Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / nrbennet/dl_binder_design issues and pull requests

#99 - Some typo in the template residue mask code

Issue - State: open - Opened by sirius777coder 19 days ago

#99 - Some typo in the template residue mask code

Issue - State: open - Opened by sirius777coder 19 days ago

#98 - Multimer and Alphafold3 prediction

Issue - State: open - Opened by Kangfengyuuuu about 1 month ago

#98 - Multimer and Alphafold3 prediction

Issue - State: open - Opened by Kangfengyuuuu about 1 month ago

#97 - Optimize image

Pull Request - State: closed - Opened by JYlag about 1 month ago

#97 - Optimize image

Pull Request - State: closed - Opened by JYlag about 1 month ago

#96 - Potential bug in the assignment of fixed positions to chains

Issue - State: open - Opened by ahof1704 about 2 months ago

#96 - Potential bug in the assignment of fixed positions to chains

Issue - State: open - Opened by ahof1704 about 2 months ago

#95 - Why can't get a complex after af2 relax prediction

Issue - State: open - Opened by uioQPS 2 months ago

#95 - Why can't get a complex after af2 relax prediction

Issue - State: open - Opened by uioQPS 2 months ago

#94 - fix filename extension

Pull Request - State: open - Opened by deepsatflow 3 months ago

#94 - fix filename extension

Pull Request - State: open - Opened by deepsatflow 3 months ago

#93 - Parallelization?

Issue - State: open - Opened by Epannec 3 months ago

#93 - Parallelization?

Issue - State: open - Opened by Epannec 3 months ago

#92 - SCOPData Deprecated in Latest Biopython

Issue - State: open - Opened by mnoyes68 4 months ago

#92 - SCOPData Deprecated in Latest Biopython

Issue - State: open - Opened by mnoyes68 4 months ago

#91 - Update README.md

Pull Request - State: open - Opened by lbugnon 4 months ago

#91 - Update README.md

Pull Request - State: open - Opened by lbugnon 4 months ago

#90 - Fix install instructions

Pull Request - State: open - Opened by lbugnon 4 months ago

#90 - Fix install instructions

Pull Request - State: open - Opened by lbugnon 4 months ago

#87 - Issue with predict.py utput

Issue - State: open - Opened by Bilal0101-debug 4 months ago - 1 comment

#87 - Issue with predict.py utput

Issue - State: open - Opened by Bilal0101-debug 4 months ago - 1 comment

#85 - dl_binder_design af2_initial_guess not functioning

Issue - State: open - Opened by A2t3m15 4 months ago - 1 comment

#85 - dl_binder_design af2_initial_guess not functioning

Issue - State: open - Opened by A2t3m15 4 months ago - 1 comment

#81 - Some confusion about the results

Issue - State: open - Opened by ghost 7 months ago

#81 - Some confusion about the results

Issue - State: open - Opened by ghost 7 months ago

#80 - Unable to connect to GPU

Issue - State: open - Opened by david1234janitor 7 months ago - 1 comment

#80 - Unable to connect to GPU

Issue - State: open - Opened by david1234janitor 7 months ago - 1 comment

#78 - Any chance to share a docker or apptainer file?

Issue - State: open - Opened by yilunqi 8 months ago

#78 - Any chance to share a docker or apptainer file?

Issue - State: open - Opened by yilunqi 8 months ago

#75 - Complex error - cuDNN/CuFFT/Numpy version(?)

Issue - State: open - Opened by Avidhoot26 9 months ago - 1 comment

#75 - Complex error - cuDNN/CuFFT/Numpy version(?)

