----------------------------------------------------------------- | Read more about this program in the following publication: | | Scheres ea. (2007) Nature Methods, 4, 27-29 | | | | *** Please cite it if this program is of use to you! *** | ----------------------------------------------------------------- --> Maximum-likelihood multi-reference 3D-refinement Initial reference volume : input/mlData/icoFiltered.vol Experimental images: : input/mlData/phantom_images.xmd Angular sampling rate : 15 Symmetry group: : c1 Output rootname : tmpLink/xmipp_mpi_ml_refine3d_02/ml3d_ Convergence criterion : 5e-05 ----------------------------------------------------------------- --> projecting 1 volumes x 81 projections... ----------------------------------------------------------------- --> Maximum-likelihood multi-reference refinement Input images : input/mlData/phantom_images.xmd (104) Reference image(s) : tmpLink/xmipp_mpi_ml_refine3d_02/ml3d_extra/projections.xmd (-1) Number of references: : -1 Output rootname : tmpLink/xmipp_mpi_ml_refine3d_02/ml3d_ml2d Stopping criterium : 5e-05 Initial sigma noise : 1 Initial sigma offset : 3 Psi sampling interval : 15 Check mirrors : true -> Use fast, reduced search-space approach with C = 1e-12 -> Save_memory B: limit translations to 3 sigma_offset ----------------------------------------------------------------- --> 3D-EM volume refinement: iteration 1 of 2 Reading angle information ... Sorting projections ... Running iteration 0 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 8.43118 1st block: 8.43118 2nd block: 0.0026891 residual: 0.0316506 Running iteration 1 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 2.48416 1st block: 2.08283 2nd block: 0.00222891 residual: 0.0710676 Running iteration 2 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.47979 1st block: 1.01763 2nd block: 0.00213642 residual: 0.108068 Running iteration 3 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.06388 1st block: 0.591725 2nd block: 0.00206636 residual: 0.140607 Running iteration 4 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.846167 1st block: 0.379997 2nd block: 0.00201623 residual: 0.16835 Running iteration 5 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.71599 1st block: 0.260826 2nd block: 0.00196136 residual: 0.191598 Running iteration 6 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.631102 1st block: 0.188049 2nd block: 0.00190609 residual: 0.210876 Running iteration 7 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.572237 1st block: 0.140904 2nd block: 0.00185089 residual: 0.226747 Running iteration 8 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.529508 1st block: 0.108971 2nd block: 0.00179738 residual: 0.239745 Running iteration 9 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.49736 1st block: 0.0865533 2nd block: 0.00174614 residual: 0.250345 Time of 10 iterations: Elapsed time: User(50.79) System(0.18) INIT_TIME: 0.050569 PROCESS_TIME: 52.2632 FINISH_TIME: 0.081293 --> 3D-EM volume refinement: iteration 2 of 2 --> projecting 1 volumes x 81 projections... ----------------------------------------------------------------- Reading angle information ... Sorting projections ... Running iteration 0 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 3.44414 1st block: 3.44414 2nd block: 2.82672e-05 residual: 0.000585546 Running iteration 1 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 2.49894 1st block: 2.45347 2nd block: 6.05658e-05 residual: 0.0018333 Running iteration 2 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 2.01221 1st block: 1.94098 2nd block: 8.51223e-05 residual: 0.00335976 Running iteration 3 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.70595 1st block: 1.61785 2nd block: 0.000102021 residual: 0.00498442 Running iteration 4 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.49439 1st block: 1.39434 2nd block: 0.00011341 residual: 0.00661554 Running iteration 5 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.3394 1st block: 1.23046 2nd block: 0.000120996 residual: 0.00820499 Running iteration 6 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.22109 1st block: 1.1053 2nd block: 0.000126024 residual: 0.00972808 Running iteration 7 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.12796 1st block: 1.00675 2nd block: 0.000129314 residual: 0.0111734 Running iteration 8 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 1.05285 1st block: 0.927232 2nd block: 0.000131411 residual: 0.0125374 Running iteration 9 with lambda= 0.2 Backprojection of residual images Projection of residual volume; kappa = 0.5 Weighted error: 0.991067 1st block: 0.86179 2nd block: 0.000132671 residual: 0.0138206 Time of 10 iterations: Elapsed time: User(7.16) System(0.02) INIT_TIME: 0.025858 PROCESS_TIME: 7.35688 FINISH_TIME: 0.134048 --> Optimization was stopped before convergence was reached!