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Fixes issue of bumped manifest patches residing in old ephemeral dir (#…
…592) A bug was introduced after #566 was merged where patches in the manifest now had their relative path updated to `patches-new` even after replacing the patches directory. See this automatic bump PR: https://github.com/NVIDIA/JAX-Toolbox/pull/591/files#diff-fe97711a3e6691d7687dcb162852ad8d926930e75cb7bcba71b5eaa3112056efR32
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