Issue - State: open - Opened by Avidhoot26 9 months ago - 1 comment

#74 - For reproducing RFdiffusion experiment

Issue - State: open - Opened by haoyuanli66 9 months ago

#74 - For reproducing RFdiffusion experiment

Issue - State: open - Opened by haoyuanli66 9 months ago

#73 - Question about AF2 model weights

Issue - State: open - Opened by Artolomeus 9 months ago - 2 comments

#73 - Question about AF2 model weights

Issue - State: open - Opened by Artolomeus 9 months ago - 2 comments

#71 - Update predict.py

Pull Request - State: open - Opened by KoningCheems 10 months ago

#71 - Update predict.py

Pull Request - State: open - Opened by KoningCheems 10 months ago

#66 - Sampling Temperature

Issue - State: open - Opened by johnny-rodriguez 11 months ago

#66 - Sampling Temperature

Issue - State: open - Opened by johnny-rodriguez 11 months ago

#65 - Majority of the sequence is composed of lysines

Issue - State: open - Opened by ackbar03 11 months ago - 1 comment

#65 - Majority of the sequence is composed of lysines

Issue - State: open - Opened by ackbar03 11 months ago - 1 comment

#64 - Update jax specification in import

Pull Request - State: closed - Opened by nrbennet 11 months ago

#64 - Update jax specification in import

Pull Request - State: closed - Opened by nrbennet 11 months ago

#63 - Add PyRosetta checking to import tests

Pull Request - State: closed - Opened by nrbennet 11 months ago

#63 - Add PyRosetta checking to import tests

Pull Request - State: closed - Opened by nrbennet 11 months ago

#60 - Segmentation fault (core dumped) for CUDA12

Issue - State: closed - Opened by danboshuiyan 12 months ago - 7 comments

#60 - Segmentation fault (core dumped) for CUDA12

Issue - State: closed - Opened by danboshuiyan 12 months ago - 7 comments

#59 - Calculate RMSD of all designs

Pull Request - State: closed - Opened by nrbennet about 1 year ago

#59 - Calculate RMSD of all designs

Pull Request - State: closed - Opened by nrbennet about 1 year ago

#58 - af2_complex_rmsd score?

Issue - State: closed - Opened by caleblareau about 1 year ago - 3 comments

#58 - af2_complex_rmsd score?

Issue - State: closed - Opened by caleblareau about 1 year ago - 3 comments

#57 - Is "AF2 initial guess" supposed to have access to the standard AF2 databases?

Issue - State: closed - Opened by rszabla about 1 year ago - 3 comments

#57 - Is "AF2 initial guess" supposed to have access to the standard AF2 databases?

Issue - State: closed - Opened by rszabla about 1 year ago - 3 comments

#56 - <class 'IndexError'> when using dl_interface_design.py

Issue - State: open - Opened by aw10279 about 1 year ago - 4 comments

#56 - <class 'IndexError'> when using dl_interface_design.py

Issue - State: open - Opened by aw10279 about 1 year ago - 4 comments

#54 - Update conda yml

Pull Request - State: closed - Opened by nrbennet about 1 year ago

#54 - Update conda yml

Pull Request - State: closed - Opened by nrbennet about 1 year ago

#53 - differenct result of the AF2 initial guess for the same protein

Issue - State: closed - Opened by jongseo-park about 1 year ago - 6 comments

#53 - differenct result of the AF2 initial guess for the same protein

Issue - State: closed - Opened by jongseo-park about 1 year ago - 6 comments

#52 - ml_dtypes > 0.2 breaks the af2_binder_design environment

Issue - State: closed - Opened by rszabla about 1 year ago - 1 comment

#52 - ml_dtypes > 0.2 breaks the af2_binder_design environment

Issue - State: closed - Opened by rszabla about 1 year ago - 1 comment

#51 - Minimized AF2 predictions

Issue - State: closed - Opened by almeida85 about 1 year ago - 2 comments

#51 - Minimized AF2 predictions

Issue - State: closed - Opened by almeida85 about 1 year ago - 2 comments

#50 - Segementation fault: pyrosetta & tensorflow

Issue - State: closed - Opened by charbj about 1 year ago - 3 comments

#50 - Segementation fault: pyrosetta & tensorflow

Issue - State: closed - Opened by charbj about 1 year ago - 3 comments

#49 - Guidance Needed: Specifying GPU for AF2_initial_guess

Issue - State: closed - Opened by assiduous006 about 1 year ago - 4 comments

#49 - Guidance Needed: Specifying GPU for AF2_initial_guess

Issue - State: closed - Opened by assiduous006 about 1 year ago - 4 comments

#47 - Run dl_binder_design with already generated backbones

Issue - State: closed - Opened by plvdac1 about 1 year ago - 1 comment

#47 - Run dl_binder_design with already generated backbones

Issue - State: closed - Opened by plvdac1 about 1 year ago - 1 comment

#46 - example script for <<inputs/pdbs /design_ppi_0.pdb>>

Issue - State: closed - Opened by 21tesla about 1 year ago - 1 comment

#46 - example script for <<inputs/pdbs /design_ppi_0.pdb>>

Issue - State: closed - Opened by 21tesla about 1 year ago - 1 comment