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Hi Pranav, Just to add to Takanori's reply that you may also want to check the --reverse_curvature option. One will be better than the other, but it is hard to predict which one as the handedness may have been flipped at many points during the process. HTH, Sjors On 09/07/2018 04:32 PM, Takanori Nakane wrote: > Hi, > > Magnification anisotropy correction and Ewald sphere correction are > different concepts. > > Unfortunately RELION 3.0 does not support magnification anisotropy > estimation and correction. > We are working for it but it will not be included in version 3.0. > > For Ewald sphere correction, please use relion_reconstruct: > > relion_reconstruct --i run_data.star --o half1.mrc --subset 1 --angpix 1.23 > --ctf --ewald --mask_diameter 560 --sectors 2 --width_mask_edge 5 --sym I1 > > Then repeat this for the other half (--subset 2) as well. > > See the paper (https://doi.org/10.1016/j.ultramic.2017.11.001) > for the meanings of mask_diameter, sectors and width_mask_edge. > > Best regards, > > Takanori Nakane > >> Dear Community, >> >> Has anyone had any experience with applying ewald sphere correction in >> relion 3.0? >> I understand that this feature is still in beta but I would like to give >> it >> a go. Would be helpful to have some guidance on its usage. >> Specifically, does the program automatically calculate the magnification >> anisotropy *a la* jspr or does it need to be determined at the scope and >> then the correct values applied during the reconstruction? >> >> Cheers, >> pranav >> >> -- >> Pranav Shah >> Postdoctoral Research Fellow. >> >> Hogle Lab >> Harvard Medical School >> 240 Longwood Avenue >> Boston, MA 02115 >> (617) 432-4360 (fax) >> (617) 432-3839 (lab) >> >> ######################################################################## >> >> 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 -- Sjors Scheres MRC Laboratory of Molecular Biology Francis Crick Avenue, Cambridge Biomedical Campus Cambridge CB2 0QH, U.K. tel: +44 (0)1223 267061 http://www2.mrc-lmb.cam.ac.uk/groups/scheres ######################################################################## To unsubscribe from the CCPEM list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1