Member Site › Forums › Rosetta++ › Rosetta++ – General › make_fragments
- This topic has 4 replies, 4 voices, and was last updated 13 years, 6 months ago by
Anonymous.
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AuthorPosts
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September 21, 2009 at 7:42 pm #373
Anonymous
We are trying to install make_fragments.pl locally still. Does anyone know about the neuralnet file that results from predict_2nd site? It seems to call overrep-3617-IDaa13-7-10-11-10-11-7-7-ebghtl-seeded3-stride-trained.net, but the predict_2nd package seems to have this:
t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-stride-seeded.netThanks,
Christy -
September 25, 2009 at 5:15 pm #4200
Anonymous
> We are trying to install make_fragments.pl locally still. Does anyone know about the neuralnet file that results from predict_2nd site? It seems to call overrep-3617-IDaa13-7-10-11-10-11-7-7-ebghtl-seeded3-stride-trained.net, but the predict_2nd package seems to have this:
> t2k-5651-IDaaHr-5-15-7-15-9-15-13-ebghtl-stride-seeded.net
>
> Thanks,
> Christy -
September 25, 2009 at 5:17 pm #4201
Anonymous
I run make_fragments for CS-ROSETTA, and I’ve found, that, personally, I didn’t need to run predict 2nd (I couldn’t get it to compile properly, and I didn’t really have the time to figure it out. ) Make_fragments works without all the secondary structure files.
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February 7, 2011 at 9:21 pm #4981
Anonymous
Bump.
Christy, did you ever find this file? I sent you an email via the forums tool, but I’m not really sure it’s working.
I seem to have basically followed Christy’s steps in getting the make_fragments.pl tool, and I’m currently stuck on the missing overrep-3617-IDaa13-7-10-11-10-11-7-7-ebghtl-seeded3-stride-trained.net file used by predict-2nd. Has anyone actually put together a working make_fragments script?
Presumably Kevin Karplus has or knows how to generate this file, so I guess I’ll ask him next.
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February 7, 2011 at 9:59 pm #4982
Anonymous
“Christy, did you ever find this file? I sent you an email via the forums tool, but I’m not really sure it’s working.”
Probably not – this thread was imported from the “old forums” but the user data was not transferred, so there’s probably no recipient listed for that email.
(No, I don’t know how to do the fragments, unfortunately…)
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