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Hi, What is the box size of your reference and how much (CPU) memory do you have? Please try down-sampling your 3D reference to 8 or 10 A / pix. Don't forget to specify the reference pixel size. Best regards, Takanori Nakane On 2019/01/04 5:10, Yu Xinchao wrote: > 1. I tried 4 mpi with GPU 0:1:2:3 and got same error. > 2. The references are generated from the data and I used 6 > Xinchao > > On Jan 3, 2019, at 6:52 PM, Joshua Lobo <[log in to unmask]<mailto:[log in to unmask]>> wrote: > > Hi Xinchao > > 1.Have you tried 4 MPI by specifically designting the gpus like -gpu '0:1:2:3'. > > 2.how many autopick references are you picking with and are they generated from the data? > > Sincerely > Joshua > > On Fri, 4 Jan 2019, 03:46 Yu Xinchao <[log in to unmask]<mailto:[log in to unmask]> wrote: > I tried that option, got the same message > > Sent from my iPhone > > On Jan 3, 2019, at 1:54 PM, Dong-Hua Chen <[log in to unmask]<mailto:[log in to unmask]>> wrote: > > Xinchao, > > I usually use the following option for autopick: > > --shrink 0 > > > Thanks, > Dong-Hua > > On Thu, Jan 3, 2019, 11:53 Xinchao Yu <[log in to unmask]<mailto:[log in to unmask]> wrote: > Hi Joshua: > I used the following command and asked for 8 mpi processes (we have 4x K80): > `which relion_autopick_mpi` --i CtfFind/job002/micrographs_ctf.star --odir AutoPick/job006/ --pickname autopick --ref ../../Talos_UMass/auto_temp.mrcs --invert --ctf --ang 5 --shrink 1 --lowpass 20 --threshold 0.8 --min_distance 150 --max_stddev_noise 1.1 --gpu "" > echo CtfFind/job002/micrographs_ctf.star > AutoPick/job006/coords_suffix_autopick.star > Thanks, > Xinchao > > ######################################################################## > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1 > > ________________________________ > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1 > > ________________________________ > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1 > > ________________________________ > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1 > > ######################################################################## > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1 > ######################################################################## To unsubscribe from the CCPEM list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1