[ccp4bb] phaser 2.3.0 floating point exception
Dear Randy and the Phaser team, Phaser 2.3.0 brought us several enhancement, but similar to Alexander Schiffer's experience, Phaser has failed several times now with a floating point exception error at different stages of automated MR: it has stopped in the beginning of RF and then in a new run it stopped in the middle of TF. The remedy is to explicitly lower the resolution of the input data (that was a 1.2 A resolution data with a smallish unit cell). I can provide the log files and the mtz file if necessary. Sincerely, Petr --- Petr Leiman EPFL IPSB-LBBS BSP-415 CH-1015 Lausanne, Suisse http://lbbs.epfl.ch
Re: [ccp4bb] phaser 2.3.0 floating point exception
Dear Petr, Yes, please do send the log files, MTZ file and anything else needed to run the job that shows the problem, so we can track it down. It's probably best to send them off-line. We couldn't reproduce Alexander's problem, but he tells me that it only occurs when the script is started from a mono application (and I confess that I don't really know yet what that means). Once the problem he ran into has been defined a bit better, we can look into whether it's something we can fix on our end. Regards, Randy Read On 6 Sep 2011, at 08:25, Petr Leiman wrote: Dear Randy and the Phaser team, Phaser 2.3.0 brought us several enhancement, but similar to Alexander Schiffer's experience, Phaser has failed several times now with a floating point exception error at different stages of automated MR: it has stopped in the beginning of RF and then in a new run it stopped in the middle of TF. The remedy is to explicitly lower the resolution of the input data (that was a 1.2 A resolution data with a smallish unit cell). I can provide the log files and the mtz file if necessary. Sincerely, Petr --- Petr Leiman EPFL IPSB-LBBS BSP-415 CH-1015 Lausanne, Suisse http://lbbs.epfl.ch -- Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills RoadE-mail: rj...@cam.ac.uk Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
Re: [ccp4bb] Phaser 2.3.0
Hi, Could you send me some representative logfiles (probably off-list)? This might give a hint. It must be something unusual, because we have a fairly wide range of test cases and none of them have any problems. Thanks and best wishes, Randy Read On 1 Sep 2011, at 14:58, alexander.schif...@sanofi-aventis.com wrote: Dear all, We just upgraded to ccp4 6.2.0 and with that upgrade switched from Phaser 2.1.4 to 2.3.0. During testing we ran into the problem that for some of our datasets phaser stops with a floating point exception . As it is not the case for all datasets I asume it must be linked to the input mtz or pdb file. Is there a way to check the integrity of those files and identify the specific problem? Best regards, Alexander Mit freundlichen Grüßen / Best regards / Cordialement Dr. Alexander Schiffer Sanofi-Aventis Deutschland GmbH RD LGCR/Struct.,Design Informatics FF Industriepark Hoechst Bldg. G877, Room 029 D-65926 Frankfurt am Main t: +49 69 305 24896 f: +49 69 305 80169 w:www.sanofi.de * Sanofi-Aventis Deutschland GmbH · Sitz der Gesellschaft: Frankfurt am Main · Handelsregister: Frankfurt am Main, Abt. B Nr. 40661 Vorsitzender des Aufsichtsrats: Hanspeter Spek - Geschäftsführer: Dr. Martin Siewert (Vorsitzender), Dr. Matthias Braun, Peter Guenter, Prof. Dr. Jochen Maas, Dr. Klaus Menken, Dr. Heinz Riederer, Dr. Emmanuel Siregar * -- Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: + 44 1223 336500 Wellcome Trust/MRC Building Fax: + 44 1223 336827 Hills RoadE-mail: rj...@cam.ac.uk Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk
