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3dem / model-angelo

Automatic atomic model building program for cryo-EM maps
MIT License
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the model is shown as lines; IndexError: arrays used as indices must be of integer (or boolean) type #21

Closed DmitrySemchonok closed 1 year ago

DmitrySemchonok commented 1 year ago

Hello Kiarash, @jamaliki

After running model-angelo with a fasta file, the final result (see_alpha_output_ca.cif) is shown as direct lines and looks more like a hedgehog.

Screenshot 2022-11-01 at 12 19 55

The results in the other folders (output_ca_points_before_pruning.cif) look like that

Screenshot 2022-11-01 at 12 20 39

As for the gnn_outputround folders - the results are looking somewhat better

Screenshot 2022-11-01 at 12 22 34

But if I want to see only the alpha-helices and hide atoms, I see this

Screenshot 2022-11-01 at 12 23 26

How could you interpret the results? Did something go wrong?

Please see the model-angelo log below. It seems that it has an error. Is there a way to fix it and the model itself? model_angelo.log

Kind regards, Dmitry

jamaliki commented 1 year ago

Hi @DmitrySemchonok ,

This is very strange. What is the resolution of the map? Would you be willing to send the sequence and the map to me so I can debug this?

Best, Kiarash.

lyw8120 commented 7 months ago

Hi @DmitrySemchonok ,

This is very strange. What is the resolution of the map? Would you be willing to send the sequence and the map to me so I can debug this?

Best, Kiarash.

was this bug solved?

best wishes