SoodabehGhaffari issues

Results 17 issues of


                                            SoodabehGhaffari

urllib error when change the type of model

Hello, I ran Cellpose successfully on my images with the model cyto2, however, when I change the model type to cyto or nuclei, I receive an error message regarding the...

WARNING: no mask pixels found

Hello, I am running Cellpose on a large number of images using job arrays on GPU Cluster. In the log file of SOME jobs, I have the following warning: could...

running cellpose on offline cluster

Dear Cellpose Community, I am running cellpose on an offline cluster and I get an error message when running the line "model= models.Cellpose(gpu=True, model_type='cyto2'). I am attaching the screenshots of...

issue with importing deepchem on compute nodes on clusters without Internet access

Hello, I just started working with deepchem and I have an issue with installation. I am working on a cluster and I created my conda environment and installed deepchem through...

atom type G after ligand preparation appears in .pdbqt

Hello, I have done docking between a ligand and a receptor using AutoDock vina. In the final output (_out.pdbqt), I realized there is an atom G (which does not exist...

docking results from AutoDock Vina are not aligned with the experimental structure

Hello, I have used AutoDock-vina (vina scoring function) for docking a ligand inside a target which I have the experimental result. The docking result is not aligned with the experimental...

question

Affinity map for atom type O_A is not present.

Hello, I am using AutoDock Vina and I am facing an issue stating that "ERROR: Affinity map for atom type O_A is not present." How should I handle this issue?...

question

molecule_preparation

SoodabehGhaffari