Need regular tracking - Need autofocus Trimming A by 140 21 95 20, reference by 135 20 100 20 Tracking image shifted 0.028, 0.005 um; position 0.149, 0.046 Trimming A by 38 18 18 18, reference by 38 18 28 18 Drift reached 0.5 A/sec after 6.7 sec, going on Measured defocus = -5.38 microns changed by 0.38 to target drift = 0.02 nm/sec Measured defocus = -5.12 microns changed by 0.12 to target drift = 0.03 nm/sec Disparity in stage position after aligning to center of map frame: 1.44 0.46 Disparity in stage position after aligning to target position: 1.92 0.40 (2nd move error 0.11 0.06) Finished aligning to item in 2 rounds Dewars are NOT busy filling Refrigerant level in dewar 1 is 24.438 Refrigerant level in dewar 2 is 54.252 Opened new file X:\Luke_20191213\s1.st STARTING TILT SERIES WITH AUTOMATIC TERMINATION AFTER ERRORS. Trimming A by 125 130, reference by 130 130 Trimming A by 120 120, reference by 125 130 Trimming A by 120 120, reference by 120 120 Measured defocus = -5.01 microns changed by 0.01 to target drift = 0.13 nm/sec Need regular tracking - Need autofocus Trimming A by 53 18 28 18, reference by 68 18 18 18 Drift reached 0.1 A/sec after 6.6 sec, going on Measured defocus = -4.84 microns changed by -0.16 to target drift = 0.04 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00000_-11.0.tif Frame alignment results: distance raw = 2.9 smoothed = 2.9 Residual mean = 0.05 max max = 0.07 Record image shifted -0.003, -0.002 um Tracking reference shifted by 6.3,4.6 pixels, -0.003,-0.002 um Saved Z = 0 at 0.00 min Tilt = -11.00 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.003 0.002 -1.093 Need regular tracking - Need autofocus Trimming A by 130 130, reference by 130 135 Tracking image shifted 0.002, 0.025 um; position 0.001, -0.023 Trimming A by 65 18 23 18, reference by 66 18 18 18 Drift reached 1.1 A/sec after 6.5 sec, going on Measured defocus = -4.89 microns changed by -0.11 to target drift = 0.05 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00001_-9.0.tif Frame alignment results: distance raw = 1.9 smoothed = 1.7 Residual mean = 0.03 max max = 0.04 Record image shifted -0.000, 0.003 um Tracking reference shifted by 0.8,-5.2 pixels, -0.000,0.003 um Saved Z = 1 at 0.58 min Tilt = -9.02 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.002 -0.027 -1.198 Need regular tracking - Need autofocus Trimming A by 125 130, reference by 130 135 Tracking image shifted 0.004, 0.069 um; position -0.000, -0.067 Trimming A by 68 18 33 18, reference by 58 18 43 18 Drift reached 0.5 A/sec after 6.6 sec, going on Measured defocus = -4.97 microns changed by -0.03 to target drift = 0.01 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00002_-13.0.tif Frame alignment results: distance raw = 1.7 smoothed = 1.3 Residual mean = 0.04 max max = 0.06 Record image shifted 0.001, -0.003 um Tracking reference shifted by -1.1,5.3 pixels, 0.001,-0.003 um Saved Z = 2 at 1.12 min Tilt = -13.02 Mean = 23 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.001 -0.065 -1.126 Predicted X = 0.000 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Y = -0.056 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Z = -1.305 StdErr = 0.000 nFit = 2 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 130 135, reference by 130 130 Tracking image shifted -0.017, -0.041 um; position 0.017, -0.014 Trimming A by 68 18 18 18, reference by 68 18 18 18 Drift reached 0.8 A/sec after 6.6 sec, going on Measured defocus = -5.04 microns changed by 0.04 to target drift = 0.04 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00003_-7.0.tif Frame alignment results: distance raw = 1.0 smoothed = 0.8 Residual mean = 0.03 max max = 0.04 Record image shifted -0.000, -0.001 um Tracking reference shifted by 0.8,1.0 pixels, -0.000,-0.001 um Saved Z = 3 at 1.65 min Tilt = -7.02 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.017 -0.014 -1.264 Errors in X/Y Prediction 0.017 0.041 um, 1.6 3.9 % Error in Z Prediction 0.041 Need regular tracking - Need autofocus Trimming A by 130 130, reference by 125 130 Tracking image shifted -0.000, 0.017 um; position -0.001, -0.081 Trimming A by 68 18 23 18, reference by 58 18 28 18 Drift reached 0.5 A/sec after 6.7 sec, going on Measured defocus = -4.95 microns changed by -0.05 to target drift = 0.02 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00004_-15.0.tif Frame alignment results: distance raw = 0.9 smoothed = 0.8 Residual mean = 0.01 max max = 0.02 Record image shifted 0.000, -0.003 um Tracking reference shifted by -0.4,6.3 pixels, 0.000,-0.003 um Saved Z = 4 at 2.21 min Tilt = -15.02 Mean = 23 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.002 -0.078 -1.176 Predicted X = 0.021 StdErr = 0.012 nFit = 3 nDrop = 0 Predicted Y = -0.029 StdErr = 0.031 nFit = 3 nDrop = 0 Predicted Z = -1.357 StdErr = 0.030 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 130, reference by 130 135 Tracking image shifted -0.002, 0.013 um; position 0.022, -0.043 Trimming A by 58 18 23 18, reference by 58 18 33 18 Drift reached 0.9 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00005_-5.0.tif Frame alignment results: distance raw = 0.9 smoothed = 0.5 Residual mean = 0.02 max max = 0.03 Record image shifted 0.000, 0.003 um Tracking reference shifted by -1.0,-5.0 pixels, 0.000,0.003 um Saved Z = 5 at 2.64 min Tilt = -5.02 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.022 -0.046 -1.357 Errors in X/Y Prediction 0.001 -0.016 um, 0.1 1.6 % Predicted X = -0.003 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Y = -0.092 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Z = -1.227 StdErr = 0.000 nFit = 2 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 20 20, reference by 130 130 Tracking image shifted -0.004, -0.012 um; position 0.001, -0.080 Trimming A by 81 18 18 18, reference by 62 18 38 18 Drift reached 0.5 A/sec after 6.8 sec, going on Measured defocus = -5.06 microns changed by 0.06 to target drift = 0.06 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00006_-17.0.tif Frame alignment results: distance raw = 1.0 smoothed = 0.9 Residual mean = 0.01 max max = 0.02 Record image shifted 0.000, -0.002 um Tracking reference shifted by 0.1,4.7 pixels, 0.000,-0.002 um Saved Z = 6 at 3.22 min Tilt = -17.02 Mean = 22 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.001 -0.077 -1.168 Errors in X/Y Prediction 0.003 0.014 um, 0.3 1.4 % Error in Z Prediction 0.058 Predicted X = 0.034 StdErr = 0.007 nFit = 3 nDrop = 0 Predicted Y = -0.048 StdErr = 0.033 nFit = 3 nDrop = 0 Predicted Z = -1.443 StdErr = 0.040 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 130 135, reference by 125 130 Tracking image shifted 0.007, 0.000 um; position 0.027, -0.048 Trimming A by 58 18 43 18, reference by 71 18 18 18 Drift reached 0.2 A/sec after 6.6 sec, going on Measured defocus = -5.09 microns changed by 0.09 to target drift = 0.01 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00007_-3.0.tif Frame alignment results: distance raw = 0.8 smoothed = 0.3 Residual mean = 0.02 max max = 0.03 Record image shifted -0.000, 0.001 um Tracking reference shifted by 0.1,-1.8 pixels, -0.000,0.001 um Saved Z = 7 at 3.76 min Tilt = -3.02 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.027 -0.049 -1.353 Errors in X/Y Prediction -0.007 -0.001 um, 0.7 0.1 % Error in Z Prediction 0.090 Predicted X = 0.001 StdErr = 0.002 nFit = 3 nDrop = 0 Predicted Y = -0.086 StdErr = 0.011 nFit = 3 nDrop = 0 Predicted Z = -1.200 StdErr = 0.044 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 135 135, reference by 135 135 Tracking image shifted 0.001, -0.059 um; position -0.000, -0.027 Trimming A by 68 18 38 18, reference by 68 18 38 18 Drift reached 0.8 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00008_-19.0.tif Frame alignment results: distance raw = 0.8 smoothed = 0.7 Residual mean = 0.03 max max = 0.05 Record image shifted -0.001, -0.003 um Tracking reference shifted by 1.2,5.6 pixels, -0.001,-0.003 um Saved Z = 8 at 4.25 min Tilt = -19.01 Mean = 22 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.000 -0.024 -1.200 Errors in X/Y Prediction -0.002 0.063 um, 0.1 6.0 % Predicted X = 0.032 StdErr = 0.000 nFit = 3 nDrop = 0 Predicted Y = -0.071 StdErr = 0.021 nFit = 3 nDrop = 0 Predicted Z = -1.407 StdErr = 0.019 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 130 135, reference by 130 135 Tracking image shifted 0.003, -0.028 um; position 0.029, -0.044 Trimming A by 58 18 43 18, reference by 66 18 18 18 Drift reached 0.2 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00009_-1.0.tif Frame alignment results: distance raw = 0.7 smoothed = 0.6 Residual mean = 0.02 max max = 0.03 Record image shifted -0.000, 0.001 um Tracking reference shifted by 0.4,-2.5 pixels, -0.000,0.001 um Saved Z = 9 at 4.70 min Tilt = -1.02 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.029 -0.045 -1.407 Errors in X/Y Prediction -0.003 0.026 um, 0.3 2.5 % Predicted X = 0.001 StdErr = 0.003 nFit = 3 nDrop = 0 Predicted Y = -0.005 StdErr = 0.039 nFit = 3 nDrop = 0 Predicted Z = -1.221 StdErr = 0.058 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 135 135, reference by 135 135 Tracking image shifted 0.002, 0.024 um; position -0.001, -0.030 Trimming A by 68 18 38 18, reference by 67 18 38 18 Drift reached 0.6 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00010_-21.0.tif Frame alignment results: distance raw = 1.0 smoothed = 0.8 Residual mean = 0.03 max max = 0.05 Record image shifted 0.000, 0.000 um Tracking reference shifted by -0.5,-0.1 pixels, 0.000,0.000 um Saved Z = 10 at 5.18 min Tilt = -21.01 Mean = 21 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.001 -0.030 -1.221 Errors in X/Y Prediction -0.002 -0.025 um, 0.2 2.3 % Predicted X = 0.033 StdErr = 0.002 nFit = 3 nDrop = 0 Predicted Y = -0.046 StdErr = 0.006 nFit = 3 nDrop = 0 Predicted Z = -1.458 StdErr = 0.023 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 150 22 95 20, reference by 145 21 105 20 Tracking image shifted 0.003, -0.090 um; position 0.030, 0.044 Trimming A by 66 18 18 18, reference by 61 18 18 18 Drift reached 0.2 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00011_1.0.tif Frame alignment results: distance raw = 0.8 smoothed = 0.7 Residual mean = 0.01 max max = 0.01 Record image shifted -0.001, 0.002 um Tracking reference shifted by 1.1,-3.2 pixels, -0.001,0.002 um Saved Z = 11 at 5.64 min Tilt = 0.98 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.030 0.042 -1.458 Errors in X/Y Prediction -0.003 0.088 um, 0.2 8.4 % Predicted X = -0.002 StdErr = 0.000 nFit = 3 nDrop = 0 Predicted Y = 0.004 StdErr = 0.045 nFit = 3 nDrop = 0 Predicted Z = -1.242 StdErr = 0.073 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 130 130, reference by 130 130 Tracking image shifted -0.011, 0.036 um; position 0.009, -0.032 Trimming A by 73 18 38 28, reference by 78 18 28 18 Drift reached 1.0 