[ jchase@node15: Wed Sep 28 11:04:44 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=1500 --lowpass_diameter_x=132 \ --lowpass_diameter_y=132 --lowpass_apod_x=330 --lowpass_apod_y=330 \ --highpass_diameter_x=4905 --highpass_diameter_y=4905 --highpass_apod_x=2453 \ --highpass_apod_y=2453 --corr_mode=mcf --preprocessing=true \ --border=100 --clip_low=3.5 --clip_high=3.5 --gradient=true \ --iter_gradient=false --filter=median --kernel_x=5 --kernel_y=5 \ --grow=0 --window_area=0.95 --mask_apod_x=10 --mask_apod_y=10 \ --mask_width_x=322 --mask_width_y=334 --correlation_size_x=192 \ --correlation_size_y=192 --peak_search_radius_x=300 --peak_search_radius_y=300 \ --logging=true --loglevel=2 --image_file_type=mrc --gridsearch_limit=2.0 \ --gridsearch_step=0.1 --create_tilt_video=true --create_reconstruction=true \ --show_window_size=true --keep_recons=false --slab=true --map_size_x=463 \ --map_size_y=479 --video_type=html5vid --shift_limit=30 --angle_limit=40 \ --defocus_estimate=2 --runname=protomorun1 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/protomorun1 \ --tiltseries=3 --defocus=5 --sessionname=16sep28d --pixelsize=1.76302 \ --dimx=3710 --dimy=3838 --coarse=True --projectid=45 --expid=2667 \ --jobtype=protomo [ jchase@node15: Wed Sep 28 11:11:29 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=1500 --lowpass_diameter_x=132 \ --lowpass_diameter_y=132 --lowpass_apod_x=330 --lowpass_apod_y=330 \ --highpass_diameter_x=4905 --highpass_diameter_y=4905 --highpass_apod_x=2453 \ --highpass_apod_y=2453 --corr_mode=mcf --preprocessing=true \ --tilt_azimuth=-6 --border=100 --clip_low=3.5 --clip_high=3.5 \ --gradient=true --iter_gradient=false --filter=median --kernel_x=5 \ --kernel_y=5 --grow=0 --window_area=0.95 --mask_apod_x=10 --mask_apod_y=10 \ --mask_width_x=347 --mask_width_y=359 --correlation_size_x=192 \ --correlation_size_y=192 --peak_search_radius_x=300 --peak_search_radius_y=300 \ --logging=true --loglevel=2 --image_file_type=mrc --gridsearch_limit=2.0 \ --gridsearch_step=0.1 --create_tilt_video=true --create_reconstruction=true \ --show_window_size=true --keep_recons=false --slab=true --map_size_x=463 \ --map_size_y=479 --video_type=html5vid --shift_limit=30 --angle_limit=40 \ --amp_contrast_ctf=0.07 --iWidth=20 --DefocusTol=200 --defocus_estimate=2 \ --defocus_min=4 --defocus_max=6 --defocus_difference=0.2 --res_min=10000 \ --res_max=10 --runname=protomorun1 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/protomorun1 \ --tiltseries=3 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 11:19:01 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --negative=-44 --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=500 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=10 --r2_iters=5 --r3_iters=5 \ --r4_iters=5 --r5_iters=0 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --azimuth=true --elevation=false --rotation=true \ --scale=false --logging=true --loglevel=2 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --tilt_clip=true \ --video_type=html5vid --runname=protomorun1 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/protomorun1 \ --tiltseries=3 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node04: Wed Sep 28 11:20:54 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=1500 --lowpass_diameter_x=132 \ --lowpass_diameter_y=132 --lowpass_apod_x=330 --lowpass_apod_y=330 \ --highpass_diameter_x=4905 --highpass_diameter_y=4905 --highpass_apod_x=2453 \ --highpass_apod_y=2453 --corr_mode=mcf --preprocessing=true \ --tilt_azimuth=-6 --border=100 --clip_low=3.5 --clip_high=3.5 \ --gradient=true --iter_gradient=false --filter=median --kernel_x=5 \ --kernel_y=5 --grow=0 --window_area=0.95 --mask_apod_x=10 --mask_apod_y=10 \ --mask_width_x=347 --mask_width_y=359 --correlation_size_x=192 \ --correlation_size_y=192 --peak_search_radius_x=300 --peak_search_radius_y=300 \ --logging=true --loglevel=2 --image_file_type=mrc --gridsearch_limit=2.0 \ --gridsearch_step=0.1 --create_tilt_video=true --create_reconstruction=true \ --show_window_size=true --keep_recons=false --slab=true --map_size_x=463 \ --map_size_y=479 --video_type=html5vid --shift_limit=30 --angle_limit=40 \ --amp_contrast_ctf=0.07 --iWidth=20 --DefocusTol=200 --defocus_estimate=2 \ --defocus_min=6.4 --defocus_max=9.6 --defocus_difference=0.2 \ --res_min=10000 --res_max=10 --runname=tiltseries0004 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0004 \ --tiltseries=4 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 11:28:03 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=500 --lowpass_diameter_x=132 --lowpass_diameter_y=132 \ --lowpass_apod_x=330 --lowpass_apod_y=330 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-6 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=6.4 --defocus_max=9.6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0005 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0005 \ --tiltseries=5 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node04: Wed Sep 28 11:29:53 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=500 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=10 --r2_iters=5 --r3_iters=5 \ --r4_iters=5 --r5_iters=0 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --azimuth=true --elevation=false --rotation=true \ --scale=false --logging=true --loglevel=2 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --tilt_clip=true \ --video_type=html5vid --runname=tiltseries0004 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0004 \ --tiltseries=4 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node04: Wed Sep 28 20:02:11 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0003 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0003 \ --tiltseries=3 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:02:29 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0004 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0004 \ --tiltseries=4 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:02:45 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0005 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0005 \ --tiltseries=5 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:03:06 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0006 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0006 \ --tiltseries=6 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node16: Wed Sep 28 20:03:32 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0007 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0007 \ --tiltseries=7 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node16: Wed Sep 28 20:04:00 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --dose_presets=False --frame_aligned=True --ctf_correct=False \ --parallel=True --region_x=2782 --region_y=2878 --sampling=8 \ --map_sampling=8 --thickness=400 --lowpass_diameter_x=125 --lowpass_diameter_y=125 \ --lowpass_apod_x=312.5 --lowpass_apod_y=312.5 --highpass_diameter_x=4905 \ --highpass_diameter_y=4905 --highpass_apod_x=2453 --highpass_apod_y=2453 \ --corr_mode=mcf --preprocessing=true --tilt_azimuth=-5 --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --kernel_x=5 --kernel_y=5 --grow=0 --window_area=0.95 \ --mask_apod_x=10 --mask_apod_y=10 --mask_width_x=347 --mask_width_y=359 \ --correlation_size_x=192 --correlation_size_y=192 --peak_search_radius_x=300 \ --peak_search_radius_y=300 --logging=true --loglevel=2 --image_file_type=mrc \ --gridsearch_limit=2.0 --gridsearch_step=0.1 --create_tilt_video=true \ --create_reconstruction=true --show_window_size=true --keep_recons=false \ --slab=true --map_size_x=463 --map_size_y=479 --video_type=html5vid \ --shift_limit=30 --angle_limit=40 --amp_contrast_ctf=0.07 --iWidth=20 \ --DefocusTol=200 --defocus_estimate=2 --defocus_min=4 --defocus_max=6 \ --defocus_difference=0.2 --res_min=10000 --res_max=10 --runname=tiltseries0008 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0008 \ --tiltseries=8 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --coarse=True --projectid=45 --expid=2667 --jobtype=protomo [ jchase@node04: Wed Sep 28 20:08:36 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --negative=-44 --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0003 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0003 \ --tiltseries=3 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:10:31 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0004 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0004 \ --tiltseries=4 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:12:00 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --r1_region_x=2782 \ --r2_region_x=2782 --r3_region_x=2782 --r4_region_x=2782 --r5_region_x=2782 \ --r1_region_y=2878 --r2_region_y=2878 --r3_region_y=2878 --r4_region_y=2878 \ --r5_region_y=2878 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=322 --r2_mask_width_x=670 --r3_mask_width_x=1366 \ --r4_mask_width_x=2757 --r5_mask_width_x=2757 --r1_mask_width_y=334 \ --r2_mask_width_y=694 --r3_mask_width_y=1414 --r4_mask_width_y=2853 \ --r5_mask_width_y=2853 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=4905 --r2_highpass_diameter_x=4905 \ --r3_highpass_diameter_x=4905 --r4_highpass_diameter_x=4905 \ --r5_highpass_diameter_x=4905 --r1_highpass_diameter_y=4905 \ --r2_highpass_diameter_y=4905 --r3_highpass_diameter_y=4905 \ --r4_highpass_diameter_y=4905 --r5_highpass_diameter_y=4905 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=2453 \ --r2_highpass_apod_x=2453 --r3_highpass_apod_x=2453 --r4_highpass_apod_x=2453 \ --r5_highpass_apod_x=2453 --r1_highpass_apod_y=2453 --r2_highpass_apod_y=2453 \ --r3_highpass_apod_y=2453 --r4_highpass_apod_y=2453 --r5_highpass_apod_y=2453 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0005 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0005 \ --tiltseries=5 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node15: Wed Sep 28 20:13:49 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0006 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0006 \ --tiltseries=6 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node16: Wed Sep 28 20:15:51 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Coarse --r1_region_x=2782 \ --r2_region_x=2782 --r3_region_x=2782 --r4_region_x=2782 --r5_region_x=2782 \ --r1_region_y=2878 --r2_region_y=2878 --r3_region_y=2878 --r4_region_y=2878 \ --r5_region_y=2878 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=322 --r2_mask_width_x=670 --r3_mask_width_x=1366 \ --r4_mask_width_x=2757 --r5_mask_width_x=2757 --r1_mask_width_y=334 \ --r2_mask_width_y=694 --r3_mask_width_y=1414 --r4_mask_width_y=2853 \ --r5_mask_width_y=2853 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=4905 --r2_highpass_diameter_x=4905 \ --r3_highpass_diameter_x=4905 --r4_highpass_diameter_x=4905 \ --r5_highpass_diameter_x=4905 --r1_highpass_diameter_y=4905 \ --r2_highpass_diameter_y=4905 --r3_highpass_diameter_y=4905 \ --r4_highpass_diameter_y=4905 --r5_highpass_diameter_y=4905 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=2453 \ --r2_highpass_apod_x=2453 --r3_highpass_apod_x=2453 --r4_highpass_apod_x=2453 \ --r5_highpass_apod_x=2453 --r1_highpass_apod_y=2453 --r2_highpass_apod_y=2453 \ --r3_highpass_apod_y=2453 --r4_highpass_apod_y=2453 --r5_highpass_apod_y=2453 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0007 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0007 \ --tiltseries=7 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo [ jchase@node16: Wed Sep 28 20:17:27 2016 ] /home/anoble/myami/appion/bin/protomo2aligner.py \ --parallel=True --starting_tlt_file=Initial --r1_region_x=2226 \ --r2_region_x=2226 --r3_region_x=2226 --r4_region_x=2226 --r5_region_x=2226 \ --r1_region_y=2302 --r2_region_y=2302 --r3_region_y=2302 --r4_region_y=2302 \ --r5_region_y=2302 --r1_sampling=8 --r2_sampling=4 --r3_sampling=2 \ --r4_sampling=1 --r5_sampling=1 --map_sampling=8 --thickness=400 \ --r1_mask_width_x=253 --r2_mask_width_x=531 --r3_mask_width_x=1088 \ --r4_mask_width_x=2201 --r5_mask_width_x=2201 --r1_mask_width_y=262 \ --r2_mask_width_y=550 --r3_mask_width_y=1126 --r4_mask_width_y=2277 \ --r5_mask_width_y=2277 --r1_lowpass_diameter_x=125 --r2_lowpass_diameter_x=62.5 \ --r3_lowpass_diameter_x=31.25 --r4_lowpass_diameter_x=15.625 \ --r5_lowpass_diameter_x=7.8125 --r1_lowpass_diameter_y=125 \ --r2_lowpass_diameter_y=62.5 --r3_lowpass_diameter_y=31.25 \ --r4_lowpass_diameter_y=15.625 --r5_lowpass_diameter_y=7.8125 \ --r1_highpass_diameter_x=3924 --r2_highpass_diameter_x=3924 \ --r3_highpass_diameter_x=3924 --r4_highpass_diameter_x=3924 \ --r5_highpass_diameter_x=3924 --r1_highpass_diameter_y=3924 \ --r2_highpass_diameter_y=3924 --r3_highpass_diameter_y=3924 \ --r4_highpass_diameter_y=3924 --r5_highpass_diameter_y=3924 \ --r1_mask_apod_x=10 --r2_mask_apod_x=10 --r3_mask_apod_x=10 \ --r4_mask_apod_x=10 --r5_mask_apod_x=10 --r1_mask_apod_y=10 \ --r2_mask_apod_y=10 --r3_mask_apod_y=10 --r4_mask_apod_y=10 \ --r5_mask_apod_y=10 --r1_lowpass_apod_x=313 --r2_lowpass_apod_x=156 \ --r3_lowpass_apod_x=78 --r4_lowpass_apod_x=39 --r5_lowpass_apod_x=20 \ --r1_lowpass_apod_y=313 --r2_lowpass_apod_y=156 --r3_lowpass_apod_y=78 \ --r4_lowpass_apod_y=39 --r5_lowpass_apod_y=20 --r1_highpass_apod_x=1962 \ --r2_highpass_apod_x=1962 --r3_highpass_apod_x=1962 --r4_highpass_apod_x=1962 \ --r5_highpass_apod_x=1962 --r1_highpass_apod_y=1962 --r2_highpass_apod_y=1962 \ --r3_highpass_apod_y=1962 --r4_highpass_apod_y=1962 --r5_highpass_apod_y=1962 \ --r1_corr_mode=mcf --r2_corr_mode=mcf --r3_corr_mode=mcf --r4_corr_mode=mcf \ --r5_corr_mode=pcf --r1_iters=20 --r2_iters=20 --r3_iters=20 \ --r4_iters=40 --r5_iters=20 --preprocessing=true --border=100 \ --clip_low=3.5 --clip_high=3.5 --gradient=true --iter_gradient=false \ --filter=median --r1_kernel_x=5 --r2_kernel_x=5 --r3_kernel_x=5 \ --r4_kernel_x=5 --r5_kernel_x=5 --r1_kernel_y=5 --r2_kernel_y=5 \ --r3_kernel_y=5 --r4_kernel_y=5 --r5_kernel_y=5 --grow=0 --window_area=0.95 \ --do_estimation=false --norotations=false --correlation_size_x=160 \ --correlation_size_y=160 --r1_peak_search_radius_x=300 --r2_peak_search_radius_x=300 \ --r3_peak_search_radius_x=300 --r4_peak_search_radius_x=300 \ --r5_peak_search_radius_x=300 --r1_peak_search_radius_y=300 \ --r2_peak_search_radius_y=300 --r3_peak_search_radius_y=300 \ --r4_peak_search_radius_y=300 --r5_peak_search_radius_y=300 \ --orientation=true --orientation_switch=101 --azimuth=true \ --azimuth_switch=101 --elevation=false --rotation=true --rotation_switch=101 \ --scale=false --scale_switch=81 --logging=true --loglevel=2 \ --create_tilt_video=true --create_reconstruction=true --show_window_size=true \ --keep_recons=false --slab=true --map_size_x=463 --map_size_y=479 \ --tilt_clip=true --video_type=html5vid --runname=tiltseries0008 \ --rundir=/gpfs/appion/jchase/16sep28d/protomo_alignments/tiltseries0008 \ --tiltseries=8 --sessionname=16sep28d --pixelsize=1.76302 --dimx=3710 \ --dimy=3838 --image_file_type=mrc --coarse=False --projectid=45 \ --expid=2667 --jobtype=protomo Start time: 2016yr09m28d-20hr17m27s Description: Starting Protomo alignment Beginning Refinements Beginning Refinement Iteration #1, Round #1 lowpass = 125.0 Angstroms Round #1. Parameters in Protomo units: (Note: At binned by 8, pixelsize is 14.10416 Angstroms, Nyquist is 28.20832 Angstroms) window.lowpass.apodization = { 0.090122428115 0.090122428115 } map.sampling = 8 window.highpass.diameter = { 0.00718866462793 0.00718866462793 } window.highpass.apodization = { 0.0143773292559 0.0143773292559 } window.mask.apodization = { 10 10 } align.mask.width = { 253 262 } sampling = 8 align.mask.apodization = { 10 10 } map.body = 40.1042008914 map.lowpass.diameter = { 0.22566656 0.22566656 } align.peaksearch.radius = { 300.0 300.0 } window.size = { 278 287 } preprocess.mask.kernel = { 5 5 } window.mask.width = { 253 262 } reference.body = 40.1042008914 window.lowpass.diameter = { 0.22566656 0.22566656 } align.correlation.mode = mcf No parameters were switched for Iteration #1 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Refinement failed. Retry #7 with Window Size: (1680, 1728) (at sampling 8)... Refinement failed. Retry #8 with Window Size: (1600, 1680) (at sampling 8)... Refinement failed. Retry #9 with Window Size: (1568, 1600) (at sampling 8)... Refinement failed. Retry #10 with Window Size: (1536, 1568) (at sampling 8)... Refinement failed. Retry #11 with Window Size: (1440, 1536) (at sampling 8)... Refinement failed. Retry #12 with Window Size: (1344, 1440) (at sampling 8)... Refinement failed. Retry #13 with Window Size: (1296, 1344) (at sampling 8)... Refinement failed. Retry #14 with Window Size: (1280, 1296) (at sampling 8)... Refinement failed. Retry #15 with Window Size: (1200, 1280) (at sampling 8)... Refinement failed. Retry #16 with Window Size: (1152, 1200) (at sampling 8)... Refinement failed. Retry #17 with Window Size: (1120, 1152) (at sampling 8)... Refinement failed. Retry #18 with Window Size: (1024, 1120) (at sampling 8)... Refinement