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add patch for AlphaFold v2.2.2 to fix NaN problem with jax 0.3.9 #15874

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merged 2 commits into from
Aug 4, 2022
Merged

add patch for AlphaFold v2.2.2 to fix NaN problem with jax 0.3.9 #15874

merged 2 commits into from
Aug 4, 2022

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ThomasHoffmann77
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@ThomasHoffmann77 ThomasHoffmann77 commented Jul 19, 2022 •
edited by boegel
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(created using eb --new-pr)

edit (by @boegel): patch based on google-deepmind/alphafold#513

@ThomasHoffmann77 ThomasHoffmann77 changed the title patch for fixing jax0.3.9 nan problem {bio}[foss/2021a] AlphaFold v2.2.2 patch for fixing jax0.3.9 nan problem Jul 19, 2022
@jfgrimm jfgrimm modified the milestone: 4.x Jul 19, 2022
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jfgrimm commented Jul 19, 2022

Test report by @jfgrimm
SUCCESS
Build succeeded for 3 out of 3 (2 easyconfigs in total)
gpu02.pri.viking.alces.network - Linux CentOS Linux 7.9.2009, x86_64, Intel(R) Xeon(R) Gold 6138 CPU @ 2.00GHz (skylake_avx512), 1 x NVIDIA Tesla V100-SXM2-32GB, 510.47.03, Python 3.6.8
See https://gist.github.com/b5f5bf7acd938ae761adcf5f67708911 for a full test report.

@boegel boegel changed the title {bio}[foss/2021a] AlphaFold v2.2.2 patch for fixing jax0.3.9 nan problem add patch for AlphaFold v2.2.2 to fix NaN problem with jax 0.3.9 Aug 3, 2022
@boegel boegel force-pushed the 20220719101426_new_pr_AlphaFold222 branch from 2f36e45 to fc8be77 Compare August 4, 2022 14:27
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boegel approved these changes Aug 4, 2022
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lgtm

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boegel commented Aug 4, 2022

Test report by @boegel
SUCCESS
Build succeeded for 2 out of 2 (2 easyconfigs in total)
node3307.joltik.os - Linux RHEL 8.4, x86_64, Intel(R) Xeon(R) Gold 6242 CPU @ 2.80GHz (cascadelake), 1 x NVIDIA Tesla V100-SXM2-32GB, 510.73.08, Python 3.6.8
See https://gist.github.com/0c9644652b6d998d242151332723590d for a full test report.

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boegel commented Aug 4, 2022

Test report by @boegel
SUCCESS
Build succeeded for 2 out of 2 (2 easyconfigs in total)
node3904.accelgor.os - Linux RHEL 8.4, x86_64, AMD EPYC 7413 24-Core Processor (zen3), 1 x NVIDIA NVIDIA A100-SXM4-80GB, 510.73.08, Python 3.6.8
See https://gist.github.com/116e89b284db226dd37e201d7837d91f for a full test report.

@boegel boegel modified the milestones: 4.x, next release (4.6.1?) Aug 4, 2022
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boegel commented Aug 4, 2022

Going in, thanks @ThomasHoffmann77!

@boegel boegel merged commit aabaebf into easybuilders:develop Aug 4, 2022
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