A/sec after 6.6 sec, going on Using peak at 8.8,-16.4, rejecting 1.01 times higher peak at -0.0,-0.0 Measured defocus = -5.04 microns changed by 0.04 to target drift = 0.06 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00012_-23.0.tif Frame alignment results: distance raw = 1.1 smoothed = 0.8 Residual mean = 0.04 max max = 0.07 Record image shifted -0.000, -0.004 um Tracking reference shifted by 0.3,7.4 pixels, -0.000,-0.004 um Saved Z = 12 at 6.22 min Tilt = -23.02 Mean = 21 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.008 -0.028 -1.202 Errors in X/Y Prediction 0.011 -0.031 um, 1.0 3.0 % Error in Z Prediction 0.040 Predicted X = 0.032 StdErr = 0.001 nFit = 3 nDrop = 0 Predicted Y = 0.156 StdErr = 0.050 nFit = 4 nDrop = 0 Predicted Z = -1.509 StdErr = 0.028 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 115 115, reference by 135 135 Tracking image shifted -0.063, -0.030 um; position 0.095, 0.186 Trimming A by 48 18 28 18, reference by 58 18 28 18 Drift reached 0.2 A/sec after 6.6 sec, going on Measured defocus = -5.22 microns changed by 0.22 to target drift = 0.03 nm/sec Measured defocus = -5.13 microns changed by 0.13 to target drift = 0.02 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00013_3.0.tif Frame alignment results: distance raw = 0.8 smoothed = 0.7 Residual mean = 0.03 max max = 0.04 Record image shifted 0.049, 0.226 um Tracking reference shifted by -106.7,-438.0 pixels, 0.049,0.226 um Getting a new tracking reference after Record to reduce reference conflicts Saved Z = 13 at 6.87 min Tilt = 2.99 Mean = 26 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.047 -0.040 -1.155 Errors in X/Y Prediction 0.015 -0.197 um, 1.4 18.7 % Error in Z Prediction 0.353 Predicted X = 0.011 StdErr = 0.008 nFit = 3 nDrop = 0 Predicted Y = -0.031 StdErr = 0.007 nFit = 3 nDrop = 0 Predicted Z = -1.208 StdErr = 0.018 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 125 130 Tracking image shifted 0.009, -0.057 um; position 0.002, 0.026 Trimming A by 78 18 23 18, reference by 65 18 23 18 Drift reached 1.5 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00014_-25.0.tif Frame alignment results: distance raw = 1.0 smoothed = 0.9 Residual mean = 0.02 max max = 0.04 Record image shifted -0.001, -0.002 um Tracking reference shifted by 1.1,4.8 pixels, -0.001,-0.002 um Saved Z = 14 at 7.44 min Tilt = -25.02 Mean = 20 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.001 0.029 -1.208 Errors in X/Y Prediction -0.010 0.060 um, 0.9 5.7 % Predicted X = 0.053 StdErr = 0.011 nFit = 3 nDrop = 0 Predicted Y = -0.034 StdErr = 0.115 nFit = 5 nDrop = 0 Predicted Z = -1.165 StdErr = 0.167 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 135 135, reference by 130 130 Tracking image shifted 0.007, -0.048 um; position 0.044, 0.009 Trimming A by 58 18 38 18, reference by 60 18 23 18 Drift reached 0.3 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00015_5.0.tif Frame alignment results: distance raw = 1.2 smoothed = 0.8 Residual mean = 0.03 max max = 0.04 Record image shifted -0.001, 0.000 um Tracking reference shifted by 1.6,-0.6 pixels, -0.001,0.000 um Saved Z = 15 at 7.91 min Tilt = 4.99 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.045 0.009 -1.165 Errors in X/Y Prediction -0.008 0.043 um, 0.8 4.1 % Predicted X = 0.006 StdErr = 0.012 nFit = 3 nDrop = 0 Predicted Y = 0.106 StdErr = 0.030 nFit = 4 nDrop = 0 Predicted Z = -1.215 StdErr = 0.021 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 130, reference by 20 20 Tracking image shifted 0.005, 0.069 um; position 0.001, 0.037 Trimming A by 48 18 23 18, reference by 68 18 38 18 Drift reached 1.3 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00016_-27.0.tif Frame alignment results: distance raw = 1.1 smoothed = 1.0 Residual mean = 0.03 max max = 0.05 Record image shifted 0.000, -0.001 um Tracking reference shifted by -0.2,1.4 pixels, 0.000,-0.001 um Saved Z = 16 at 8.41 min Tilt = -27.01 Mean = 20 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.000 0.038 -1.215 Errors in X/Y Prediction -0.005 -0.067 um, 0.5 6.4 % Predicted X = 0.055 StdErr = 0.014 nFit = 3 nDrop = 0 Predicted Y = -0.021 StdErr = 0.114 nFit = 5 nDrop = 0 Predicted Z = -1.140 StdErr = 0.188 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 135 135 Tracking image shifted 0.010, -0.073 um; position 0.046, 0.052 Trimming A by 55 18 23 18, reference by 60 18 23 18 Drift reached 0.2 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00017_7.0.tif Frame alignment results: distance raw = 0.7 smoothed = 0.7 Residual mean = 0.02 max max = 0.03 Record image shifted -0.000, 0.002 um Tracking reference shifted by 0.8,-3.7 pixels, -0.000,0.002 um Saved Z = 17 at 8.88 min Tilt = 6.99 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.046 0.050 -1.140 Errors in X/Y Prediction -0.009 0.071 um, 0.9 6.7 % Predicted X = -0.005 StdErr = 0.004 nFit = 3 nDrop = 0 Predicted Y = 0.095 StdErr = 0.042 nFit = 5 nDrop = 0 Predicted Z = -1.223 StdErr = 0.024 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 125 125, reference by 125 130 Tracking image shifted 0.004, 0.069 um; position -0.009, 0.026 Trimming A by 38 18 33 18, reference by 38 18 28 18 Drift reached 1.2 A/sec after 6.7 sec, going on Using peak at 8.7,-16.4, rejecting 1.43 times higher peak at -0.0,-0.0 Using peak at -9.9,16.7, rejecting 1.35 times higher peak at 0.0,0.0 Measured defocus = -5.17 microns changed by 0.17 to target drift = 0.10 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00018_-29.0.tif Frame alignment results: distance raw = 0.9 smoothed = 0.7 Residual mean = 0.05 max max = 0.09 Record image shifted 0.000, -0.001 um Tracking reference shifted by -0.1,1.0 pixels, 0.000,-0.001 um Saved Z = 18 at 9.48 min Tilt = -29.02 Mean = 19 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.010 0.026 -1.056 Errors in X/Y Prediction -0.005 -0.069 um, 0.5 6.6 % Error in Z Prediction 0.167 Predicted X = 0.045 StdErr = 0.003 nFit = 3 nDrop = 0 Predicted Y = 0.070 StdErr = 0.123 nFit = 5 nDrop = 0 Predicted Z = -1.115 StdErr = 0.212 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 130 130, reference by 135 135 Tracking image shifted 0.001, -0.007 um; position 0.045, 0.077 Trimming A by 68 18 18 18, reference by 68 18 18 18 Drift reached 0.9 A/sec after 6.6 sec, going on Measured defocus = -5.03 microns changed by 0.03 to target drift = 0.06 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00019_9.0.tif Frame alignment results: distance raw = 1.2 smoothed = 1.1 Residual mean = 0.02 max max = 0.04 Record image shifted -0.001, 0.004 um Tracking reference shifted by 0.8,-7.2 pixels, -0.001,0.004 um Saved Z = 19 at 10.07 min Tilt = 8.98 Mean = 26 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.046 0.073 -1.089 Errors in X/Y Prediction 0.001 0.003 um, 0.1 0.3 % Error in Z Prediction 0.026 Predicted X = -0.014 StdErr = 0.006 nFit = 3 nDrop = 0 Predicted Y = 0.022 StdErr = 0.048 nFit = 5 nDrop = 0 Predicted Z = -1.068 StdErr = 0.110 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 130 130, reference by 125 125 Tracking image shifted -0.006, -0.005 um; position -0.008, 0.027 Trimming A by 28 18 28 18, reference by 28 18 18 18 Drift reached 1.0 A/sec after 6.8 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00020_-31.0.tif