failed. Retry #19 with Window Size: (1008, 1024) (at sampling 8)... Refinement failed. Retry #20 with Window Size: (960, 1008) (at sampling 8)... Refinement failed. Retry #21 with Window Size: (896, 960) (at sampling 8)... Refinement failed. Retry #22 with Window Size: (864, 896) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.06303 for Iteration #1 of Tilt-Series #8. CCMS(rotations) = 1.8055 for Iteration #1 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #1 of Tilt-Series #8. The scaled sum of CCMS values is #0.06762 for Tilt-Series #8. Creating Depiction Videos for Iteration #1 in Parallel... Creating Refinement tilt-series video for iteration #1... Generating Refinement reconstruction for iteration #1... Refinement Iteration #1 finished after retrying 22 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 864 Window Size (y) was windowed down to 896 No Round parameters changed for Iteration #2 Beginning Refinement Iteration #2, Round #1 No parameters were switched for Iteration #2 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Refinement failed. Retry #7 with Window Size: (1680, 1728) (at sampling 8)... Refinement failed. Retry #8 with Window Size: (1600, 1680) (at sampling 8)... Refinement failed. Retry #9 with Window Size: (1568, 1600) (at sampling 8)... Refinement failed. Retry #10 with Window Size: (1536, 1568) (at sampling 8)... Refinement failed. Retry #11 with Window Size: (1440, 1536) (at sampling 8)... Refinement failed. Retry #12 with Window Size: (1344, 1440) (at sampling 8)... Refinement failed. Retry #13 with Window Size: (1296, 1344) (at sampling 8)... Refinement failed. Retry #14 with Window Size: (1280, 1296) (at sampling 8)... Refinement failed. Retry #15 with Window Size: (1200, 1280) (at sampling 8)... Refinement failed. Retry #16 with Window Size: (1152, 1200) (at sampling 8)... Refinement failed. Retry #17 with Window Size: (1120, 1152) (at sampling 8)... Refinement failed. Retry #18 with Window Size: (1024, 1120) (at sampling 8)... Refinement failed. Retry #19 with Window Size: (1008, 1024) (at sampling 8)... Refinement failed. Retry #20 with Window Size: (960, 1008) (at sampling 8)... Refinement failed. Retry #21 with Window Size: (896, 960) (at sampling 8)... Refinement failed. Retry #22 with Window Size: (864, 896) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.0922 for Iteration #2 of Tilt-Series #8. CCMS(rotations) = 1.88939 for Iteration #2 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #2 of Tilt-Series #8. The scaled sum of CCMS values is #0.08389 for Tilt-Series #8. Creating Depiction Videos for Iteration #2 in Parallel... Creating Refinement tilt-series video for iteration #2... Generating Refinement reconstruction for iteration #2... Refinement Iteration #2 finished after retrying 22 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 864 Window Size (y) was windowed down to 896 No Round parameters changed for Iteration #3 Beginning Refinement Iteration #3, Round #1 No parameters were switched for Iteration #3 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Refinement failed. Retry #7 with Window Size: (1680, 1728) (at sampling 8)... Refinement failed. Retry #8 with Window Size: (1600, 1680) (at sampling 8)... Refinement failed. Retry #9 with Window Size: (1568, 1600) (at sampling 8)... Refinement failed. Retry #10 with Window Size: (1536, 1568) (at sampling 8)... Refinement failed. Retry #11 with Window Size: (1440, 1536) (at sampling 8)... Refinement failed. Retry #12 with Window Size: (1344, 1440) (at sampling 8)... Refinement failed. Retry #13 with Window Size: (1296, 1344) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.0478 for Iteration #3 of Tilt-Series #8. CCMS(rotations) = 2.05226 for Iteration #3 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #3 of Tilt-Series #8. The scaled sum of CCMS values is #0.06494 for Tilt-Series #8. Creating Depiction Videos for Iteration #3 in Parallel... Creating Refinement tilt-series video for iteration #3... Generating Refinement reconstruction for iteration #3... Refinement Iteration #3 finished after retrying 13 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1296 Window Size (y) was windowed down to 1344 No Round parameters changed for Iteration #4 Beginning Refinement Iteration #4, Round #1 No parameters were switched for Iteration #4 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Refinement failed. Retry #7 with Window Size: (1680, 1728) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.03729 for Iteration #4 of Tilt-Series #8. CCMS(rotations) = 2.05501 for Iteration #4 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #4 of Tilt-Series #8. The scaled sum of CCMS values is #0.05975 for Tilt-Series #8. Creating Depiction Videos for Iteration #4 in Parallel... Creating Refinement tilt-series video for iteration #4... Generating Refinement reconstruction for iteration #4... Refinement Iteration #4 finished after retrying 7 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1680 Window Size (y) was windowed down to 1728 No Round parameters changed for Iteration #5 Beginning Refinement Iteration #5, Round #1 No parameters were switched for Iteration #5 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.05515 for Iteration #5 of Tilt-Series #8. CCMS(rotations) = 1.7435 for Iteration #5 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #5 of Tilt-Series #8. The scaled sum of CCMS values is #0.06245 for Tilt-Series #8. Creating Depiction Videos for Iteration #5 in Parallel... Creating Refinement tilt-series video for iteration #5... Generating Refinement reconstruction for iteration #5... Refinement Iteration #5 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #6 Beginning Refinement Iteration #6, Round #1 No parameters were switched for Iteration #6 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.06015 for Iteration #6 of Tilt-Series #8. CCMS(rotations) = 2.03278 for Iteration #6 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #6 of Tilt-Series #8. The scaled sum of CCMS values is #0.07073 for Tilt-Series #8. Creating Depiction Videos for Iteration #6 in Parallel... Creating Refinement tilt-series video for iteration #6... Generating Refinement reconstruction for iteration #6... Refinement Iteration #6 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #7 Beginning Refinement Iteration #7, Round #1 No parameters were switched for Iteration #7 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.0535 for Iteration #7 of Tilt-Series #8. CCMS(rotations) = 2.19795 for Iteration #7 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #7 of Tilt-Series #8. The scaled sum of CCMS values is #0.07071 for Tilt-Series #8. Creating Depiction Videos for Iteration #7 in Parallel... Creating Refinement tilt-series video for iteration #7... Generating Refinement reconstruction for iteration #7... Refinement Iteration #7 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #8 Beginning Refinement Iteration #8, Round #1 No parameters were switched for Iteration #8 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.05278 for Iteration #8 of Tilt-Series #8. CCMS(rotations) = 2.29763 for Iteration #8 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #8 of Tilt-Series #8. The scaled sum of CCMS values is #0.07234 for Tilt-Series #8. Creating Depiction Videos for Iteration #8 in Parallel... Creating Refinement tilt-series video for iteration #8... Generating Refinement reconstruction for iteration #8... Refinement Iteration #8 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #9 Beginning Refinement Iteration #9, Round #1 No parameters were switched for Iteration #9 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.05558 for Iteration #9 of Tilt-Series #8. CCMS(rotations) = 2.3925 for Iteration #9 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #9 of Tilt-Series #8. The scaled sum of CCMS values is #0.07564 for Tilt-Series #8. Creating Depiction Videos for Iteration #9 in Parallel... Creating Refinement tilt-series video for iteration #9... Generating Refinement reconstruction for iteration #9... Refinement Iteration #9 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #10 Beginning Refinement Iteration #10, Round #1 No parameters were switched for Iteration #10 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04941 for Iteration #10 of Tilt-Series #8. CCMS(rotations) = 2.76774 for Iteration #10 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #10 of Tilt-Series #8. The scaled sum of CCMS values is #0.08006 for Tilt-Series #8. Creating Depiction Videos for Iteration #10 in Parallel... Creating Refinement tilt-series video for iteration #10... Generating Refinement reconstruction for iteration #10... Refinement Iteration #10 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #11 Beginning Refinement Iteration #11, Round #1 No parameters were switched for Iteration #11 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04366 for Iteration #11 of Tilt-Series #8. CCMS(rotations) = 2.78456 for Iteration #11 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #11 of Tilt-Series #8. The scaled sum of CCMS values is #0.07752 for Tilt-Series #8. Creating Depiction Videos for Iteration #11 in Parallel... Creating Refinement tilt-series video for iteration #11... Generating Refinement reconstruction for iteration #11... Refinement Iteration #11 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #12 Beginning Refinement Iteration #12, Round #1 No parameters were switched for Iteration #12 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04427 for Iteration #12 of Tilt-Series #8. CCMS(rotations) = 2.4842 for Iteration #12 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #12 of Tilt-Series #8. The scaled sum of CCMS values is #0.07182 for Tilt-Series #8. Creating Depiction Videos for Iteration #12 in Parallel... Creating Refinement tilt-series video for iteration #12... Generating Refinement reconstruction for iteration #12... Refinement Iteration #12 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #13 Beginning Refinement Iteration #13, Round #1 No parameters were switched for Iteration #13 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04206 for Iteration #13 of Tilt-Series #8. CCMS(rotations) = 2.60154 for Iteration #13 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #13 of Tilt-Series #8. The scaled sum of CCMS values is #0.07306 for Tilt-Series #8. Creating Depiction Videos for Iteration #13 in Parallel... Creating Refinement tilt-series video for iteration #13... Generating Refinement reconstruction for iteration #13... Refinement Iteration #13 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #14 Beginning Refinement Iteration #14, Round #1 No parameters were switched for Iteration #14 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04577 for Iteration #14 of Tilt-Series #8. CCMS(rotations) = 2.82796 for Iteration #14 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #14 of Tilt-Series #8. The scaled sum of CCMS values is #0.07944 for Tilt-Series #8. Creating Depiction Videos for Iteration #14 in Parallel... Creating Refinement tilt-series video for iteration #14... Generating Refinement reconstruction for iteration #14... Refinement Iteration #14 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #15 Beginning Refinement Iteration #15, Round #1 No parameters were switched for Iteration #15 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.05696 for Iteration #15 of Tilt-Series #8. CCMS(rotations) = 2.86418 for Iteration #15 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #15 of Tilt-Series #8. The scaled sum of CCMS values is #0.08577 for Tilt-Series #8. Creating Depiction Videos for Iteration #15 in Parallel... Creating Refinement tilt-series video for iteration #15... Generating Refinement reconstruction for iteration #15... Refinement Iteration #15 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #16 Beginning Refinement Iteration #16, Round #1 No parameters were switched for Iteration #16 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.05577 for Iteration #16 of Tilt-Series #8. CCMS(rotations) = 3.00039 for Iteration #16 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #16 of Tilt-Series #8. The scaled sum of CCMS values is #0.08789 for Tilt-Series #8. Creating Depiction Videos for Iteration #16 in Parallel... Creating Refinement tilt-series video for iteration #16... Generating Refinement reconstruction for iteration #16... Refinement Iteration #16 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #17 Beginning Refinement Iteration #17, Round #1 No parameters were switched for Iteration #17 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04959 for Iteration #17 of Tilt-Series #8. CCMS(rotations) = 2.98128 for Iteration #17 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #17 of Tilt-Series #8. The scaled sum of CCMS values is #0.08442 for Tilt-Series #8. Creating Depiction Videos for Iteration #17 in Parallel... Creating Refinement tilt-series video for iteration #17... Generating Refinement reconstruction for iteration #17... Refinement Iteration #17 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #18 Beginning Refinement Iteration #18, Round #1 No parameters were switched for Iteration #18 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.03969 for Iteration #18 of Tilt-Series #8. CCMS(rotations) = 2.8385 for Iteration #18 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #18 of Tilt-Series #8. The scaled sum of CCMS values is #0.07662 for Tilt-Series #8. Creating Depiction Videos for Iteration #18 in Parallel... Creating Refinement tilt-series video for iteration #18... Generating Refinement reconstruction for iteration #18... Refinement Iteration #18 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #19 Beginning Refinement Iteration #19, Round #1 No parameters were switched for Iteration #19 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04012 for Iteration #19 of Tilt-Series #8. CCMS(rotations) = 3.27146 for Iteration #19 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #19 of Tilt-Series #8. The scaled sum of CCMS values is #0.08549 for Tilt-Series #8. Creating Depiction Videos for Iteration #19 in Parallel... Creating Refinement tilt-series video for iteration #19... Generating Refinement reconstruction for iteration #19... Refinement Iteration #19 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 No Round parameters changed for Iteration #20 Beginning Refinement Iteration #20, Round #1 No parameters were switched for Iteration #20 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 8)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 8)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 8)... Refinement failed. Retry #4 with Window Size: (1920, 2000) (at sampling 8)... Refinement failed. Retry #5 with Window Size: (1792, 1920) (at sampling 8)... Refinement failed. Retry #6 with Window Size: (1728, 1792) (at sampling 8)... Creating quality assessment statistics... CCMS(shift) = 0.04445 for Iteration #20 of Tilt-Series #8. CCMS(rotations) = 3.07073 for Iteration #20 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #20 of Tilt-Series #8. The scaled sum of CCMS values is #0.08364 for Tilt-Series #8. Creating Depiction Videos for Iteration #20 in Parallel... Creating Refinement tilt-series video for iteration #20... Generating Refinement reconstruction for iteration #20... Refinement Iteration #20 finished after retrying 6 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 1728 Window Size (y) was windowed down to 1792 Beginning Refinement Iteration #21, Round #2 lowpass = 62.5 angstroms Round #2. Parameters in Protomo units: (Note: At binned by 4, pixelsize is 7.05208 Angstroms, Nyquist is 14.10416 Angstroms) window.lowpass.apodization = { 0.0904112820513 0.0904112820513 } map.sampling = 4 window.highpass.diameter = { 0.00359433231397 0.00359433231397 } window.highpass.apodization = { 0.00718866462793 0.00718866462793 } window.mask.apodization = { 10 10 } align.mask.width = { 531 550 } sampling = 4 align.mask.apodization = { 10 10 } map.body = 80.2084017828 map.lowpass.diameter = { 0.22566656 0.22566656 } align.peaksearch.radius = { 300.0 300.0 } window.size = { 556 575 } preprocess.mask.kernel = { 5 5 } window.mask.width = { 531 550 } reference.body = 80.2084017828 window.lowpass.diameter = { 0.22566656 0.22566656 } align.correlation.mode = mcf No parameters were switched for Iteration #21 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.06995 for Iteration #21 of Tilt-Series #8. CCMS(rotations) = 3.62704 for Iteration #21 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #21 of Tilt-Series #8. The scaled sum of CCMS values is #0.10752 for Tilt-Series #8. Creating Depiction Videos for Iteration #21 in Parallel... Creating Refinement tilt-series video for iteration #21... Generating Refinement reconstruction for iteration #21... Refinement Iteration #21 finished after retrying 40 