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Sequence Profile/Checkpoint file

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Sequence Profile/Checkpoint file

Where is the best place to create a sequence profile for rosetta fragment picker?

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Fri, 2021-04-02 17:29

If I remember correctly the issue that exists with the stemmed from the executable blastpbp only being packaged with a legacy version of blast and not blast+. The NR databases are too large at this point to work with the version of blast that they were previously using.

If you only need to get fragments I would just call fragment picker directly with:

fragment_picker.default... -in:file:fasta ... -in:file:vall ...path_to_vall...

Is there a reason why you need to use the scripts in fragment tools instead?

I had the pdb_to_vall script working on one of my machines back in the fall and I bet I could get the make_fragments script working next weekend if there is something that you need it for. 

Mon, 2021-04-05 13:17