Frame alignment results: distance raw = 1.2 smoothed = 0.9 Residual mean = 0.06 max max = 0.09 Record image shifted -0.001, -0.004 um Tracking reference shifted by 2.3,8.5 pixels, -0.001,-0.004 um Saved Z = 20 at 10.58 min Tilt = -31.02 Mean = 18 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.007 0.031 -1.068 Errors in X/Y Prediction 0.007 0.009 um, 0.7 0.9 % Predicted X = 0.047 StdErr = 0.001 nFit = 3 nDrop = 0 Predicted Y = 0.174 StdErr = 0.083 nFit = 5 nDrop = 0 Predicted Z = -1.023 StdErr = 0.080 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 130 130 Tracking image shifted -0.003, 0.074 um; position 0.049, 0.100 Trimming A by 58 18 43 18, reference by 68 18 18 18 Drift reached 0.4 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00021_11.0.tif Frame alignment results: distance raw = 0.9 smoothed = 0.9 Residual mean = 0.03 max max = 0.04 Record image shifted 0.001, 0.004 um Tracking reference shifted by -2.1,-7.8 pixels, 0.001,0.004 um Saved Z = 21 at 11.06 min Tilt = 10.99 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.049 0.095 -1.023 Errors in X/Y Prediction 0.002 -0.079 um, 0.2 7.5 % Predicted X = -0.013 StdErr = 0.009 nFit = 3 nDrop = 0 Predicted Y = -0.008 StdErr = 0.035 nFit = 5 nDrop = 0 Predicted Z = -1.049 StdErr = 0.121 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 125 125 Tracking image shifted -0.003, -0.019 um; position -0.010, 0.011 Trimming A by 18 18 18 18, reference by 21 18 18 18 Drift reached 1.3 A/sec after 6.5 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00022_-33.0.tif Frame alignment results: distance raw = 1.3 smoothed = 1.1 Residual mean = 0.06 max max = 0.09 Record image shifted 0.000, -0.006 um Tracking reference shifted by 0.2,12.3 pixels, 0.000,-0.006 um Saved Z = 22 at 11.58 min Tilt = -33.02 Mean = 18 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.011 0.018 -1.049 Errors in X/Y Prediction 0.002 0.026 um, 0.2 2.5 % Predicted X = 0.051 StdErr = 0.003 nFit = 4 nDrop = 0 Predicted Y = 0.102 StdErr = 0.007 nFit = 5 nDrop = 1 Predicted Z = -0.979 StdErr = 0.088 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 125 125 Tracking image shifted 0.003, -0.121 um; position 0.048, 0.223 Trimming A by 58 18 33 18, reference by 58 18 28 18 Drift reached 2.4 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00023_13.0.tif Frame alignment results: distance raw = 1.5 smoothed = 1.3 Residual mean = 0.04 max max = 0.06 Record image shifted -0.002, 0.002 um Tracking reference shifted by 3.7,-4.8 pixels, -0.002,0.002 um Saved Z = 23 at 12.07 min Tilt = 12.98 Mean = 26 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.051 0.219 -0.979 Errors in X/Y Prediction -0.000 0.117 um, 0.0 11.1 % Predicted X = -0.006 StdErr = 0.012 nFit = 4 nDrop = 0 Predicted Y = 0.006 StdErr = 0.015 nFit = 5 nDrop = 1 Predicted Z = -1.030 StdErr = 0.134 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 120 120 Tracking image shifted 0.017, -0.026 um; position -0.023, 0.032 Trimming A by 23 18 18 18, reference by 26 18 18 18 Drift reached 1.6 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00024_-35.