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Revisions for paper#35

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hllelli2 merged 43 commits intomainfrom
singularity_support
May 28, 2025
Merged

Revisions for paper#35
hllelli2 merged 43 commits intomainfrom
singularity_support

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@hlasimpk
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@hlasimpk hlasimpk commented May 23, 2025

Lots of added features

  • Singularity support, additional --sif_path flag that activates this mode
  • Added PTM and iPTM scores to the output page
  • MMseqs2 local support, additional --mmseqs_database activates this mode
  • Added output_dir with superimposed models
  • Updated the docs
  • fixed broken tests
  • fixed issue with nucleotide only models

hlasimpk and others added 30 commits April 29, 2025 13:19
…ssue when trying to open the output file from the output page
@hlasimpk hlasimpk requested a review from hllelli2 May 23, 2025 20:22
@hlasimpk hlasimpk changed the title Singularity support Revisions for paper May 23, 2025
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Nice work! Thank you for getting these done. The only thing that I think needs adding are tests for the superpose function. As this is a useful addition, we should ensure it always works correctly.

hlasimpk and others added 3 commits May 27, 2025 17:29
…n of af3_error.log, this wasn't happening. Instead new test read the log file and passes if it's the right error message.
@hllelli2 hllelli2 merged commit ddfd5b7 into main May 28, 2025
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2 participants