8000 [ENH] Allow multithreading in eddy by mattcieslak · Pull Request #743 · PennLINC/qsiprep · GitHub
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[ENH] Allow multithreading in eddy #743

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Merged
merged 1 commit into from
May 2, 2024
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[ENH] Allow multithreading in eddy #743

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20 changes: 5 additions & 15 deletions qsiprep/interfaces/eddy.py
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Original file line number Diff line number Diff line change
Expand Up @@ -141,6 +141,10 @@ def _run_interface(self, runtime):
return runtime


class ExtendedEddyInputSpec(fsl.epi.EddyInputSpec):
num_threads = traits.Int(1, usedefault=True, argstr="--nthr=%d")


class ExtendedEddyOutputSpec(fsl.epi.EddyOutputSpec):
shell_PE_translation_parameters = File(
exists=True, desc=("the translation along the PE-direction between the different shells")
Expand Down Expand Up @@ -169,29 +173,15 @@ class ExtendedEddyOutputSpec(fsl.epi.EddyOutputSpec):


class ExtendedEddy(fsl.Eddy):
input_spec = ExtendedEddyInputSpec
output_spec = ExtendedEddyOutputSpec

_num_threads = 1

def __init__(self, **inputs):
super(ExtendedEddy, self).__init__(**inputs)
self.inputs.on_trait_change(self._num_threads_update, "num_threads")
if not isdefined(self.inputs.num_threads):
self.inputs.num_threads = self._num_threads
else:
self._num_threads_update()
self.inputs.on_trait_change(self._use_cuda, "use_cuda")
if isdefined(self.inputs.use_cuda):
self._use_cuda()

def _num_threads_update(self):
self._num_threads = self.inputs.num_threads
if not isdefined(self.inputs.num_threads):
if "OMP_NUM_THREADS" in self.inputs.environ:
del self.inputs.environ["OMP_NUM_THREADS"]
else:
self.inputs.environ["OMP_NUM_THREADS"] = str(self.inputs.num_threads)

def _use_cuda(self):
self._cmd = "eddy_cuda10.2" if self.inputs.use_cuda else "eddy_cpu"

Expand Down
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