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 576 Window Size (y) was windowed down to 600 No Round parameters changed for Iteration #22 Beginning Refinement Iteration #22, Round #2 No parameters were switched for Iteration #22 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.07653 for Iteration #22 of Tilt-Series #8. CCMS(rotations) = 4.13632 for Iteration #22 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #22 of Tilt-Series #8. The scaled sum of CCMS values is #0.12099 for Tilt-Series #8. Creating Depiction Videos for Iteration #22 in Parallel... Creating Refinement tilt-series video for iteration #22... Generating Refinement reconstruction for iteration #22... Refinement Iteration #22 finished after retrying 40 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 576 Window Size (y) was windowed down to 600 No Round parameters changed for Iteration #23 Beginning Refinement Iteration #23, Round #2 No parameters were switched for Iteration #23 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.04421 for Iteration #23 of Tilt-Series #8. CCMS(rotations) = 4.02204 for Iteration #23 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #23 of Tilt-Series #8. The scaled sum of CCMS values is #0.10255 for Tilt-Series #8. Creating Depiction Videos for Iteration #23 in Parallel... Creating Refinement tilt-series video for iteration #23... Generating Refinement reconstruction for iteration #23... Refinement Iteration #23 finished after retrying 33 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 784 Window Size (y) was windowed down to 800 No Round parameters changed for Iteration #24 Beginning Refinement Iteration #24, Round #2 No parameters were switched for Iteration #24 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Refinement failed. Retry #69 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #70 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #71 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #72 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #73 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #74 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #75 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #76 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #77 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #78 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #79 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #80 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #81 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #82 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #83 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #84 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #85 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #86 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #87 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #88 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #89 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #90 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #91 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #92 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #93 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #94 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #95 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #96 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #97 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #98 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #99 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #100 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #101 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #102 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #103 with Window Size: (720, 720) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.06764 for Iteration #24 of Tilt-Series #8. CCMS(rotations) = 4.5386 for Iteration #24 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #24 of Tilt-Series #8. The scaled sum of CCMS values is #0.12459 for Tilt-Series #8. Creating Depiction Videos for Iteration #24 in Parallel... Creating Refinement tilt-series video for iteration #24... Generating Refinement reconstruction for iteration #24... Refinement Iteration #24 finished after retrying 103 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 720 Window Size (y) was windowed down to 720 No Round parameters changed for Iteration #25 Beginning Refinement Iteration #25, Round #2 No parameters were switched for Iteration #25 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.07514 for Iteration #25 of Tilt-Series #8. CCMS(rotations) = 4.5145 for Iteration #25 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #25 of Tilt-Series #8. The scaled sum of CCMS values is #0.12786 for Tilt-Series #8. Creating Depiction Videos for Iteration #25 in Parallel... Creating Refinement tilt-series video for iteration #25... Generating Refinement reconstruction for iteration #25... Refinement Iteration #25 finished after retrying 36 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 672 Window Size (y) was windowed down to 720 No Round parameters changed for Iteration #26 Beginning Refinement Iteration #26, Round #2 No parameters were switched for Iteration #26 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.05235 for Iteration #26 of Tilt-Series #8. CCMS(rotations) = 5.68854 for Iteration #26 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #26 of Tilt-Series #8. The scaled sum of CCMS values is #0.13994 for Tilt-Series #8. Creating Depiction Videos for Iteration #26 in Parallel... Creating Refinement tilt-series video for iteration #26... Generating Refinement reconstruction for iteration #26... Refinement Iteration #26 finished after retrying 51 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 336 Window Size (y) was windowed down to 360 No Round parameters changed for Iteration #27 Beginning Refinement Iteration #27, Round #2 No parameters were switched for Iteration #27 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Refinement failed. Retry #69 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #70 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #71 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #72 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #73 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #74 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #75 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #76 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #77 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #78 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #79 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #80 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #81 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #82 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #83 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #84 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #85 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #86 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #87 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #88 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #89 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #90 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #91 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #92 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #93 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #94 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #95 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #96 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #97 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #98 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #99 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #100 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #101 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #102 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #103 with Window Size: (720, 720) (at sampling 4)... Refinement failed. Retry #104 with Window Size: (672, 672) (at sampling 4)... Refinement failed. Retry #105 with Window Size: (648, 648) (at sampling 4)... Refinement failed. Retry #106 with Window Size: (640, 640) (at sampling 4)... Refinement failed. Retry #107 with Window Size: (600, 600) (at sampling 4)... Refinement failed. Retry #108 with Window Size: (576, 576) (at sampling 4)... Refinement failed. Retry #109 with Window Size: (560, 560) (at sampling 4)... Refinement failed. Retry #110 with Window Size: (512, 512) (at sampling 4)... Refinement failed. Retry #111 with Window Size: (504, 504) (at sampling 4)... Refinement failed. Retry #112 with Window Size: (480, 480) (at sampling 4)... Refinement failed. Retry #113 with Window Size: (448, 448) (at sampling 4)... Refinement failed. Retry #114 with Window Size: (432, 432) (at sampling 4)... Refinement failed. Retry #115 with Window Size: (400, 400) (at sampling 4)... Refinement failed. Retry #116 with Window Size: (392, 392) (at sampling 4)... Refinement failed. Retry #117 with Window Size: (384, 384) (at sampling 4)... Refinement failed. Retry #118 with Window Size: (360, 360) (at sampling 4)... Refinement failed. Retry #119 with Window Size: (336, 336) (at sampling 4)... Refinement failed. Retry #120 with Window Size: (320, 320) (at sampling 4)... Refinement failed. Retry #121 with Window Size: (288, 288) (at sampling 4)... Refinement failed. Retry #122 with Window Size: (280, 280) (at sampling 4)... Refinement failed. Retry #123 with Window Size: (256, 256) (at sampling 4)... Refinement failed. Retry #124 with Window Size: (240, 240) (at sampling 4)... Refinement failed. Retry #125 with Window Size: (224, 224) (at sampling 4)... Refinement failed. Retry #126 with Window Size: (216, 216) (at sampling 4)... Refinement failed. Retry #127 with Window Size: (200, 200) (at sampling 4)... Refinement failed. Retry #128 with Window Size: (192, 192) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.16181 for Iteration #27 of Tilt-Series #8. CCMS(rotations) = 6.88548 for Iteration #27 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #27 of Tilt-Series #8. The scaled sum of CCMS values is #0.21862 for Tilt-Series #8. Creating Depiction Videos for Iteration #27 in Parallel... Creating Refinement tilt-series video for iteration #27... Generating Refinement reconstruction for iteration #27... Refinement Iteration #27 finished after retrying 128 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 192 Window Size (y) was windowed down to 192 No Round parameters changed for Iteration #28 Beginning Refinement Iteration #28, Round #2 No parameters were switched for Iteration #28 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.09129 for Iteration #28 of Tilt-Series #8. CCMS(rotations) = 10.76224 for Iteration #28 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #28 of Tilt-Series #8. The scaled sum of CCMS values is #0.26089 for Tilt-Series #8. Creating Depiction Videos for Iteration #28 in Parallel... Creating Refinement tilt-series video for iteration #28... Generating Refinement reconstruction for iteration #28... Refinement Iteration #28 finished after retrying 59 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 200 Window Size (y) was windowed down to 216 No Round parameters changed for Iteration #29 Beginning Refinement Iteration #29, Round #2 No parameters were switched for Iteration #29 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.12768 for Iteration #29 of Tilt-Series #8. CCMS(rotations) = 10.96325 for Iteration #29 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #29 of Tilt-Series #8. The scaled sum of CCMS values is #0.28311 for Tilt-Series #8. Creating Depiction Videos for Iteration #29 in Parallel... Creating Refinement tilt-series video for iteration #29... Generating Refinement reconstruction for iteration #29... Refinement Iteration #29 finished after retrying 59 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 200 Window Size (y) was windowed down to 216 No Round parameters changed for Iteration #30 Beginning Refinement Iteration #30, Round #2 No parameters were switched for Iteration #30 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.13484 for Iteration #30 of Tilt-Series #8. CCMS(rotations) = 12.90575 for Iteration #30 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #30 of Tilt-Series #8. The scaled sum of CCMS values is #0.32553 for Tilt-Series #8. Creating Depiction Videos for Iteration #30 in Parallel... Creating Refinement tilt-series video for iteration #30... Generating Refinement reconstruction for iteration #30... Refinement Iteration #30 finished after retrying 56 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 240 Window Size (y) was windowed down to 256 No Round parameters changed for Iteration #31 Beginning Refinement Iteration #31, Round #2 No parameters were switched for Iteration #31 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.16319 for Iteration #31 of Tilt-Series #8. CCMS(rotations) = 12.55391 for Iteration #31 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #31 of Tilt-Series #8. The scaled sum of CCMS values is #0.33267 for Tilt-Series #8. Creating Depiction Videos for Iteration #31 in Parallel... Creating Refinement tilt-series video for iteration #31... Generating Refinement reconstruction for iteration #31... Refinement Iteration #31 finished after retrying 57 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 224 Window Size (y) was windowed down to 240 No Round parameters changed for Iteration #32 Beginning Refinement Iteration #32, Round #2 No parameters were switched for Iteration #32 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.15132 for Iteration #32 of Tilt-Series #8. CCMS(rotations) = 15.46563 for Iteration #32 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #32 of Tilt-Series #8. The scaled sum of CCMS values is #0.38497 for Tilt-Series #8. Creating Depiction Videos for Iteration #32 in Parallel... Creating Refinement tilt-series video for iteration #32... Generating Refinement reconstruction for iteration #32... Refinement Iteration #32 finished after retrying 58 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 216 Window Size (y) was windowed down to 224 No Round parameters changed for Iteration #33 Beginning Refinement Iteration #33, Round #2 No parameters were switched for Iteration #33 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.20441 for Iteration #33 of Tilt-Series #8. CCMS(rotations) = 13.26606 for Iteration #33 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #33 of Tilt-Series #8. The scaled sum of CCMS values is #0.36753 for Tilt-Series #8. Creating Depiction Videos for Iteration #33 in Parallel... Creating Refinement tilt-series video for iteration #33... Generating Refinement reconstruction for iteration #33... Refinement Iteration #33 finished after retrying 68 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 80 Window Size (y) was windowed down to 96 No Round parameters changed for Iteration #34 Beginning Refinement Iteration #34, Round #2 No parameters were switched for Iteration #34 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.27121 for Iteration #34 of Tilt-Series #8. CCMS(rotations) = 13.26703 for Iteration #34 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #34 of Tilt-Series #8. The scaled sum of CCMS values is #0.40094 for Tilt-Series #8. Creating Depiction Videos for Iteration #34 in Parallel... Creating Refinement tilt-series video for iteration #34... Generating Refinement reconstruction for iteration #34... Refinement Iteration #34 finished after retrying 68 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 80 Window Size (y) was windowed down to 96 No Round parameters changed for Iteration #35 Beginning Refinement Iteration #35, Round #2 No parameters were switched for Iteration #35 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Refinement failed. Retry #69 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #70 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #71 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #72 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #73 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #74 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #75 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #76 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #77 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #78 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #79 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #80 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #81 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #82 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #83 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #84 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #85 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #86 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #87 