Hi All, Thanks for all the help guys, recompiling Rosetta as Nigel suggested seems to have fixed the problem. That said I haven't run Rosetta-MR before and while it's using all my CPU (MacBook Pro i7 2.8GHz 4(+4 HT)) it it's telling me an awful lot. I assume it's running but the logfile isn't very verbose? What kind of run times am I looking at for this sort of machine? Thanks again, Rhys On 23 February 2016 at 05:56, Nigel Moriarty wrote:

Rhys

I can't speak to this exact dynamic library problem being wholly Rosetta's fault as I've seen this error in other situations with binaries being mismatched. This is a problem with your machine not being able to run the Rosetta binaries. You may have to fix the libraries on your machine or move to a machine that has the correct libraries.

I am updating the docs but you should download Phenix dev-2313 and the Rosetta 2016.02 build. Follow the instructions for installing Rosetta refine (which will compile Rosetta so the source bundle is fine). This is more than what is required for MR-Rosetta but it is required for Rosetta refine which you may want in the future.

Cheers

Nigel

--- Nigel W. Moriarty Building 33R0349, Physical Biosciences Division Lawrence Berkeley National Laboratory Berkeley, CA 94720-8235 Phone : 510-486-5709 Email : [email protected] Fax : 510-486-5909 Web : CCI.LBL.gov

On Mon, Feb 22, 2016 at 10:33 AM, Paul Adams wrote:

...

If I remember correctly (quite possibly not), this is to do with a newer binary being run on a older version of the OS. Is this possible? We are in the process of updating the Rosetta/Phenix installation instructions, so it might be that compiling Rosetta with Phenix might fix the problem (but does require a compiler). Nigel might have some thoughts.

...

On Feb 22, 2016, at 6:13 AM, Rhys Grinter wrote:

Dear all,

I'm currently trying to improve an model for a difficult MR problem using Rosetta-MR,

When the program gets to the Rebuild stage it fails with the following message: Error message:

child process stderr output:

command: 'sh .../MR_ROSETTA_17/GROUP_OF_ROSETTA_REBUILD_1/RUN_1/REBUILD_IN_SETS_1/RUN_4/WORK_1/run_rebuild.sh"'

.../MR_ROSETTA_17/GROUP_OF_ROSETTA_REBUILD_1/RUN_1/REBUILD_IN_SETS_1/RUN_4/WORK_1/run_rebuild.sh: line 5: 8996 Trace/BPT trap: 5 "/Applications/Rosetta/main/source/bin/mr_protocols.macosclangrelease" @"rebuild.flags" > "rebuild.log" 2>&1

...

Failed to run REBUILD

Sorry: Failed to run REBUILD...see log file in

.../MR_ROSETTA_17/GROUP_OF_ROSETTA_REBUILD_1/RUN_1/REBUILD_IN_SETS_1/RUN_4/WORK_1/rebuild.log

...

Sorry: mr_rosetta failed...

Sorry routine failed

Please see log file for full error message

In the rebuild logfile:

dyld: lazy symbol binding failed: Symbol not found: ___sincos_stret Referenced from:

/Applications/Rosetta/main/source/bin/mr_protocols.macosclangrelease

...

Expected in: /usr/lib/libSystem.B.dylib

dyld: Symbol not found: ___sincos_stret Referenced from: /Applications/Rosetta/main/source/bin/mr_protocols.macosclangrelease Expected in: /usr/lib/libSystem.B.dylib

Has anyones experienced this error?

Cheers,

Rhys

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