You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I am getting the following error while using caretta from the command line (I can provide the list of pdbs to reproduce the error if needed):
caretta-cli list_IPR000072_pdbs.dat
Found 66 structure files
Found 66 protein structures 100%|
Computed invariants in 13.59 seconds
Found 66 structures with valid invariants 100%|
Aligning: 3%|███
Traceback (most recent call last):
File "/home/disat/amuntoni/miniconda3/bin/caretta-cli", line 127, in <module>
app()
File "/home/disat/amuntoni/miniconda3/bin/caretta-cli", line 108, in align
multiple_alignment.align_from_structure_files(
File "/home/disat/amuntoni/miniconda3/lib/python3.9/site-packages/caretta/multiple_alignment.py", line 519, in align_from_structure_files
alignment = msa_class.multiple_align(
File "/home/disat/amuntoni/miniconda3/lib/python3.9/site-packages/caretta/multiple_alignment.py", line 278, in multiple_align
self.alignment = self.progressive_align(self.tree,
File "/home/disat/amuntoni/miniconda3/lib/python3.9/site-packages/caretta/multiple_alignment.py", line 243, in progressive_align
make_intermediate_node(node_1, node_2, node_int)
File "/home/disat/amuntoni/miniconda3/lib/python3.9/site-packages/caretta/multiple_alignment.py", line 204, in make_intermediate_node
score_matrix = final_sequences[n1].score_function(
File "/home/disat/amuntoni/miniconda3/lib/python3.9/site-packages/caretta/multiple_alignment.py", line 332, in score_function
aln_1, aln_2, score = dtw.smith_waterman(np.arange(score_matrix.shape[0]),
TypeError: expected UniTuple(int64 x 2), got None
Is it related to a "bad" PDB file? How can I spot it?
Thank you for your help!
The text was updated successfully, but these errors were encountered:
I am getting the following error while using caretta from the command line (I can provide the list of pdbs to reproduce the error if needed):
Is it related to a "bad" PDB file? How can I spot it?
Thank you for your help!
The text was updated successfully, but these errors were encountered: