Protenix

Changed

- Add visualization for confidence head in protenix server
- Other modification for Protenix server
- Add some main functions to facilitate the server to call through the command line
- When searching for msa, add an optional parameter email. Used to distinguish the inference traffic of the web server with login status and the traffic of the user's local inference
- Fix inplace-safe bug in confidence head, which will affect the ranking

**Full Changelog**: https://github.com/bytedance/Protenix/compare/v0.3.2...v0.3.3

Changed
- Fix checkpoint cache dir bug

**Full Changelog**: https://github.com/bytedance/Protenix/compare/v0.3.1...v0.3.2

Changed
- Support msa search and tojson
- Fix the problem that the same chain number comes from different entity_id in pdb_to_cif
- Add plddt to the output CIF file in the form of Bfactor


**Full Changelog**: https://github.com/bytedance/Protenix/compare/v0.3.0...v0.3.1

Changed
- Update License to Apache 2.0 license (commercial use)
- Support msa search and mutiple seed for command line inference
- Fix download dir for user do not have root permission in Inference

**Full Changelog**: https://github.com/bytedance/Protenix/compare/v0.2.0...v0.3.0

Changes
- Retrain Confidence head and fix plddt range
- The model weight is updated

**Full Changelog**: https://github.com/bytedance/Protenix/compare/v0.1.0...v0.2.0

What's Changed
* update readme by zhangyuxuann in https://github.com/bytedance/Protenix/pull/14
* Fix: layer_norm.py unnecessary writes by alexzhang13 in https://github.com/bytedance/Protenix/pull/15
* Fixed cmd to test docker GPU by jaketanderson in https://github.com/bytedance/Protenix/pull/17
* Compatibility issues with string types in input JSON by cloverzizi in https://github.com/bytedance/Protenix/pull/19
* unify letter cases of keys used in frontend by Kqiii in https://github.com/bytedance/Protenix/pull/20
* remove layernorm chunk code which will make train/inference slow down by yangyanpinghpc in https://github.com/bytedance/Protenix/pull/22
* Include seed in final name by hypnopump in https://github.com/bytedance/Protenix/pull/34

New Contributors
* zhangyuxuann made their first contribution in https://github.com/bytedance/Protenix/pull/14
* alexzhang13 made their first contribution in https://github.com/bytedance/Protenix/pull/15
* jaketanderson made their first contribution in https://github.com/bytedance/Protenix/pull/17
* cloverzizi made their first contribution in https://github.com/bytedance/Protenix/pull/19
* Kqiii made their first contribution in https://github.com/bytedance/Protenix/pull/20
* yangyanpinghpc made their first contribution in https://github.com/bytedance/Protenix/pull/22
* hypnopump made their first contribution in https://github.com/bytedance/Protenix/pull/34

**Full Changelog**: https://github.com/bytedance/Protenix/commits/v0.1.0