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[modeller_usage] Alignment missing



Dear Modeller team,

I need your quick suggestions and corrections on my scripts that I have been using to run on multiple computers. I am not getting any errors when I run the script3.py. But, when I compare the files .pap and .ali with other alignment servers like muscle, there are aminoacids missing in the alignment with Modeller. I don`t know where is the problem, if it is related to the alignmet with Modeller or if there is a problem in the script.py.

Best regards.

Paul Zair Leyva Miranda
Laboratory of Molecular Modeling
ESM-IPN


Attachment: script3.py
Description: script3.py

Attachment: seq1-tseq1ABGH.ALI
Description: seq1-tseq1ABGH.ALI

Attachment: seq1-tseq1ABGH.pap
Description: seq1-tseq1ABGH.pap