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #88 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #89 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #90 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #91 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #92 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #93 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #94 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #95 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #96 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #97 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #98 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #99 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #100 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #101 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #102 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #103 with Window Size: (720, 720) (at sampling 4)... Refinement failed. Retry #104 with Window Size: (672, 672) (at sampling 4)... Refinement failed. Retry #105 with Window Size: (648, 648) (at sampling 4)... Refinement failed. Retry #106 with Window Size: (640, 640) (at sampling 4)... Refinement failed. Retry #107 with Window Size: (600, 600) (at sampling 4)... Refinement failed. Retry #108 with Window Size: (576, 576) (at sampling 4)... Refinement failed. Retry #109 with Window Size: (560, 560) (at sampling 4)... Refinement failed. Retry #110 with Window Size: (512, 512) (at sampling 4)... Refinement failed. Retry #111 with Window Size: (504, 504) (at sampling 4)... Refinement failed. Retry #112 with Window Size: (480, 480) (at sampling 4)... Refinement failed. Retry #113 with Window Size: (448, 448) (at sampling 4)... Refinement failed. Retry #114 with Window Size: (432, 432) (at sampling 4)... Refinement failed. Retry #115 with Window Size: (400, 400) (at sampling 4)... Refinement failed. Retry #116 with Window Size: (392, 392) (at sampling 4)... Refinement failed. Retry #117 with Window Size: (384, 384) (at sampling 4)... Refinement failed. Retry #118 with Window Size: (360, 360) (at sampling 4)... Refinement failed. Retry #119 with Window Size: (336, 336) (at sampling 4)... Refinement failed. Retry #120 with Window Size: (320, 320) (at sampling 4)... Refinement failed. Retry #121 with Window Size: (288, 288) (at sampling 4)... Refinement failed. Retry #122 with Window Size: (280, 280) (at sampling 4)... Refinement failed. Retry #123 with Window Size: (256, 256) (at sampling 4)... Refinement failed. Retry #124 with Window Size: (240, 240) (at sampling 4)... Refinement failed. Retry #125 with Window Size: (224, 224) (at sampling 4)... Refinement failed. Retry #126 with Window Size: (216, 216) (at sampling 4)... Refinement failed. Retry #127 with Window Size: (200, 200) (at sampling 4)... Refinement failed. Retry #128 with Window Size: (192, 192) (at sampling 4)... Refinement failed. Retry #129 with Window Size: (168, 168) (at sampling 4)... Refinement failed. Retry #130 with Window Size: (160, 160) (at sampling 4)... Refinement failed. Retry #131 with Window Size: (144, 144) (at sampling 4)... Refinement failed. Retry #132 with Window Size: (128, 128) (at sampling 4)... Refinement failed. Retry #133 with Window Size: (120, 120) (at sampling 4)... Refinement failed. Retry #134 with Window Size: (112, 112) (at sampling 4)... Refinement failed. Retry #135 with Window Size: (96, 96) (at sampling 4)... Refinement failed. Retry #136 with Window Size: (80, 80) (at sampling 4)... Refinement failed. Retry #137 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #138 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #139 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #140 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #141 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #142 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #143 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #144 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #145 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #146 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #147 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #148 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #149 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #150 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #151 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #152 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #153 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #154 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #155 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #156 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #157 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #158 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #159 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #160 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #161 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #162 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #163 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #164 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #165 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #166 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #167 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #168 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #169 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #170 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #171 with Window Size: (720, 720) (at sampling 4)... Refinement failed. Retry #172 with Window Size: (672, 672) (at sampling 4)... Refinement failed. Retry #173 with Window Size: (648, 648) (at sampling 4)... Refinement failed. Retry #174 with Window Size: (640, 640) (at sampling 4)... Refinement failed. Retry #175 with Window Size: (600, 600) (at sampling 4)... Refinement failed. Retry #176 with Window Size: (576, 576) (at sampling 4)... Refinement failed. Retry #177 with Window Size: (560, 560) (at sampling 4)... Refinement failed. Retry #178 with Window Size: (512, 512) (at sampling 4)... Refinement failed. Retry #179 with Window Size: (504, 504) (at sampling 4)... Refinement failed. Retry #180 with Window Size: (480, 480) (at sampling 4)... Refinement failed. Retry #181 with Window Size: (448, 448) (at sampling 4)... Refinement failed. Retry #182 with Window Size: (432, 432) (at sampling 4)... Refinement failed. Retry #183 with Window Size: (400, 400) (at sampling 4)... Refinement failed. Retry #184 with Window Size: (392, 392) (at sampling 4)... Refinement failed. Retry #185 with Window Size: (384, 384) (at sampling 4)... Refinement failed. Retry #186 with Window Size: (360, 360) (at sampling 4)... Refinement failed. Retry #187 with Window Size: (336, 336) (at sampling 4)... Refinement failed. Retry #188 with Window Size: (320, 320) (at sampling 4)... Refinement failed. Retry #189 with Window Size: (288, 288) (at sampling 4)... Refinement failed. Retry #190 with Window Size: (280, 280) (at sampling 4)... Refinement failed. Retry #191 with Window Size: (256, 256) (at sampling 4)... Refinement failed. Retry #192 with Window Size: (240, 240) (at sampling 4)... Refinement failed. Retry #193 with Window Size: (224, 224) (at sampling 4)... Refinement failed. Retry #194 with Window Size: (216, 216) (at sampling 4)... Refinement failed. Retry #195 with Window Size: (200, 200) (at sampling 4)... Refinement failed. Retry #196 with Window Size: (192, 192) (at sampling 4)... Refinement failed. Retry #197 with Window Size: (168, 168) (at sampling 4)... Refinement failed. Retry #198 with Window Size: (160, 160) (at sampling 4)... Refinement failed. Retry #199 with Window Size: (144, 144) (at sampling 4)... Refinement failed. Retry #200 with Window Size: (128, 128) (at sampling 4)... Refinement failed. Retry #201 with Window Size: (120, 120) (at sampling 4)... Refinement failed. Retry #202 with Window Size: (112, 112) (at sampling 4)... Refinement failed. Retry #203 with Window Size: (96, 96) (at sampling 4)... Refinement failed. Retry #204 with Window Size: (80, 80) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.40846 for Iteration #35 of Tilt-Series #8. CCMS(rotations) = 15.36976 for Iteration #35 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #35 of Tilt-Series #8. The scaled sum of CCMS values is #0.51163 for Tilt-Series #8. Creating Depiction Videos for Iteration #35 in Parallel... Creating Refinement tilt-series video for iteration #35... Generating Refinement reconstruction for iteration #35... Refinement Iteration #35 finished after retrying 204 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 80 Window Size (y) was windowed down to 80 No Round parameters changed for Iteration #36 Beginning Refinement Iteration #36, Round #2 No parameters were switched for Iteration #36 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Refinement failed. Retry #69 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #70 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #71 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #72 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #73 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #74 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #75 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #76 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #77 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #78 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #79 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #80 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #81 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #82 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #83 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #84 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #85 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #86 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #87 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #88 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #89 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #90 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #91 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #92 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #93 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #94 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #95 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #96 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #97 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #98 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #99 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #100 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #101 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #102 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #103 with Window Size: (720, 720) (at sampling 4)... Refinement failed. Retry #104 with Window Size: (672, 672) (at sampling 4)... Refinement failed. Retry #105 with Window Size: (648, 648) (at sampling 4)... Refinement failed. Retry #106 with Window Size: (640, 640) (at sampling 4)... Refinement failed. Retry #107 with Window Size: (600, 600) (at sampling 4)... Refinement failed. Retry #108 with Window Size: (576, 576) (at sampling 4)... Refinement failed. Retry #109 with Window Size: (560, 560) (at sampling 4)... Refinement failed. Retry #110 with Window Size: (512, 512) (at sampling 4)... Refinement failed. Retry #111 with Window Size: (504, 504) (at sampling 4)... Refinement failed. Retry #112 with Window Size: (480, 480) (at sampling 4)... Refinement failed. Retry #113 with Window Size: (448, 448) (at sampling 4)... Refinement failed. Retry #114 with Window Size: (432, 432) (at sampling 4)... Refinement failed. Retry #115 with Window Size: (400, 400) (at sampling 4)... Refinement failed. Retry #116 with Window Size: (392, 392) (at sampling 4)... Refinement failed. Retry #117 with Window Size: (384, 384) (at sampling 4)... Refinement failed. Retry #118 with Window Size: (360, 360) (at sampling 4)... Refinement failed. Retry #119 with Window Size: (336, 336) (at sampling 4)... Refinement failed. Retry #120 with Window Size: (320, 320) (at sampling 4)... Refinement failed. Retry #121 with Window Size: (288, 288) (at sampling 4)... Refinement failed. Retry #122 with Window Size: (280, 280) (at sampling 4)... Refinement failed. Retry #123 with Window Size: (256, 256) (at sampling 4)... Refinement failed. Retry #124 with Window Size: (240, 240) (at sampling 4)... Refinement failed. Retry #125 with Window Size: (224, 224) (at sampling 4)... Refinement failed. Retry #126 with Window Size: (216, 216) (at sampling 4)... Refinement failed. Retry #127 with Window Size: (200, 200) (at sampling 4)... Refinement failed. Retry #128 with Window Size: (192, 192) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.17927 for Iteration #36 of Tilt-Series #8. CCMS(rotations) = 22.28696 for Iteration #36 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #36 of Tilt-Series #8. The scaled sum of CCMS values is #0.53538 for Tilt-Series #8. Creating Depiction Videos for Iteration #36 in Parallel... Creating Refinement tilt-series video for iteration #36... Generating Refinement reconstruction for iteration #36... Refinement Iteration #36 finished after retrying 128 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 192 Window Size (y) was windowed down to 192 No Round parameters changed for Iteration #37 Beginning Refinement Iteration #37, Round #2 No parameters were switched for Iteration #37 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.15429 for Iteration #37 of Tilt-Series #8. CCMS(rotations) = 15.10662 for Iteration #37 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #37 of Tilt-Series #8. The scaled sum of CCMS values is #0.37928 for Tilt-Series #8. Creating Depiction Videos for Iteration #37 in Parallel... Creating Refinement tilt-series video for iteration #37... Generating Refinement reconstruction for iteration #37... Refinement Iteration #37 finished after retrying 58 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 216 Window Size (y) was windowed down to 224 No Round parameters changed for Iteration #38 Beginning Refinement Iteration #38, Round #2 No parameters were switched for Iteration #38 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.11079 for Iteration #38 of Tilt-Series #8. CCMS(rotations) = 17.36611 for Iteration #38 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #38 of Tilt-Series #8. The scaled sum of CCMS values is #0.40272 for Tilt-Series #8. Creating Depiction Videos for Iteration #38 in Parallel... Creating Refinement tilt-series video for iteration #38... Generating Refinement reconstruction for iteration #38... Refinement Iteration #38 finished after retrying 50 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 360 Window Size (y) was windowed down to 384 No Round parameters changed for Iteration #39 Beginning Refinement Iteration #39, Round #2 No parameters were switched for Iteration #39 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Refinement failed. Retry #65 with Window Size: (120, 128) (at sampling 4)... Refinement failed. Retry #66 with Window Size: (112, 120) (at sampling 4)... Refinement failed. Retry #67 with Window Size: (96, 112) (at sampling 4)... Refinement failed. Retry #68 with Window Size: (80, 96) (at sampling 4)... Refinement failed. Retry #69 with Window Size: (2048, 2048) (at sampling 4)... Refinement failed. Retry #70 with Window Size: (2016, 2016) (at sampling 4)... Refinement failed. Retry #71 with Window Size: (2000, 2000) (at sampling 4)... Refinement failed. Retry #72 with Window Size: (1960, 1960) (at sampling 4)... Refinement failed. Retry #73 with Window Size: (1944, 1944) (at sampling 4)... Refinement failed. Retry #74 with Window Size: (1920, 1920) (at sampling 4)... Refinement failed. Retry #75 with Window Size: (1800, 1800) (at sampling 4)... Refinement failed. Retry #76 with Window Size: (1792, 1792) (at sampling 4)... Refinement failed. Retry #77 with Window Size: (1728, 1728) (at sampling 4)... Refinement failed. Retry #78 with Window Size: (1680, 1680) (at sampling 4)... Refinement failed. Retry #79 with Window Size: (1600, 1600) (at sampling 4)... Refinement failed. Retry #80 with Window Size: (1568, 1568) (at sampling 4)... Refinement failed. Retry #81 with Window Size: (1536, 1536) (at sampling 4)... Refinement failed. Retry #82 with Window Size: (1512, 1512) (at sampling 4)... Refinement failed. Retry #83 with Window Size: (1440, 1440) (at sampling 4)... Refinement failed. Retry #84 with Window Size: (1400, 1400) (at sampling 4)... Refinement failed. Retry #85 with Window Size: (1344, 1344) (at sampling 4)... Refinement failed. Retry #86 with Window Size: (1296, 1296) (at sampling 4)... Refinement failed. Retry #87 with Window Size: (1280, 1280) (at sampling 4)... Refinement failed. Retry #88 with Window Size: (1200, 1200) (at sampling 4)... Refinement failed. Retry #89 with Window Size: (1176, 1176) (at sampling 4)... Refinement failed. Retry #90 with Window Size: (1152, 1152) (at sampling 4)... Refinement failed. Retry #91 with Window Size: (1120, 1120) (at sampling 4)... Refinement failed. Retry #92 with Window Size: (1080, 1080) (at sampling 4)... Refinement failed. Retry #93 with Window Size: (1024, 1024) (at sampling 4)... Refinement failed. Retry #94 with Window Size: (1008, 1008) (at sampling 4)... Refinement failed. Retry #95 with Window Size: (1000, 1000) (at sampling 4)... Refinement failed. Retry #96 with Window Size: (960, 960) (at sampling 4)... Refinement failed. Retry #97 with Window Size: (896, 896) (at sampling 4)... Refinement failed. Retry #98 with Window Size: (864, 864) (at sampling 4)... Refinement failed. Retry #99 with Window Size: (840, 840) (at sampling 4)... Refinement failed. Retry #100 with Window Size: (800, 800) (at sampling 4)... Refinement failed. Retry #101 with Window Size: (784, 784) (at sampling 4)... Refinement failed. Retry #102 with Window Size: (768, 768) (at sampling 4)... Refinement failed. Retry #103 with Window Size: (720, 720) (at sampling 4)... Refinement failed. Retry #104 with Window Size: (672, 672) (at sampling 4)... Refinement failed. Retry #105 with Window Size: (648, 648) (at sampling 4)... Refinement failed. Retry #106 with Window Size: (640, 640) (at sampling 4)... Refinement failed. Retry #107 with Window Size: (600, 600) (at sampling 4)... Refinement failed. Retry #108 with Window Size: (576, 576) (at sampling 4)... Refinement failed. Retry #109 with Window Size: (560, 560) (at sampling 4)... Refinement failed. Retry #110 with Window Size: (512, 512) (at sampling 4)... Refinement failed. Retry #111 with Window Size: (504, 504) (at sampling 4)... Refinement failed. Retry #112 with Window Size: (480, 480) (at sampling 4)... Refinement failed. Retry #113 with Window Size: (448, 448) (at sampling 4)... Refinement failed. Retry #114 with Window Size: (432, 432) (at sampling 4)... Refinement failed. Retry #115 with Window Size: (400, 400) (at sampling 4)... Refinement failed. Retry #116 with Window Size: (392, 392) (at sampling 4)... Refinement failed. Retry #117 with Window Size: (384, 384) (at sampling 4)... Refinement failed. Retry #118 with Window Size: (360, 360) (at sampling 4)... Refinement failed. Retry #119 with Window Size: (336, 336) (at sampling 4)... Refinement failed. Retry #120 with Window Size: (320, 320) (at sampling 4)... Refinement failed. Retry #121 with Window Size: (288, 288) (at sampling 4)... Refinement failed. Retry #122 with Window Size: (280, 280) (at sampling 4)... Refinement failed. Retry #123 with Window Size: (256, 256) (at sampling 4)... Refinement failed. Retry #124 with Window Size: (240, 240) (at sampling 4)... Refinement failed. Retry #125 with Window Size: (224, 224) (at sampling 4)... Refinement failed. Retry #126 with Window Size: (216, 216) (at sampling 4)... Refinement failed. Retry #127 with Window Size: (200, 200) (at sampling 4)... Refinement failed. Retry #128 with Window Size: (192, 192) (at sampling 4)... Refinement failed. Retry #129 with Window Size: (168, 168) (at sampling 4)... Refinement failed. Retry #130 with Window Size: (160, 160) (at sampling 4)... Refinement failed. Retry #131 with Window Size: (144, 144) (at sampling 4)... Refinement failed. Retry #132 with Window Size: (128, 128) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.18183 for Iteration #39 of Tilt-Series #8. CCMS(rotations) = 17.90046 for Iteration #39 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #39 of Tilt-Series #8. The scaled sum of CCMS values is #0.44892 for Tilt-Series #8. Creating Depiction Videos for Iteration #39 in Parallel... Creating Refinement tilt-series video for iteration #39... Generating Refinement reconstruction for iteration #39... Refinement Iteration #39 finished after retrying 132 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 128 Window Size (y) was windowed down to 128 No Round parameters changed for Iteration #40 Beginning Refinement Iteration #40, Round #2 No parameters were switched for Iteration #40 Refinement failed. Retry #1 with Window Size: (2048, 2160) (at sampling 4)... Refinement failed. Retry #2 with Window Size: (2016, 2048) (at sampling 4)... Refinement failed. Retry #3 with Window Size: (2000, 2016) (at sampling 4)... Refinement failed. Retry #4 with Window Size: (1960, 2000) (at sampling 4)... Refinement failed. Retry #5 with Window Size: (1944, 1960) (at sampling 4)... Refinement failed. Retry #6 with Window Size: (1920, 1944) (at sampling 4)... Refinement failed. Retry #7 with Window Size: (1800, 1920) (at sampling 4)... Refinement failed. Retry #8 with Window Size: (1792, 1800) (at sampling 4)... Refinement failed. Retry #9 with Window Size: (1728, 1792) (at sampling 4)... Refinement failed. Retry #10 with Window Size: (1680, 1728) (at sampling 4)... Refinement failed. Retry #11 with Window Size: (1600, 1680) (at sampling 4)... Refinement failed. Retry #12 with Window Size: (1568, 1600) (at sampling 4)... Refinement failed. Retry #13 with Window Size: (1536, 1568) (at sampling 4)... Refinement failed. Retry #14 with Window Size: (1512, 1536) (at sampling 4)... Refinement failed. Retry #15 with Window Size: (1440, 1512) (at sampling 4)... Refinement failed. Retry #16 with Window Size: (1400, 1440) (at sampling 4)... Refinement failed. Retry #17 with Window Size: (1344, 1400) (at sampling 4)... Refinement failed. Retry #18 with Window Size: (1296, 1344) (at sampling 4)... Refinement failed. Retry #19 with Window Size: (1280, 1296) (at sampling 4)... Refinement failed. Retry #20 with Window Size: (1200, 1280) (at sampling 4)... Refinement failed. Retry #21 with Window Size: (1176, 1200) (at sampling 4)... Refinement failed. Retry #22 with Window Size: (1152, 1176) (at sampling 4)... Refinement failed. Retry #23 with Window Size: (1120, 1152) (at sampling 4)... Refinement failed. Retry #24 with Window Size: (1080, 1120) (at sampling 4)... Refinement failed. Retry #25 with Window Size: (1024, 1080) (at sampling 4)... Refinement failed. Retry #26 with Window Size: (1008, 1024) (at sampling 4)... Refinement failed. Retry #27 with Window Size: (1000, 1008) (at sampling 4)... Refinement failed. Retry #28 with Window Size: (960, 1000) (at sampling 4)... Refinement failed. Retry #29 with Window Size: (896, 960) (at sampling 4)... Refinement failed. Retry #30 with Window Size: (864, 896) (at sampling 4)... Refinement failed. Retry #31 with Window Size: (840, 864) (at sampling 4)... Refinement failed. Retry #32 with Window Size: (800, 840) (at sampling 4)... Refinement failed. Retry #33 with Window Size: (784, 800) (at sampling 4)... Refinement failed. Retry #34 with Window Size: (768, 784) (at sampling 4)... Refinement failed. Retry #35 with Window Size: (720, 768) (at sampling 4)... Refinement failed. Retry #36 with Window Size: (672, 720) (at sampling 4)... Refinement failed. Retry #37 with Window Size: (648, 672) (at sampling 4)... Refinement failed. Retry #38 with Window Size: (640, 648) (at sampling 4)... Refinement failed. Retry #39 with Window Size: (600, 640) (at sampling 4)... Refinement failed. Retry #40 with Window Size: (576, 600) (at sampling 4)... Refinement failed. Retry #41 with Window Size: (560, 576) (at sampling 4)... Refinement failed. Retry #42 with Window Size: (512, 560) (at sampling 4)... Refinement failed. Retry #43 with Window Size: (504, 512) (at sampling 4)... Refinement failed. Retry #44 with Window Size: (480, 504) (at sampling 4)... Refinement failed. Retry #45 with Window Size: (448, 480) (at sampling 4)... Refinement failed. Retry #46 with Window Size: (432, 448) (at sampling 4)... Refinement failed. Retry #47 with Window Size: (400, 432) (at sampling 4)... Refinement failed. Retry #48 with Window Size: (392, 400) (at sampling 4)... Refinement failed. Retry #49 with Window Size: (384, 392) (at sampling 4)... Refinement failed. Retry #50 with Window Size: (360, 384) (at sampling 4)... Refinement failed. Retry #51 with Window Size: (336, 360) (at sampling 4)... Refinement failed. Retry #52 with Window Size: (320, 336) (at sampling 4)... Refinement failed. Retry #53 with Window Size: (288, 320) (at sampling 4)... Refinement failed. Retry #54 with Window Size: (280, 288) (at sampling 4)... Refinement failed. Retry #55 with Window Size: (256, 280) (at sampling 4)... Refinement failed. Retry #56 with Window Size: (240, 256) (at sampling 4)... Refinement failed. Retry #57 with Window Size: (224, 240) (at sampling 4)... Refinement failed. Retry #58 with Window Size: (216, 224) (at sampling 4)... Refinement failed. Retry #59 with Window Size: (200, 216) (at sampling 4)... Refinement failed. Retry #60 with Window Size: (192, 200) (at sampling 4)... Refinement failed. Retry #61 with Window Size: (168, 192) (at sampling 4)... Refinement failed. Retry #62 with Window Size: (160, 168) (at sampling 4)... Refinement failed. Retry #63 with Window Size: (144, 160) (at sampling 4)... Refinement failed. Retry #64 with Window Size: (128, 144) (at sampling 4)... Creating quality assessment statistics... CCMS(shift) = 0.22331 for Iteration #40 of Tilt-Series #8. CCMS(rotations) = 13.25353 for Iteration #40 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #40 of Tilt-Series #8. The scaled sum of CCMS values is #0.37672 for Tilt-Series #8. Creating Depiction Videos for Iteration #40 in Parallel... Creating Refinement tilt-series video for iteration #40... Generating Refinement reconstruction for iteration #40... Refinement Iteration #40 finished after retrying 64 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 128 Window Size (y) was windowed down to 144 Beginning Refinement Iteration #41, Round #3 lowpass = 31.25 angstroms Round #3. Parameters in Protomo units: (Note: At binned by 2, pixelsize is 3.52604 Angstroms, Nyquist is 7.05208 Angstroms) window.lowpass.apodization = { 0.0904112820513 0.0904112820513 } map.sampling = 2 window.highpass.diameter = { 0.00179716615698 0.00179716615698 } window.highpass.apodization = { 0.00359433231397 0.00359433231397 } window.mask.apodization = { 10 10 } align.mask.width = { 1088 1126 } sampling = 2 align.mask.apodization = { 10 10 } map.body = 160.416803566 map.lowpass.diameter = { 0.22566656 0.22566656 } align.peaksearch.radius = { 300.0 300.0 } window.size = { 1113 1151 } preprocess.mask.kernel = { 5 5 } window.mask.width = { 1088 1126 } reference.body = 160.416803566 window.lowpass.diameter = { 0.22566656 0.22566656 } align.correlation.mode = mcf No parameters were switched for Iteration #41 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.08898 for Iteration #41 of Tilt-Series #8. CCMS(rotations) = 12.85443 for Iteration #41 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #41 of Tilt-Series #8. The scaled sum of CCMS values is #0.30158 for Tilt-Series #8. Creating Depiction Videos for Iteration #41 in Parallel... Creating Refinement tilt-series video for iteration #41... Generating Refinement reconstruction for iteration #41... Refinement Iteration #41 finished after retrying 73 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 252 Window Size (y) was windowed down to 280 No Round parameters changed for Iteration #42 Beginning Refinement Iteration #42, Round #3 No parameters were switched for Iteration #42 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.07642 for Iteration #42 of Tilt-Series #8. CCMS(rotations) = 17.4462 for Iteration #42 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #42 of Tilt-Series #8. The scaled sum of CCMS values is #0.38713 for Tilt-Series #8. Creating Depiction Videos for Iteration #42 in Parallel... Creating Refinement tilt-series video for iteration #42... Generating Refinement reconstruction for iteration #42... Refinement Iteration #42 finished after retrying 70 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 288 Window Size (y) was windowed down to 320 No Round parameters changed for Iteration #43 Beginning Refinement Iteration #43, Round #3 No parameters were switched for Iteration #43 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.07997 for Iteration #43 of Tilt-Series #8. CCMS(rotations) = 16.86404 for Iteration #43 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #43 of Tilt-Series #8. The scaled sum of CCMS values is #0.37726 for Tilt-Series #8. Creating Depiction Videos for Iteration #43 in Parallel... Creating Refinement tilt-series video for iteration #43... Generating Refinement reconstruction for iteration #43... Refinement Iteration #43 finished after retrying 81 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 168 Window Size (y) was windowed down to 192 No Round parameters changed for Iteration #44 Beginning Refinement Iteration #44, Round #3 No parameters were switched for Iteration #44 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.27116 for Iteration #44 of Tilt-Series #8. CCMS(rotations) = 16.73962 for Iteration #44 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #44 of Tilt-Series #8. The scaled sum of CCMS values is #0.47037 for Tilt-Series #8. Creating Depiction Videos for Iteration #44 in Parallel... Creating Refinement tilt-series video for iteration #44... Generating Refinement reconstruction for iteration #44... Refinement Iteration #44 finished after retrying 98 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 40 Window Size (y) was windowed down to 56 No Round parameters changed for Iteration #45 Beginning Refinement Iteration #45, Round #3 No parameters were switched for Iteration #45 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.23702 for Iteration #45 of Tilt-Series #8. CCMS(rotations) = 18.19049 for Iteration #45 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #45 of Tilt-Series #8. The scaled sum of CCMS values is #0.48232 for Tilt-Series #8. Creating Depiction Videos for Iteration #45 in Parallel... Creating Refinement tilt-series video for iteration #45... Generating Refinement reconstruction for iteration #45... Refinement Iteration #45 finished after retrying 98 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 40 Window Size (y) was windowed down to 56 No Round parameters changed for Iteration #46 Beginning Refinement Iteration #46, Round #3 No parameters were switched for Iteration #46 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Refinement failed. Retry #99 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #100 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #101 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #102 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #103 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #104 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #105 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #106 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #107 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #108 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #109 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #110 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #111 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #112 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #113 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #114 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #115 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #116 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #117 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #118 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #119 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #120 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #121 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #122 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #123 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #124 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #125 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #126 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #127 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #128 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #129 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #130 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #131 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #132 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #133 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #134 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #135 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #136 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #137 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #138 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #139 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #140 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #141 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #142 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #143 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #144 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #145 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #146 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #147 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #148 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #149 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #150 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #151 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #152 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #153 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #154 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #155 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #156 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #157 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #158 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #159 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #160 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #161 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #162 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #163 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #164 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #165 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #166 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #167 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #168 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #169 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #170 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #171 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #172 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #173 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #174 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #175 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #176 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #177 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #178 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #179 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #180 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #181 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #182 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #183 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #184 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #185 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #186 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #187 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #188 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #189 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #190 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #191 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #192 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #193 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #194 with Window Size: (56, 56) (at sampling 2)... Refinement failed. Retry #195 with Window Size: (48, 48) (at sampling 2)... Refinement failed. Retry #196 with Window Size: (40, 40) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.34401 for Iteration #46 of Tilt-Series #8. CCMS(rotations) = 20.47828 for Iteration #46 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #46 of Tilt-Series #8. The scaled sum of CCMS values is #0.58157 for Tilt-Series #8. Creating Depiction Videos for Iteration #46 in Parallel... Creating Refinement tilt-series video for iteration #46... Generating Refinement reconstruction for iteration #46... Refinement Iteration #46 finished after retrying 196 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 40 Window Size (y) was windowed down to 40 No Round parameters changed for Iteration #47 Beginning Refinement Iteration #47, Round #3 No parameters were switched for Iteration #47 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.22312 for Iteration #47 of Tilt-Series #8. CCMS(rotations) = 19.86119 for Iteration #47 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #47 of Tilt-Series #8. The scaled sum of CCMS values is #0.50878 for Tilt-Series #8. Creating Depiction Videos for Iteration #47 in Parallel... Creating Refinement tilt-series video for iteration #47... Generating Refinement reconstruction for iteration #47... Refinement Iteration #47 finished after retrying 95 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 60 Window Size (y) was windowed down to 72 No Round parameters changed for Iteration #48 Beginning Refinement Iteration #48, Round #3 No parameters were switched for Iteration #48 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.10995 for Iteration #48 of Tilt-Series #8. CCMS(rotations) = 28.10954 for Iteration #48 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #48 of Tilt-Series #8. The scaled sum of CCMS values is #0.61717 for Tilt-Series #8. Creating Depiction Videos for Iteration #48 in Parallel... Creating Refinement tilt-series video for iteration #48... Generating Refinement reconstruction for iteration #48... Refinement Iteration #48 finished after retrying 94 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 64 Window Size (y) was windowed down to 80 No Round parameters changed for Iteration #49 Beginning Refinement Iteration #49, Round #3 No parameters were switched for Iteration #49 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Refinement failed. Retry #99 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #100 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #101 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #102 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #103 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #104 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #105 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #106 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #107 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #108 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #109 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #110 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #111 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #112 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #113 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #114 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #115 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #116 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #117 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #118 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #119 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #120 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #121 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #122 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #123 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #124 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #125 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #126 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #127 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #128 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #129 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #130 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #131 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #132 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #133 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #134 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #135 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #136 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #137 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #138 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #139 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #140 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #141 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #142 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #143 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #144 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #145 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #146 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #147 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #148 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #149 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #150 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #151 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #152 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #153 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #154 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #155 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #156 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #157 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #158 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #159 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #160 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #161 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #162 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #163 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #164 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #165 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #166 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #167 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #168 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #169 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #170 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #171 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #172 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #173 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #174 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #175 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #176 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #177 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #178 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #179 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #180 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #181 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #182 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #183 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #184 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #185 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #186 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #187 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #188 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #189 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #190 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #191 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #192 with Window Size: (64, 64) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.32062 for Iteration #49 of Tilt-Series #8. CCMS(rotations) = 30.38859 for Iteration #49 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #49 of Tilt-Series #8. The scaled sum of CCMS values is #0.76808 for Tilt-Series #8. Creating Depiction Videos for Iteration #49 in Parallel... Creating Refinement tilt-series video for iteration #49... Generating Refinement reconstruction for iteration #49... Refinement Iteration #49 finished after retrying 192 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 64 Window Size (y) was windowed down to 64 No Round parameters changed for Iteration #50 Beginning Refinement Iteration #50, Round #3 No parameters were switched for Iteration #50 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Refinement failed. Retry #99 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #100 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #101 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #102 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #103 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #104 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #105 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #106 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #107 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #108 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #109 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #110 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #111 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #112 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #113 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #114 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #115 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #116 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #117 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #118 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #119 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #120 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #121 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #122 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #123 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #124 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #125 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #126 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #127 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #128 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #129 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #130 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #131 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #132 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #133 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #134 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #135 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #136 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #137 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #138 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #139 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #140 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #141 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #142 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #143 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #144 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #145 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #146 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #147 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #148 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #149 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #150 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #151 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #152 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #153 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #154 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #155 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #156 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #157 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #158 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #159 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #160 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #161 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #162 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #163 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #164 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #165 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #166 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #167 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #168 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #169 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #170 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #171 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #172 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #173 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #174 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #175 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #176 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #177 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #178 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #179 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #180 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #181 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #182 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #183 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #184 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #185 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #186 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #187 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #188 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #189 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #190 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #191 