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.4 Residual mean = 0.04 max max = 0.06 Record image shifted -0.000, -0.000 um Tracking reference shifted by 0.1,0.5 pixels, -0.000,-0.000 um Saved Z = 24 at 12.59 min Tilt = -35.01 Mean = 17 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.024 0.033 -1.030 Errors in X/Y Prediction -0.017 0.027 um, 1.7 2.6 % Predicted X = 0.054 StdErr = 0.002 nFit = 4 nDrop = 0 Predicted Y = 0.275 StdErr = 0.059 nFit = 6 nDrop = 0 Predicted Z = -0.934 StdErr = 0.098 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 130, reference by 135 135 Tracking image shifted -0.033, -0.110 um; position 0.087, 0.385 Trimming A by 58 18 18 18, reference by 48 18 38 18 Drift reached 2.0 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00025_15.0.tif Frame alignment results: distance raw = 1.2 smoothed = 1.1 Residual mean = 0.04 max max = 0.06 Record image shifted 0.032, 0.164 um Tracking reference shifted by -71.0,-317.7 pixels, 0.032,0.164 um Getting a new tracking reference after Record to reduce reference conflicts Saved Z = 25 at 13.08 min Tilt = 14.98 Mean = 26 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.056 0.219 -0.934 Errors in X/Y Prediction 0.002 -0.055 um, 0.2 5.3 % Predicted X = -0.043 StdErr = 0.002 nFit = 4 nDrop = 0 Predicted Y = 0.042 StdErr = 0.018 nFit = 5 nDrop = 0 Predicted Z = -1.011 StdErr = 0.148 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 55 55, reference by 120 120 Tracking image shifted -0.021, -0.014 um; position -0.022, 0.057 Drift reached 1.9 A/sec after 6.5 sec, going on Using peak at 8.9,-17.6, rejecting 3.14 times higher peak at -0.0,0.0 Using peak at -10.1,16.4, rejecting 3.47 times higher peak at -0.0,0.0 Measured defocus = -5.29 microns changed by 0.29 to target drift = 0.14 nm/sec Using peak at 8.6,-16.6, rejecting 3.38 times higher peak at -0.0,0.0 Using peak at -9.8,15.7, rejecting 3.41 times higher peak at -0.0,-0.0 Measured defocus = -5.06 microns changed by 0.06 to target drift = 0.12 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00026_-37.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.2 Residual mean = 0.03 max max = 0.04 Record image shifted 0.001, -0.003 um Tracking reference shifted by -1.8,5.8 pixels, 0.001,-0.003 um Saved Z = 26 at 13.87 min Tilt = -37.02 Mean = 16 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.024 0.061 -0.666 Errors in X/Y Prediction 0.019 0.019 um, 1.8 1.8 % Error in Z Prediction 0.346 Predicted X = 0.062 StdErr = 0.003 nFit = 4 nDrop = 0 Predicted Y = 0.302 StdErr = 0.065 nFit = 6 nDrop = 0 Predicted Z = -0.890 StdErr = 0.108 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 135 135, reference by 130 130 Tracking image shifted 0.011, -0.032 um; position 0.051, 0.329 Trimming A by 56 18 18 18, reference by 53 18 38 18 Drift reached 2.6 A/sec after 6.6 sec, going on Measured defocus = -4.96 microns changed by -0.04 to target drift = 0.16 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00027_17.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.3 Residual mean = 0.03 max max = 0.05 Record image shifted -0.004, 0.005 um Tracking reference shifted by 7.1,-9.6 pixels, -0.004,0.005 um Saved Z = 27 at 14.46 min Tilt = 16.98 Mean = 26 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.055 0.323 -0.935 Errors in X/Y Prediction -0.007 0.021 um, 0.6 2.0 % Error in Z Prediction -0.044 Predicted X = -0.029 StdErr = 0.014 nFit = 4 nDrop = 0 Predicted Y = 0.086 StdErr = 0.016 nFit = 6 nDrop = 0 Predicted Z = -0.612 StdErr = 0.102 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 60 60, reference by 55 55 Tracking image shifted -0.035, -0.035 um; position 0.006, 0.121 Drift reached 1.3 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00028_-39.0.tif Frame alignment results: distance raw = 1.0 smoothed = 0.9 Residual mean = 0.05 max max = 0.09 Record image shifted 0.031, 0.095 um Tracking reference shifted by -64.9,-184.0 pixels, 0.031,0.095 um Getting a new tracking reference after Record to reduce reference conflicts Saved Z = 28 at 14.98 min Tilt = -39.01 Mean = 15 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.025 0.027 -0.612 Errors in X/Y Prediction 0.004 -0.060 um, 0.4 5.7 % Predicted X = 0.056 StdErr = 0.007 nFit = 4 nDrop = 0 Predicted Y = 0.409 StdErr = 0.066 nFit = 6 nDrop = 0 Predicted Z = -0.911 StdErr = 0.034 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 135 135 Tracking image shifted -0.000, 0.108 um; position 0.056, 0.301 Trimming A by 58 18 43 18, reference by 71 18 18 18 Trimming A by 65 18 33 18, reference by 58 18 43 18 Drift reached 2.1 A/sec after 12.