[dependabot]

Bumps hydra-core from 1.3.4 to 1.3.7.

Release notes

Sourced from hydra-core's releases.

Hydra 1.3.7

What's Changed

• Strengthen defense-in-depth checks for configured targets, Python runtime state, process-environment mutation, and logging formatters. These checks are not a complete security boundary. (#3442)

Full Changelog: hydra-ecosystem/hydra@v1.3.6...v1.3.7

Hydra 1.3.6

What's Changed

• Harden instantiate authorization against unsafe aliases and callable results. (#3410)
• Apply Hydra's target blacklist to Python logging configuration. (#3418)

Full Changelog: hydra-ecosystem/hydra@v1.3.5...v1.3.6

Hydra 1.3.5

What's Changed

• Warn Hydra 1.3 users relying on Hydra 1.1 behavior (#3347)

Full Changelog: hydra-ecosystem/hydra@v1.3.4...v1.3.5

Changelog

Sourced from hydra-core's changelog.

1.3.7 (2026-09-14)

Bug Fixes

• Strengthen defense-in-depth checks for configured targets, Python runtime state, process-environment mutation, and logging formatters. These checks are not a complete security boundary. (#3442) 1.3.6 (2026-08-29) ==================

Bug Fixes

• Harden instantiate authorization against unsafe aliases and callable results. (#3410)
• Apply Hydra's target blocklist to Python logging configuration. (#3418)

1.3.5 (2026-08-06)

API Change (Renames, deprecations and removals)

• Warn Hydra 1.3 applications that rely on Hydra 1.1 compatibility before upgrading to Hydra 1.4. (#3334)

Commits

• 81715a5 Prepare hydra-core 1.3.7 release
• 4720dfc Merge commit from fork
• 27df755 Prepare Hydra 1.3.6 release
• ff3e4db Harden logging target resolution on 1.3 (#3420)
• aa102ea Harden deferred instantiate dispatch on 1.3
• 2c82bbb Backport instantiate target authorization hardening to 1.3 (#3413)
• 06613ce Bump Hydra to 1.3.6.dev0
• 51647a2 Release Hydra 1.3.5
• 445b0a7 Warn Hydra 1.3 users relying on 1.1 compatibility (#3347)
• See full diff in compare view

[github-actions]

Summary

Summary

Generated on:	10/12/2026 - 18:13:36
Parser:	Cobertura
Assemblies:	5
Classes:	32
Files:	32
Line coverage:	85.3% (2153 of 2524)
Covered lines:	2153
Uncovered lines:	371
Coverable lines:	2524
Total lines:	8079
Covered branches:	0
Total branches:	0
Method coverage:	Feature is only available for sponsors

Coverage

src.bioemu - 87.2%

Name	Line	Branch
src.bioemu	87.2%	****
init.py	100%
chemgraph.py	100%
convert_chemgraph.py	79.5%
denoiser.py	98.3%
get_embeds.py	92.1%
md_utils.py	85.8%
model_utils.py	80.4%
models.py	94.1%
run_hpacker.py	0%
sample.py	92.2%
sde_lib.py	88.3%
seq_io.py	100%
shortcuts.py	100%
sidechain_relax.py	75%
so3_sde.py	90.3%
structure_module.py	84.3%
utils.py	65.6%

src.bioemu.colabfold_inline - 79.1%

Name	Line	Branch
src.bioemu.colabfold_inline	79.1%	****
init.py
features.py	100%
input_parsing.py	100%
model_runner.py	99%
msa_client.py	60.8%

src.bioemu.hpacker_setup - 69.2%

Name	Line	Branch
src.bioemu.hpacker_setup	69.2%	****
init.py
setup_hpacker.py	69.2%

src.bioemu.steering - 79.5%

Name	Line	Branch
src.bioemu.steering	79.5%	****
init.py	100%
collective_variables.py	34.8%
dpm_fkc.py	100%
dpm_smc.py	100%
potentials.py	95.3%
utils.py	83.5%

src.bioemu.training - 100%

Name	Line	Branch
src.bioemu.training	100%	****
foldedness.py	100%
loss.py	100%

[github-actions]

Summary

Summary

Generated on:	10/12/2026 - 18:26:26
Parser:	Cobertura
Assemblies:	5
Classes:	32
Files:	32
Line coverage:	85.3% (2153 of 2524)
Covered lines:	2153
Uncovered lines:	371
Coverable lines:	2524
Total lines:	8079
Covered branches:	0
Total branches:	0
Method coverage:	Feature is only available for sponsors

Coverage

src.bioemu - 87.2%

Name	Line	Branch
src.bioemu	87.2%	****
init.py	100%
chemgraph.py	100%
convert_chemgraph.py	79.5%
denoiser.py	98.3%
get_embeds.py	92.1%
md_utils.py	85.8%
model_utils.py	80.4%
models.py	94.1%
run_hpacker.py	0%
sample.py	92.2%
sde_lib.py	88.3%
seq_io.py	100%
shortcuts.py	100%
sidechain_relax.py	75%
so3_sde.py	90.3%
structure_module.py	84.3%
utils.py	65.6%

src.bioemu.colabfold_inline - 79.1%

Name	Line	Branch
src.bioemu.colabfold_inline	79.1%	****
init.py
features.py	100%
input_parsing.py	100%
model_runner.py	99%
msa_client.py	60.8%

src.bioemu.hpacker_setup - 69.2%

Name	Line	Branch
src.bioemu.hpacker_setup	69.2%	****
init.py
setup_hpacker.py	69.2%

src.bioemu.steering - 79.5%

Name	Line	Branch
src.bioemu.steering	79.5%	****
init.py	100%
collective_variables.py	34.8%
dpm_fkc.py	100%
dpm_smc.py	100%
potentials.py	95.3%
utils.py	83.5%

src.bioemu.training - 100%

Name	Line	Branch
src.bioemu.training	100%	****
foldedness.py	100%
loss.py	100%