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #192 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #193 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #194 with Window Size: (56, 56) (at sampling 2)... Creating quality assessment statistics... CCMS(shift) = 0.22054 for Iteration #50 of Tilt-Series #8. CCMS(rotations) = 24.48254 for Iteration #50 of Tilt-Series #8. CCMS(scale) = 0.0 for Iteration #50 of Tilt-Series #8. The scaled sum of CCMS values is #0.59992 for Tilt-Series #8. Creating Depiction Videos for Iteration #50 in Parallel... Creating Refinement tilt-series video for iteration #50... Generating Refinement reconstruction for iteration #50... Refinement Iteration #50 finished after retrying 194 time(s) due to the sampled search area being too small. Window Size (x) was windowed down to 56 Window Size (y) was windowed down to 56 No Round parameters changed for Iteration #51 Beginning Refinement Iteration #51, Round #3 No parameters were switched for Iteration #51 Refinement failed. Retry #1 with Window Size: (2100, 2240) (at sampling 2)... Refinement failed. Retry #2 with Window Size: (2048, 2160) (at sampling 2)... Refinement failed. Retry #3 with Window Size: (2016, 2100) (at sampling 2)... Refinement failed. Retry #4 with Window Size: (2000, 2048) (at sampling 2)... Refinement failed. Retry #5 with Window Size: (1960, 2016) (at sampling 2)... Refinement failed. Retry #6 with Window Size: (1944, 2000) (at sampling 2)... Refinement failed. Retry #7 with Window Size: (1920, 1960) (at sampling 2)... Refinement failed. Retry #8 with Window Size: (1800, 1944) (at sampling 2)... Refinement failed. Retry #9 with Window Size: (1792, 1920) (at sampling 2)... Refinement failed. Retry #10 with Window Size: (1764, 1800) (at sampling 2)... Refinement failed. Retry #11 with Window Size: (1728, 1792) (at sampling 2)... Refinement failed. Retry #12 with Window Size: (1680, 1764) (at sampling 2)... Refinement failed. Retry #13 with Window Size: (1620, 1728) (at sampling 2)... Refinement failed. Retry #14 with Window Size: (1600, 1680) (at sampling 2)... Refinement failed. Retry #15 with Window Size: (1568, 1620) (at sampling 2)... Refinement failed. Retry #16 with Window Size: (1536, 1600) (at sampling 2)... Refinement failed. Retry #17 with Window Size: (1512, 1568) (at sampling 2)... Refinement failed. Retry #18 with Window Size: (1500, 1536) (at sampling 2)... Refinement failed. Retry #19 with Window Size: (1440, 1512) (at sampling 2)... Refinement failed. Retry #20 with Window Size: (1400, 1500) (at sampling 2)... Refinement failed. Retry #21 with Window Size: (1372, 1440) (at sampling 2)... Refinement failed. Retry #22 with Window Size: (1344, 1400) (at sampling 2)... Refinement failed. Retry #23 with Window Size: (1296, 1372) (at sampling 2)... Refinement failed. Retry #24 with Window Size: (1280, 1344) (at sampling 2)... Refinement failed. Retry #25 with Window Size: (1260, 1296) (at sampling 2)... Refinement failed. Retry #26 with Window Size: (1200, 1280) (at sampling 2)... Refinement failed. Retry #27 with Window Size: (1176, 1260) (at sampling 2)... Refinement failed. Retry #28 with Window Size: (1152, 1200) (at sampling 2)... Refinement failed. Retry #29 with Window Size: (1120, 1176) (at sampling 2)... Refinement failed. Retry #30 with Window Size: (1080, 1152) (at sampling 2)... Refinement failed. Retry #31 with Window Size: (1024, 1120) (at sampling 2)... Refinement failed. Retry #32 with Window Size: (1008, 1080) (at sampling 2)... Refinement failed. Retry #33 with Window Size: (1000, 1024) (at sampling 2)... Refinement failed. Retry #34 with Window Size: (980, 1008) (at sampling 2)... Refinement failed. Retry #35 with Window Size: (972, 1000) (at sampling 2)... Refinement failed. Retry #36 with Window Size: (960, 980) (at sampling 2)... Refinement failed. Retry #37 with Window Size: (900, 972) (at sampling 2)... Refinement failed. Retry #38 with Window Size: (896, 960) (at sampling 2)... Refinement failed. Retry #39 with Window Size: (864, 900) (at sampling 2)... Refinement failed. Retry #40 with Window Size: (840, 896) (at sampling 2)... Refinement failed. Retry #41 with Window Size: (800, 864) (at sampling 2)... Refinement failed. Retry #42 with Window Size: (784, 840) (at sampling 2)... Refinement failed. Retry #43 with Window Size: (768, 800) (at sampling 2)... Refinement failed. Retry #44 with Window Size: (756, 784) (at sampling 2)... Refinement failed. Retry #45 with Window Size: (720, 768) (at sampling 2)... Refinement failed. Retry #46 with Window Size: (700, 756) (at sampling 2)... Refinement failed. Retry #47 with Window Size: (672, 720) (at sampling 2)... Refinement failed. Retry #48 with Window Size: (648, 700) (at sampling 2)... Refinement failed. Retry #49 with Window Size: (640, 672) (at sampling 2)... Refinement failed. Retry #50 with Window Size: (600, 648) (at sampling 2)... Refinement failed. Retry #51 with Window Size: (588, 640) (at sampling 2)... Refinement failed. Retry #52 with Window Size: (576, 600) (at sampling 2)... Refinement failed. Retry #53 with Window Size: (560, 588) (at sampling 2)... Refinement failed. Retry #54 with Window Size: (540, 576) (at sampling 2)... Refinement failed. Retry #55 with Window Size: (512, 560) (at sampling 2)... Refinement failed. Retry #56 with Window Size: (504, 540) (at sampling 2)... Refinement failed. Retry #57 with Window Size: (500, 512) (at sampling 2)... Refinement failed. Retry #58 with Window Size: (480, 504) (at sampling 2)... Refinement failed. Retry #59 with Window Size: (448, 500) (at sampling 2)... Refinement failed. Retry #60 with Window Size: (432, 480) (at sampling 2)... Refinement failed. Retry #61 with Window Size: (420, 448) (at sampling 2)... Refinement failed. Retry #62 with Window Size: (400, 432) (at sampling 2)... Refinement failed. Retry #63 with Window Size: (392, 420) (at sampling 2)... Refinement failed. Retry #64 with Window Size: (384, 400) (at sampling 2)... Refinement failed. Retry #65 with Window Size: (360, 392) (at sampling 2)... Refinement failed. Retry #66 with Window Size: (336, 384) (at sampling 2)... Refinement failed. Retry #67 with Window Size: (324, 360) (at sampling 2)... Refinement failed. Retry #68 with Window Size: (320, 336) (at sampling 2)... Refinement failed. Retry #69 with Window Size: (300, 324) (at sampling 2)... Refinement failed. Retry #70 with Window Size: (288, 320) (at sampling 2)... Refinement failed. Retry #71 with Window Size: (280, 300) (at sampling 2)... Refinement failed. Retry #72 with Window Size: (256, 288) (at sampling 2)... Refinement failed. Retry #73 with Window Size: (252, 280) (at sampling 2)... Refinement failed. Retry #74 with Window Size: (240, 256) (at sampling 2)... Refinement failed. Retry #75 with Window Size: (224, 252) (at sampling 2)... Refinement failed. Retry #76 with Window Size: (216, 240) (at sampling 2)... Refinement failed. Retry #77 with Window Size: (200, 224) (at sampling 2)... Refinement failed. Retry #78 with Window Size: (196, 216) (at sampling 2)... Refinement failed. Retry #79 with Window Size: (192, 200) (at sampling 2)... Refinement failed. Retry #80 with Window Size: (180, 196) (at sampling 2)... Refinement failed. Retry #81 with Window Size: (168, 192) (at sampling 2)... Refinement failed. Retry #82 with Window Size: (160, 180) (at sampling 2)... Refinement failed. Retry #83 with Window Size: (144, 168) (at sampling 2)... Refinement failed. Retry #84 with Window Size: (140, 160) (at sampling 2)... Refinement failed. Retry #85 with Window Size: (128, 144) (at sampling 2)... Refinement failed. Retry #86 with Window Size: (120, 140) (at sampling 2)... Refinement failed. Retry #87 with Window Size: (112, 128) (at sampling 2)... Refinement failed. Retry #88 with Window Size: (108, 120) (at sampling 2)... Refinement failed. Retry #89 with Window Size: (100, 112) (at sampling 2)... Refinement failed. Retry #90 with Window Size: (96, 108) (at sampling 2)... Refinement failed. Retry #91 with Window Size: (84, 100) (at sampling 2)... Refinement failed. Retry #92 with Window Size: (80, 96) (at sampling 2)... Refinement failed. Retry #93 with Window Size: (72, 84) (at sampling 2)... Refinement failed. Retry #94 with Window Size: (64, 80) (at sampling 2)... Refinement failed. Retry #95 with Window Size: (60, 72) (at sampling 2)... Refinement failed. Retry #96 with Window Size: (56, 64) (at sampling 2)... Refinement failed. Retry #97 with Window Size: (48, 60) (at sampling 2)... Refinement failed. Retry #98 with Window Size: (40, 56) (at sampling 2)... Refinement failed. Retry #99 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #100 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #101 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #102 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #103 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #104 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #105 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #106 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #107 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #108 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #109 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #110 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #111 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #112 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #113 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #114 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #115 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #116 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #117 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #118 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #119 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #120 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #121 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #122 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #123 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #124 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #125 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #126 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #127 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #128 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #129 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #130 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #131 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #132 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #133 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #134 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #135 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #136 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #137 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #138 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #139 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #140 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #141 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #142 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #143 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #144 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #145 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #146 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #147 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #148 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #149 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #150 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #151 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #152 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #153 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #154 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #155 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #156 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #157 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #158 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #159 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #160 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #161 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #162 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #163 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #164 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #165 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #166 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #167 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #168 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #169 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #170 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #171 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #172 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #173 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #174 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #175 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #176 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #177 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #178 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #179 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #180 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #181 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #182 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #183 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #184 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #185 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #186 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #187 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #188 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #189 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #190 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #191 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #192 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #193 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #194 with Window Size: (56, 56) (at sampling 2)... Refinement failed. Retry #195 with Window Size: (48, 48) (at sampling 2)... Refinement failed. Retry #196 with Window Size: (40, 40) (at sampling 2)... Refinement failed. Retry #197 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #198 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #199 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #200 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #201 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #202 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #203 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #204 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #205 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #206 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #207 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #208 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #209 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #210 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #211 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #212 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #213 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #214 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #215 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #216 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #217 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #218 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #219 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #220 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #221 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #222 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #223 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #224 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #225 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #226 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #227 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #228 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #229 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #230 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #231 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #232 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #233 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #234 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #235 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #236 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #237 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #238 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #239 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #240 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #241 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #242 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #243 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #244 