force 1 thread if eddy run on gpu

Author: mauriliogenovese

nipype/interfaces/fsl/epi.py

@@ -960,6 +960,8 @@ def __init__(self, **inputs):
             self._use_cuda()
 
     def _num_threads_update(self):
+        if self.inputs.use_cuda and gpu_count()>0:
+            self.inputs.num_threads = 1
         self._num_threads = self.inputs.num_threads
         if not isdefined(self.inputs.num_threads):
             if "OMP_NUM_THREADS" in self.inputs.environ:
@@ -969,12 +971,13 @@ def _num_threads_update(self):
 
     def _use_cuda(self):
         if self.inputs.use_cuda and gpu_count()>0:
+            self.inputs.num_threads = 1
             # eddy_cuda usually link to eddy_cudaX.X but some versions miss the symlink
             # anyway in newer fsl versions eddy automatically use cuda on cuda-capable systems
             self._cmd = "eddy_cuda" if which("eddy_cuda") else "eddy"
         else:
             # older fsl versions has cuda_openmp, newer versions has eddy_cpu
-            _cmd = "eddy_openmp" if which("eddy_openmp") else "eddy_cpu"
+            self._cmd = "eddy_openmp" if which("eddy_openmp") else "eddy_cpu"
 
     def _run_interface(self, runtime):
         # If selected command is missing, use generic 'eddy'