mr_rosetta fails after autobuild stage
Hi, I've been having some problems with mr_rosetta. All the regression tests run fine but when I run it on some real data it gets as far as the autobuilding stage and then fails with an error message. All I can find in the log files GROUP_OF_AUTOBUILD_1/RUN_FILE_1.log GROUP_OF_AUTOBUILD_1/RUN_FILE_2.log is ******************* ERROR ENDING *************** Failed to carry out autobuild ******************* ERROR ENDING *************** The autobuild jobs themselves seem to finish fine i.e the end of the log files in GROUP_OF_AUTOBUILD_1/RUN_1/AutoBuild_run_1_ and GROUP_OF_AUTOBUILD_1/RUN_2/AutoBuild_run_1_ has the tables of Rfactors per cycle and the list of citations with no indiction of any error. Is there anywhere else I should be looking for a more detailed error message? Thanks, Huw
Dear Huw, It is possible that your AutoBuild log files have the word "failed" in them somewhere. Can you possibly have a look for that word? It can happen if phenix.refine fails for example. In that case autobuild can continue, but the mr_rosetta run may stop. (This is changed in recent versions of mr_rosetta; it is now supposed to carry on when this happens). All the best, Tom T On Feb 25, 2013, at 3:45 AM, Huw Jenkins wrote:
Hi,
I've been having some problems with mr_rosetta. All the regression tests run fine but when I run it on some real data it gets as far as the autobuilding stage and then fails with an error message. All I can find in the log files
GROUP_OF_AUTOBUILD_1/RUN_FILE_1.log GROUP_OF_AUTOBUILD_1/RUN_FILE_2.log
is
******************* ERROR ENDING *************** Failed to carry out autobuild
******************* ERROR ENDING ***************
The autobuild jobs themselves seem to finish fine i.e the end of the log files in GROUP_OF_AUTOBUILD_1/RUN_1/AutoBuild_run_1_ and GROUP_OF_AUTOBUILD_1/RUN_2/AutoBuild_run_1_ has the tables of Rfactors per cycle and the list of citations with no indiction of any error.
Is there anywhere else I should be looking for a more detailed error message?
Thanks,
Huw _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb
Hi Tom,
On 25 Feb 2013, at 18:14, "Terwilliger, Thomas C"
It is possible that your AutoBuild log files have the word "failed" in them somewhere. Can you possibly have a look for that word?
Yep there are several errors in the Autobuild log files like the following: Creating overall_best files ... Refining AutoBuild_run_1_/cycle_best_3.pdb against original data in AutoBuild_run_1_/exptl_fobs_phases_freeR_flags.mtz Refinement against original data failed... Copying files to overall_best up to Creating overall_best files ... Refining AutoBuild_run_1_/cycle_best_16.pdb against original data in AutoBuild_run_1_/exptl_fobs_phases_freeR_flags.mtz Refinement against original data failed... Copying files to overall_best I guess I should just update to the latest development version as mr_rosetta seems to be working fine up to that point. Thanks, Huw
Hi Huw, Yes, upgrading to the latest development version should do it (also there will be a new release very shortly and that will have the latest version)! All the best, Tom T On Feb 25, 2013, at 12:28 PM, Huw Jenkins wrote:
Hi Tom,
On 25 Feb 2013, at 18:14, "Terwilliger, Thomas C"
wrote: It is possible that your AutoBuild log files have the word "failed" in them somewhere. Can you possibly have a look for that word?
Yep there are several errors in the Autobuild log files like the following:
Creating overall_best files ...
Refining AutoBuild_run_1_/cycle_best_3.pdb against original data in AutoBuild_run_1_/exptl_fobs_phases_freeR_flags.mtz Refinement against original data failed...
Copying files to overall_best
up to
Creating overall_best files ...
Refining AutoBuild_run_1_/cycle_best_16.pdb against original data in AutoBuild_run_1_/exptl_fobs_phases_freeR_flags.mtz Refinement against original data failed...
Copying files to overall_best
I guess I should just update to the latest development version as mr_rosetta seems to be working fine up to that point.
Thanks,
Huw _______________________________________________ phenixbb mailing list [email protected] http://phenix-online.org/mailman/listinfo/phenixbb
participants (2)
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Huw Jenkins
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Terwilliger, Thomas C