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Failure to do a global alignment (nw
) of really long proteins
#3
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I tried to replicate it with randomly generated sequences, but now it always fails. Is this an alphabet issue?
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I'll have a look when I have more time, I'm also getting failures with the random sequences. |
Overflow detection was turned off for 32-bit integer scoring. This only affected the non-SW alignment modes, as SW uses a different function where overflow worked as expected. I updated the code in my fork of Opal. |
Fixed in |
I align some extremely long (>20,000 aa) proteins against AF2DB.
Opal fails to do that at ~30,000 aa with
RuntimeError: Failed to run search Opal database (code=1)
for 2 longest sequences in the dataset, both inscore
andfull
mode.Code to reproduce:
data.zip
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