[phenixbb] rosetta fragment files

[Thomas C. Terwilliger]

Hi Leonid and Pietro,

phenix.mr_rosetta should be able to read either gzipped or unzipped
fragment files.  The problem is that the robetta server only allows models
of up to 650 residues.  You can combine fragment files...but you have to
renumber the residue numbers in them. I am checking that out now.

All the best,
Tom T

>> Perhaps the fragment files need to be gzipped!
>>
>> P
>> ________________________________________
>> From: phenixbb-bounces at phenix-online.org
>> [phenixbb-bounces at phenix-online.org] On Behalf Of Leonid Sazanov
>> [sazanov at mrc-mbu.cam.ac.uk]
>> Sent: 16 June 2011 13:11
>> To: phenixbb at phenix-online.org
>> Subject: [phenixbb] rosetta fragment files
>>
>> Hi, I am trying to use mr_rosetta with phenix-1.7.1-743 and rosetta 3.2.1.
>> All rosetta tests passed OK.
>> I have several large protein chains in the starting model (already
>> placed).
>> So I had to get several pairs of fragment files from robetta server and
>> list all of them in the script.
>> Then mr_rosetta fails at the REBUILD_1 stage with the message:
>> could not open file (fragment file), although file is definitely there.
>> Is the reason that one can have only two input fragment files (3/9)?
>> Can several fragment files be combined into two 3/9 ones?
>> Thanks
>>
>> --
>> Dr. Leonid A. Sazanov
>> Research group leader
>> Medical Research Council
>> Mitochondrial Biology Unit
>> Wellcome Trust / MRC Building
>> Hills Road
>> Cambridge
>> CB2 0XY
>>
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