[phenixbb] phenix.mr_rosetta error

[Thomas C. Terwilliger]

Hi Jermaine,

I'm sorry for the error!  I am not quite sure of the problem, but can we
start with these ideas:

1. you can supply either an hhr file (in which case the appropriate PDB
files will be downloaded from the web), or specify an input search model,
but not both.

2. if you are not supplying a search model, then can you send me your hhr
file and your input script (not to the list) and I will run from here and
see if I can debug it.

All the best,
Tom T



 >> Hi,
>> I am trying to use phenix.mr_rosetta supplying a local.hhr file and using
>> only the top alignment which is an NMR structure and the pre_refine
>> option.
>> It finishes the mr.model_preparation and writes out two pdbs  ( _sculpt
>> and
>> _chain that each have 10 ensembles) but then writes out a empty
>> alignment.ali file (should be 100% identity between the template and the
>> search model). Below is the error I get in the RUN_1.log file.
>>
>> Wrote dummy alignment to
>> /pre_refine/MR_ROSETTA_1/GROUP_OF_PLACE_MODEL_1/RUN_1/alignment.ali
>>
>> ******************* ERROR ENDING ***************
>>
>> Sorry, the alignment file
>> ['/pre_refine/MR_ROSETTA_1/GROUP_OF_PLACE_MODEL_1/RUN_1/alignment.ali']
>> does not have enough lines (6 required, 0 found):
>>
>>
>> Note: last line needs to be '--'
>>
>>
>> ******************* ERROR ENDING ***************
>>
>> Sorry, the alignment file
>> ['../pre_refine/MR_ROSETTA_1/GROUP_OF_PLACE_MODEL_1/RUN_1/alignment.ali']
>> does not have enough lines (6 required, 0 found):
>>
>> Note: last line needs to be '--'
>>
>> Thanks,
>> JJ
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