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Download protein structure from PDB

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

Feature

#143 In ProteinGym/proteingym-benchmark;

· JCZuurmond opened on Oct 30, 2025

Record metrics over all splits instead of test predictions only

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

Feature

#133 In ProteinGym/proteingym-benchmark;

· florisvdf opened on Oct 15, 2025

running pg-benchmark does not take into account dataset splits.

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

Feature

#114 In ProteinGym/proteingym-benchmark;

· karel-w opened on Sep 29, 2025

Do we need multi-platform builds for AWS/Cloud provider?

Status: Open.

#112 In ProteinGym/proteingym-benchmark;

· karel-w opened on Sep 29, 2025

ADR - Which type of SageMaker job to use for the supervising / zero-shot scenarios

Status: Open.

Task

#104 In ProteinGym/proteingym-benchmark;

· tintinrevient opened on Sep 15, 2025

Verify DVC works with Slurm

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

Feature

#97 In ProteinGym/proteingym-benchmark;

· JCZuurmond opened on Sep 4, 2025

When a model uses MSA, it should report which of the MSA in the dataset it was that was used

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

Feature

#85 In ProteinGym/proteingym-benchmark;

· hredestig opened on Aug 14, 2025

Install pg2-dataset within Dockerfile

Status: Open.

#78 In ProteinGym/proteingym-benchmark;

· tintinrevient opened on Jul 24, 2025

Create a IFF "bot" email account which manages the tokens to private repos and add comments in PRs

help wantedExtra attention is neededExtra attention is needed

Status: Open.

Bug

#57 In ProteinGym/proteingym-benchmark;

· tintinrevient opened on Jul 16, 2025

ESM pretrained model weights throw OOM

refineIssues with this tag needs refinement by team. Typically used to brain dump issues that pop upIssues with this tag needs refinement by team. Typically used to brain dump issues that pop up

Status: Open.

#33 In ProteinGym/proteingym-benchmark;

· karel-w opened on Jul 10, 2025

DVC pull a repo, build container from Dockerfile and run benchmark

Status: Open.

Feature

#25 In ProteinGym/proteingym-benchmark;

· JCZuurmond opened on Jul 9, 2025

·  

Benchmark multiple models against model datasets

Different repo for models or not?

Status: Open.

#20 In ProteinGym/proteingym-benchmark;

· tintinrevient opened on Jul 9, 2025

·  

Benchmark multiple models against model datasets