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00029_19.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.4 Residual mean = 0.04 max max = 0.06 Record image shifted 0.002, 0.004 um Tracking reference shifted by -3.2,-7.9 pixels, 0.002,0.004 um Saved Z = 29 at 15.66 min Tilt = 18.98 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.057 0.293 -0.911 Errors in X/Y Prediction 0.001 -0.116 um, 0.1 11.1 % Predicted X = -0.017 StdErr = 0.008 nFit = 4 nDrop = 0 Predicted Y = 0.038 StdErr = 0.036 nFit = 6 nDrop = 0 Predicted Z = -0.534 StdErr = 0.111 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 50 55 Tracking image shifted -0.024, -0.102 um; position 0.005, 0.139 Drift reached 0.6 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00030_-41.0.tif Frame alignment results: distance raw = 0.8 smoothed = 0.6 Residual mean = 0.04 max max = 0.05 Trimming A by 46 46, reference by 21 21 Record image shifted 0.040, 0.100 um Tracking reference shifted by -84.0,-192.1 pixels, 0.040,0.100 um Getting a new tracking reference after Record to reduce reference conflicts Saved Z = 30 at 16.20 min Tilt = -41.02 Mean = 14 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.035 0.039 -0.534 Trimming A by 50 20 45 20, reference by 45 20 30 20 Errors in X/Y Prediction -0.019 0.002 um, 1.8 0.2 % Predicted X = 0.054 StdErr = 0.006 nFit = 4 nDrop = 0 Predicted Y = 0.324 StdErr = 0.081 nFit = 6 nDrop = 0 Predicted Z = -0.879 StdErr = 0.037 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 125 125 Tracking image shifted 0.002, -0.109 um; position 0.052, 0.434 Trimming A by 68 18 18 18, reference by 66 18 18 18 Trimming A by 58 18 38 18, reference by 68 18 18 18 Drift reached 2.1 A/sec after 12.7 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00031_21.0.tif Frame alignment results: distance raw = 1.6 smoothed = 1.5 Residual mean = 0.05 max max = 0.08 Record image shifted -0.002, 0.000 um Tracking reference shifted by 3.6,-0.2 pixels, -0.002,0.000 um Saved Z = 31 at 16.88 min Tilt = 20.98 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.056 0.429 -0.879 Errors in X/Y Prediction 0.002 0.105 um, 0.2 10.0 % Predicted X = -0.039 StdErr = 0.007 nFit = 3 nDrop = 0 Predicted Y = 0.013 StdErr = 0.041 nFit = 5 nDrop = 0 Predicted Z = -0.456 StdErr = 0.121 nFit = 3 nDrop = 0 Need regular tracking - Redoing image because of insufficient counts Redoing image because of insufficient counts * * * * * * * * * * * * * * * * * * TILT SERIES TERMINATING WITH THIS MESSAGE: There have been 3 failures to obtain an image with sufficient counts (3 actual vs. 5 criterion unbinned counts per sec) Sometimes this happens even when the images are good enough. Press: "Stop" to stop the tilt series, "Reset & Go On" to reset the criterion and go on * * * * * * * * * * * * * * * * * * 2019/12/13 15:42 X:\Luke_20191213\s1.st 0 32 11520 8184 6033 -11.0 21.0 2.00 REG 16.9 1x1 GIF-K3 33000 1 0.13 LD-DS 20.0 0.0 Total dose in electrons/square Angstrom: Recording: 63.5 Tracking: 39.4 Focusing: 28.1 Tasks: 3.94 Previews: 0.9 Stage position error of 1.92, 0.40 assigned to this map from last realign to nearby item