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #245 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #246 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #247 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #248 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #249 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #250 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #251 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #252 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #253 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #254 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #255 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #256 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #257 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #258 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #259 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #260 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #261 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #262 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #263 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #264 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #265 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #266 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #267 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #268 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #269 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #270 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #271 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #272 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #273 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #274 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #275 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #276 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #277 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #278 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #279 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #280 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #281 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #282 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #283 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #284 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #285 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #286 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #287 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #288 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #289 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #290 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #291 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #292 with Window Size: (56, 56) (at sampling 2)... Refinement failed. Retry #293 with Window Size: (48, 48) (at sampling 2)... Refinement failed. Retry #294 with Window Size: (40, 40) (at sampling 2)... Refinement failed. Retry #295 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #296 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #297 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #298 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #299 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #300 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #301 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #302 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #303 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #304 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #305 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #306 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #307 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #308 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #309 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #310 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #311 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #312 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #313 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #314 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #315 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #316 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #317 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #318 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #319 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #320 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #321 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #322 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #323 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #324 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #325 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #326 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #327 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #328 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #329 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #330 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #331 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #332 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #333 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #334 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #335 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #336 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #337 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #338 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #339 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #340 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #341 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #342 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #343 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #344 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #345 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #346 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #347 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #348 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #349 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #350 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #351 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #352 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #353 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #354 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #355 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #356 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #357 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #358 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #359 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #360 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #361 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #362 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #363 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #364 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #365 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #366 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #367 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #368 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #369 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #370 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #371 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #372 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #373 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #374 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #375 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #376 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #377 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #378 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #379 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #380 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #381 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #382 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #383 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #384 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #385 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #386 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #387 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #388 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #389 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #390 with Window Size: (56, 56) (at sampling 2)... Refinement failed. Retry #391 with Window Size: (48, 48) (at sampling 2)... Refinement failed. Retry #392 with Window Size: (40, 40) (at sampling 2)... Refinement failed. Retry #393 with Window Size: (2100, 2100) (at sampling 2)... Refinement failed. Retry #394 with Window Size: (2048, 2048) (at sampling 2)... Refinement failed. Retry #395 with Window Size: (2016, 2016) (at sampling 2)... Refinement failed. Retry #396 with Window Size: (2000, 2000) (at sampling 2)... Refinement failed. Retry #397 with Window Size: (1960, 1960) (at sampling 2)... Refinement failed. Retry #398 with Window Size: (1944, 1944) (at sampling 2)... Refinement failed. Retry #399 with Window Size: (1920, 1920) (at sampling 2)... Refinement failed. Retry #400 with Window Size: (1800, 1800) (at sampling 2)... Refinement failed. Retry #401 with Window Size: (1792, 1792) (at sampling 2)... Refinement failed. Retry #402 with Window Size: (1764, 1764) (at sampling 2)... Refinement failed. Retry #403 with Window Size: (1728, 1728) (at sampling 2)... Refinement failed. Retry #404 with Window Size: (1680, 1680) (at sampling 2)... Refinement failed. Retry #405 with Window Size: (1620, 1620) (at sampling 2)... Refinement failed. Retry #406 with Window Size: (1600, 1600) (at sampling 2)... Refinement failed. Retry #407 with Window Size: (1568, 1568) (at sampling 2)... Refinement failed. Retry #408 with Window Size: (1536, 1536) (at sampling 2)... Refinement failed. Retry #409 with Window Size: (1512, 1512) (at sampling 2)... Refinement failed. Retry #410 with Window Size: (1500, 1500) (at sampling 2)... Refinement failed. Retry #411 with Window Size: (1440, 1440) (at sampling 2)... Refinement failed. Retry #412 with Window Size: (1400, 1400) (at sampling 2)... Refinement failed. Retry #413 with Window Size: (1372, 1372) (at sampling 2)... Refinement failed. Retry #414 with Window Size: (1344, 1344) (at sampling 2)... Refinement failed. Retry #415 with Window Size: (1296, 1296) (at sampling 2)... Refinement failed. Retry #416 with Window Size: (1280, 1280) (at sampling 2)... Refinement failed. Retry #417 with Window Size: (1260, 1260) (at sampling 2)... Refinement failed. Retry #418 with Window Size: (1200, 1200) (at sampling 2)... Refinement failed. Retry #419 with Window Size: (1176, 1176) (at sampling 2)... Refinement failed. Retry #420 with Window Size: (1152, 1152) (at sampling 2)... Refinement failed. Retry #421 with Window Size: (1120, 1120) (at sampling 2)... Refinement failed. Retry #422 with Window Size: (1080, 1080) (at sampling 2)... Refinement failed. Retry #423 with Window Size: (1024, 1024) (at sampling 2)... Refinement failed. Retry #424 with Window Size: (1008, 1008) (at sampling 2)... Refinement failed. Retry #425 with Window Size: (1000, 1000) (at sampling 2)... Refinement failed. Retry #426 with Window Size: (980, 980) (at sampling 2)... Refinement failed. Retry #427 with Window Size: (972, 972) (at sampling 2)... Refinement failed. Retry #428 with Window Size: (960, 960) (at sampling 2)... Refinement failed. Retry #429 with Window Size: (900, 900) (at sampling 2)... Refinement failed. Retry #430 with Window Size: (896, 896) (at sampling 2)... Refinement failed. Retry #431 with Window Size: (864, 864) (at sampling 2)... Refinement failed. Retry #432 with Window Size: (840, 840) (at sampling 2)... Refinement failed. Retry #433 with Window Size: (800, 800) (at sampling 2)... Refinement failed. Retry #434 with Window Size: (784, 784) (at sampling 2)... Refinement failed. Retry #435 with Window Size: (768, 768) (at sampling 2)... Refinement failed. Retry #436 with Window Size: (756, 756) (at sampling 2)... Refinement failed. Retry #437 with Window Size: (720, 720) (at sampling 2)... Refinement failed. Retry #438 with Window Size: (700, 700) (at sampling 2)... Refinement failed. Retry #439 with Window Size: (672, 672) (at sampling 2)... Refinement failed. Retry #440 with Window Size: (648, 648) (at sampling 2)... Refinement failed. Retry #441 with Window Size: (640, 640) (at sampling 2)... Refinement failed. Retry #442 with Window Size: (600, 600) (at sampling 2)... Refinement failed. Retry #443 with Window Size: (588, 588) (at sampling 2)... Refinement failed. Retry #444 with Window Size: (576, 576) (at sampling 2)... Refinement failed. Retry #445 with Window Size: (560, 560) (at sampling 2)... Refinement failed. Retry #446 with Window Size: (540, 540) (at sampling 2)... Refinement failed. Retry #447 with Window Size: (512, 512) (at sampling 2)... Refinement failed. Retry #448 with Window Size: (504, 504) (at sampling 2)... Refinement failed. Retry #449 with Window Size: (500, 500) (at sampling 2)... Refinement failed. Retry #450 with Window Size: (480, 480) (at sampling 2)... Refinement failed. Retry #451 with Window Size: (448, 448) (at sampling 2)... Refinement failed. Retry #452 with Window Size: (432, 432) (at sampling 2)... Refinement failed. Retry #453 with Window Size: (420, 420) (at sampling 2)... Refinement failed. Retry #454 with Window Size: (400, 400) (at sampling 2)... Refinement failed. Retry #455 with Window Size: (392, 392) (at sampling 2)... Refinement failed. Retry #456 with Window Size: (384, 384) (at sampling 2)... Refinement failed. Retry #457 with Window Size: (360, 360) (at sampling 2)... Refinement failed. Retry #458 with Window Size: (336, 336) (at sampling 2)... Refinement failed. Retry #459 with Window Size: (324, 324) (at sampling 2)... Refinement failed. Retry #460 with Window Size: (320, 320) (at sampling 2)... Refinement failed. Retry #461 with Window Size: (300, 300) (at sampling 2)... Refinement failed. Retry #462 with Window Size: (288, 288) (at sampling 2)... Refinement failed. Retry #463 with Window Size: (280, 280) (at sampling 2)... Refinement failed. Retry #464 with Window Size: (256, 256) (at sampling 2)... Refinement failed. Retry #465 with Window Size: (252, 252) (at sampling 2)... Refinement failed. Retry #466 with Window Size: (240, 240) (at sampling 2)... Refinement failed. Retry #467 with Window Size: (224, 224) (at sampling 2)... Refinement failed. Retry #468 with Window Size: (216, 216) (at sampling 2)... Refinement failed. Retry #469 with Window Size: (200, 200) (at sampling 2)... Refinement failed. Retry #470 with Window Size: (196, 196) (at sampling 2)... Refinement failed. Retry #471 with Window Size: (192, 192) (at sampling 2)... Refinement failed. Retry #472 with Window Size: (180, 180) (at sampling 2)... Refinement failed. Retry #473 with Window Size: (168, 168) (at sampling 2)... Refinement failed. Retry #474 with Window Size: (160, 160) (at sampling 2)... Refinement failed. Retry #475 with Window Size: (144, 144) (at sampling 2)... Refinement failed. Retry #476 with Window Size: (140, 140) (at sampling 2)... Refinement failed. Retry #477 with Window Size: (128, 128) (at sampling 2)... Refinement failed. Retry #478 with Window Size: (120, 120) (at sampling 2)... Refinement failed. Retry #479 with Window Size: (112, 112) (at sampling 2)... Refinement failed. Retry #480 with Window Size: (108, 108) (at sampling 2)... Refinement failed. Retry #481 with Window Size: (100, 100) (at sampling 2)... Refinement failed. Retry #482 with Window Size: (96, 96) (at sampling 2)... Refinement failed. Retry #483 with Window Size: (84, 84) (at sampling 2)... Refinement failed. Retry #484 with Window Size: (80, 80) (at sampling 2)... Refinement failed. Retry #485 with Window Size: (72, 72) (at sampling 2)... Refinement failed. Retry #486 with Window Size: (64, 64) (at sampling 2)... Refinement failed. Retry #487 with Window Size: (60, 60) (at sampling 2)... Refinement failed. Retry #488 with Window Size: (56, 56) (at sampling 2)... Refinement failed. Retry #489 with Window Size: (48, 48) (at sampling 2)... Refinement failed. Retry #490 with Window Size: (40, 40) (at sampling 2)... Refinement Iteration #51 for Tilt-Series #8 failed after resampling the search area 490 time(s). Window Size (x) was windowed down to 40 Window Size (y) was windowed down to 40 Put values less than these into the corresponding parameter boxes on the Protomo Refinement Appion webpage and try again. Did everything blow up and now you're yelling at your computer screen? If so, kindly email Alex at anoble@nysbc.org and include this log file .If everything worked beautifully and you publish it, please use the appropriate citations listed on the Appion webpage! End time: 2016yr09m29d-02hr02m07s