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This is a patch to recon-all that removes parallelism in two places to remove race conditions that sometimes lead to failure

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AndysWorth/recon-all-v7.1.1-parallel-patch

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recon-all-v7.1.1-parallel-patch

This is a patch to recon-all in Freesurfer v7.1.1 (July 27, 2020) that removes parallelism in two places to remove race conditions that sometimes lead to failure. One error message is "Cannot find rh.white.H". See here.

Install with: patch $FREESURFER_HOME/bin/recon-all parallel.patch

While you're at it, you might as well install quantifyThalamicNuclei.patch which is the fix for Segmentation of thalamic nuclei provided here.

Install with: patch $FREESURFER_HOME/bin/quantifyThalamicNuclei.sh quantifyThalamicNuclei.patch

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This is a patch to recon-all that removes parallelism in two places to remove race conditions that sometimes lead to failure

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