -433,8 +433,7 @@ def applyWarpWrapper(img_path, ref_path, warped_path, warp_path, interp='spline'
 
 
 # https://git.fmrib.ox.ac.uk/fsl/fsl_sub
-def submitJob(command, name, log_dir, queue, wait_for=None, array_task=False, coprocessor=None, coprocessor_class=None,
-              coprocessor_multi="1", threads=1, export_var=None):
+def submitJob(command, name, log_dir, queue, wait_for=None, array_task=False, coprocessor=None, coprocessor_class=None, coprocessor_multi="1", threads=1, export_var=None):
     coprocessor_class_strict = True if coprocessor_class is not None else False
 
     job_id = fsl_sub.submit(command=command,
@@ -1422,7 +1421,7 @@ if __name__ == "__main__":
                 #                         export_var=export_var_str['SINGULARITY_BIND'], debug=False)
                 job_ids[28] = submitJob(script_path, tag + '_' + task_name, log_dir, queue=gpuq,
                                         wait_for=list(itemgetter(*[21, 23, 24, 25, 26, 27, 28, 44, 45, 46, 47, 48, 50])(job_ids)),
-                                        array_task=True, coprocessor='cuda', export_var=[export_var_str['SINGULARITY_BIND']])
+                                        array_task=True, coprocessor='cuda', coprocessor_class=None, coprocessor_multi="1", threads=1, export_var=[export_var_str['SINGULARITY_BIND']])
                 print('submitted: ' + task_name)
 
 # Averaging warps