nrbennet dl_binder_design issues

nrbennet / dl_binder_design

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FileNotFoundError in dl_binder_design when running multiple silent files in parallel

#88 xuqiqin opened 3 days ago
0
Issue with predict.py utput

#87 Bilal0101-debug opened 3 days ago
0
in af2_initial_guess/predict.py PDB mode skips checkpoints due to inconsistent naming in self.finished_structs

#86 xuqiqin opened 5 days ago
0
dl_binder_design af2_initial_guess not functioning

#85 A2t3m15 opened 5 days ago
0
dl_interface_design.py does not like scaffolds with periods

#84 drewschaub opened 2 months ago
0
An error occurred during the testing of the ProteinMPNN FastRelax Environment.

#83 AIM132 opened 2 months ago
2
In lab experiment, binding affinity is pretty strong, but pae_interaction is only around 28

#82 Huilin-Li opened 3 months ago
1
Some confusion about the results

#81 ghost opened 3 months ago
0
Unable to connect to GPU

#80 david1234janitor opened 3 months ago
1
after af2_initial_guess/predict.py, the distance between binder and target becomes much longer

#79 rocke2020 opened 3 months ago
0
Any chance to share a docker or apptainer file?

#78 yilunqi opened 3 months ago
0
make_msa_features "unexcpected input=deletion_matrices"

#77 rmdelaney13 closed 3 months ago
0
insert_Rosetta_chainbreaks has an incorrect method signature

#76 jonlevi opened 3 months ago
0
Complex error - cuDNN/CuFFT/Numpy version(?)

#75 Avidhoot26 opened 4 months ago
1
For reproducing RFdiffusion experiment

#74 haoyuanli66 opened 4 months ago
0
Question about AF2 model weights

#73 Artolomeus opened 4 months ago
1
error with af2_binder_design.yml - ImportError: cannot import name 'SCOPData' from 'Bio.Data - wrong version of biopython

#72 drewschaub opened 5 months ago
1
Update predict.py

#71 KoningCheems opened 5 months ago
0
How to use the addFIXEDlabels.py script, what is the meaning for trb

#70 ning-2022 closed 5 months ago
0
segmentation fault (core dumped) when running predict.py in af2_binder_design

#69 MadelineMartin closed 5 months ago
4
Floating point exception (Segmentation fault) when testing the conda env from af2_binder_design.yml

#68 daniel-sali opened 6 months ago
3
Sampling Temperature

#66 johnny-rodriguez opened 6 months ago
0
Majority of the sequence is composed of lysines

#65 ackbar03 opened 6 months ago
0
Update jax specification in import

#64 nrbennet closed 6 months ago
0
Add PyRosetta checking to import tests

#63 nrbennet closed 6 months ago
0
Segmentation fault (core dumped) for CUDA12

#60 danboshuiyan closed 6 months ago
7
Calculate RMSD of all designs

#59 nrbennet closed 8 months ago
0
af2_complex_rmsd score?

#58 caleblareau closed 8 months ago
3
Is "AF2 initial guess" supposed to have access to the standard AF2 databases?

#57 rszabla closed 8 months ago
3
<class 'IndexError'> when using dl_interface_design.py

#56 aw10279 opened 8 months ago
3
Any reason why cysteine is ommitted by default in ProteinMPNN? Or is that just an accident?

#55 ackbar03 closed 8 months ago
1
Update conda yml

#54 nrbennet closed 8 months ago
0
differenct result of the AF2 initial guess for the same protein

#53 jongseo-park closed 8 months ago
6
ml_dtypes > 0.2 breaks the af2_binder_design environment

#52 rszabla closed 8 months ago
1
Minimized AF2 predictions

#51 almeida85 closed 8 months ago
2
Segementation fault: pyrosetta & tensorflow

#50 charbj closed 8 months ago
3
Guidance Needed: Specifying GPU for AF2_initial_guess

#49 assiduous006 closed 8 months ago
4
Run dl_binder_design with already generated backbones

#47 plvdac1 closed 8 months ago
1
example script for <<inputs/pdbs /design_ppi_0.pdb>>

#46 21tesla closed 9 months ago
1
Examples and Envs

#45 nrbennet closed 9 months ago
0
Add Preetham's fix for addFIXEDlabels.py

#44 nrbennet closed 10 months ago
0
Is it possible to inpaint a missing part of a protein and designing sequences using the dl_binder_design?

#43 wangdoc2002 closed 9 months ago
1
runlist no output

#42 jelka71 closed 9 months ago
1
af2_complex_error

#41 pedrovaliente79 closed 8 months ago
2
af2_complex running error

#40 pedrovaliente79 closed 8 months ago
1
Conda environment setup does not work

#39 brystingjosephine closed 9 months ago
1
RuntimeError: jaxlib/cusolver.cc:51: operation cusolverDnCreate(&handle) failed: cuSolver internal error

#38 SupermeCJ closed 9 months ago
1
Structure with tag designed_tag failed in 0 seconds with error: <class 'IndexError'>

#37 Deoyeh opened 11 months ago
2
for symmetric multimers

#36 jongseo-park closed 9 months ago
1
Add force_monomer option to predict.py

#35 nrbennet closed 12 months ago
0