Thanks for everyone’s responses I just want to add its not limited to Phaser on my end (either implemented through CCP4 or Phenix), but also certain refinement programs Phenix.refine (even when telling it to use 8 processors, seems like its only using 1)
For Coot1, it is known issue I believe. For earlier Coot versions, it is fine for me, but I feel it is a bit laggy too. -- Kelvin Lau Protein production and structure core facility - PTPSP EPFL SV PTECH PTPSP AI 2146 (Bâtiment AI) Station 19 CH-1015 Lausanne Switzerland Email: [email protected]<mailto:[email protected]> Phone: +41 21 69 34494 On 29 Jun 2022, at 10:48, Charles Ballard - STFC UKRI <[email protected]<mailto:[email protected]>> wrote: That openmp is not functioning is an issue that I will investigate. It should be, so something is wrong. Mostly I find that Sophos is sitting there using 2 cores, and much of my IO. Charles From: CCP4 bulletin board <[email protected]<mailto:[email protected]>> on behalf of Randy John Read <[email protected]<mailto:[email protected]>> Date: Tuesday, 28 June 2022 at 20:16 To: ccp4bb <[email protected]<mailto:[email protected]>> Subject: Re: [ccp4bb] CCP4i under M1Pro We don’t have any computers with Apple silicon in our group yet to test Phaser on ourselves. When preparing the Phenix distribution, Billy Poon has run tests and when Phaser is compiled for Intel and run through Rosetta 2, it’s generally faster than on a recent Intel Mac. However, there have been reports from Phenix users of severe slowdowns, and we don’t understand what the special circumstances are that cause it to slow down on specific jobs. The best performance is when it’s compiled natively for the M1 processor, and I believe both Phenix and CCP4 are aiming to distribute natively-compiled software as soon as technical complications are worked out. So hopefully this is just temporary! I hadn’t realised that the OpenMP wasn’t enabled on CCP4. In Phenix, there were issues preventing the use of OpenMP with Python2, but those should go away when the Python3 version is ready to deploy. Best wishes, Randy Read > On 28 Jun 2022, at 16:45, Lau Kelvin > <[email protected]<mailto:[email protected]>> > wrote: > > Hello > > I have noticed running normal programs like Phaser MR on a MacBook Pro > (M1Pro) that jobs are extremely slow compared to my older computers. > > It doesn’t seem to be running over multiple CPUs anymore. > > Has this also been seen by others? > > Best > > Kelvin > > > -- > Kelvin Lau > Protein production and structure core facility - PTPSP > EPFL SV PTECH PTPSP > AI 2146 (Bâtiment AI) > Station 19 > CH-1015 Lausanne > Switzerland > Email: [email protected]<mailto:[email protected]> > Phone: +41 21 69 34494 > > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 > ----- Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: +44 1223 336500 The Keith Peters Building Fax: +44 1223 336827 Hills Road E-mail: [email protected]<mailto:[email protected]> Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk<http://www-structmed.cimr.cam.ac.uk> ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB<http://www.jiscmail.ac.uk/CCP4BB>, a mailing list hosted by www.jiscmail.ac.uk<http://www.jiscmail.ac.uk/>, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ This email and any attachments are intended solely for the use of the named recipients. If you are not the intended recipient you must not use, disclose, copy or distribute this email or any of its attachments and should notify the sender immediately and delete this email from your system. UK Research and Innovation (UKRI) has taken every reasonable precaution to minimise risk of this email or any attachments containing viruses or malware but the recipient should carry out its own virus and malware checks before opening the attachments. UKRI does not accept any liability for any losses or damages which the recipient may sustain due to presence of any viruses. ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
