Dewars are NOT busy filling Refrigerant level in dewar 1 is 19.355 Refrigerant level in dewar 2 is 51.417 Opened new file X:\Luke_20191213\s1_2part.st STARTING TILT SERIES WITH AUTOMATIC TERMINATION AFTER ERRORS. Need regular tracking - Need autofocus Trimming A by 135 21 90 20, reference by 130 20 85 20 Tracking image shifted -0.001, 0.000 um; position 0.001, -0.000 Trimming A by 38 18 18 18, reference by 38 18 28 18 Drift reached 0.7 A/sec after 6.6 sec, going on Measured defocus = -4.70 microns changed by -0.30 to target drift = 0.06 nm/sec Measured defocus = -4.79 microns changed by -0.21 to target drift = 0.02 nm/sec Measured defocus = -4.97 microns changed by -0.03 to target drift = 0.02 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00032_23.0.tif Frame alignment results: distance raw = 1.5 smoothed = 1.4 Residual mean = 0.04 max max = 0.07 Saved Z = 0 at 0.00 min Tilt = 22.98 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.001 0.000 -0.908 Need regular tracking - Need autofocus Trimming A by 120 120, reference by 120 120 Tracking image shifted 0.008, 0.078 um; position -0.007, -0.078 Trimming A by 38 18 18 18, reference by 38 18 18 18 Drift reached 1.6 A/sec after 6.5 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_00033_25.0.tif Frame alignment results: distance raw = 1.3 smoothed = 1.1 Residual mean = 0.02 max max = 0.03 Record image shifted 0.000, 0.006 um Tracking reference shifted by -1.2,-11.9 pixels, 0.000,0.006 um Saved Z = 1 at 0.50 min Tilt = 24.98 Mean = 25 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.007 -0.085 -0.881 Predicted X = -0.015 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Y = -0.171 StdErr = 0.000 nFit = 2 nDrop = 0 Predicted Z = -0.853 StdErr = 0.000 nFit = 2 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 120 120, reference by 120 120 Tracking image shifted -0.010, -0.118 um; position -0.006, -0.052 Trimming A by 38 18 18 18, reference by 38 18 18 18 Drift reached 1.8 A/sec after 6.6 sec, going on Measured defocus = -4.99 microns changed by -0.01 to target drift = 0.09 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00034_27.0.tif Frame alignment results: distance raw = 1.1 smoothed = 0.9 Residual mean = 0.04 max max = 0.07 Record image shifted -0.002, -0.001 um Tracking reference shifted by 3.7,2.7 pixels, -0.002,-0.001 um Saved Z = 2 at 1.02 min Tilt = 26.98 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.004 -0.052 -0.862 Errors in X/Y Prediction 0.011 0.119 um, 1.1 11.3 % Error in Z Prediction -0.008 Predicted X = -0.008 StdErr = 0.008 nFit = 3 nDrop = 0 Predicted Y = -0.098 StdErr = 0.088 nFit = 3 nDrop = 0 Predicted Z = -0.837 StdErr = 0.006 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 120 120, reference by 120 120 Tracking image shifted -0.008, -0.022 um; position -0.000, -0.076 Trimming A by 38 18 33 18, reference by 42 18 18 18 Drift reached 1.6 A/sec after 6.7 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00035_29.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.1 Residual mean = 0.05 max max = 0.08 Record image shifted 0.001, 0.004 um Tracking reference shifted by -2.6,-7.5 pixels, 0.001,0.004 um Saved Z = 3 at 1.43 min Tilt = 28.99 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.001 -0.081 -0.837 Errors in X/Y Prediction 0.007 0.017 um, 0.7 1.6 % Predicted X = 0.002 StdErr = 0.000 nFit = 3 nDrop = 0 Predicted Y = -0.069 StdErr = 0.046 nFit = 3 nDrop = 0 Predicted Z = -0.814 StdErr = 0.008 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 125 125, reference by 120 120 Tracking image shifted 0.002, -0.027 um; position -0.000, -0.042 Trimming A by 38 18 28 18, reference by 38 18 18 18 Drift reached 1.5 A/sec after 6.7 sec, going on Measured defocus = -5.02 microns changed by 0.02 to target drift = 0.11 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00036_31.0.tif Frame alignment results: distance raw = 1.3 smoothed = 1.0 Residual mean = 0.03 max max = 0.06 Record image shifted 0.000, 0.004 um Tracking reference shifted by -0.8,-7.0 pixels, 0.000,0.004 um Saved Z = 4 at 1.95 min Tilt = 30.99 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.000 -0.047 -0.797 Errors in X/Y Prediction -0.002 0.022 um, 0.2 2.1 % Error in Z Prediction 0.016 Predicted X = 0.002 StdErr = 0.001 nFit = 3 nDrop = 0 Predicted Y = -0.055 StdErr = 0.048 nFit = 3 nDrop = 0 Predicted Z = -0.771 StdErr = 0.012 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 120 125, reference by 120 120 Tracking image shifted 0.001, -0.038 um; position 0.000, -0.017 Trimming A by 38 18 33 18, reference by 38 18 23 18 Drift reached 0.9 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00037_33.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.1 Residual mean = 0.04 max max = 0.06 Record image shifted -0.000, 0.001 um Tracking reference shifted by 0.0,-1.9 pixels, -0.000,0.001 um Saved Z = 5 at 2.36 min Tilt = 32.99 Mean = 24 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = 0.000 -0.019 -0.771 Errors in X/Y Prediction -0.001 0.036 um, 0.1 3.4 % Predicted X = 0.001 StdErr = 0.000 nFit = 3 nDrop = 0 Predicted Y = 0.014 StdErr = 0.005 nFit = 3 nDrop = 0 Predicted Z = -0.742 StdErr = 0.014 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 120 125 Tracking image shifted 0.001, -0.059 um; position -0.000, 0.073 Trimming A by 48 18 33 18, reference by 37 18 18 18 Drift reached 1.2 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00038_35.0.tif Frame alignment results: distance raw = 1.2 smoothed = 1.0 Residual mean = 0.05 max max = 0.09 Record image shifted 0.000, 0.002 um Tracking reference shifted by -0.4,-3.4 pixels, 0.000,0.002 um Saved Z = 6 at 2.76 min Tilt = 34.98 Mean = 23 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.001 0.070 -0.742 Errors in X/Y Prediction -0.002 0.056 um, 0.1 5.4 % Predicted X = -0.002 StdErr = 0.001 nFit = 4 nDrop = 0 Predicted Y = 0.169 StdErr = 0.045 nFit = 4 nDrop = 0 Predicted Z = -0.714 StdErr = 0.017 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 110 110, reference by 125 125 Tracking image shifted -0.001, 0.128 um; position -0.001, 0.042 Trimming A by 43 18 28 18, reference by 37 18 18 18 Drift reached 1.6 A/sec after 6.7 sec, going on Measured defocus = -4.99 microns changed by -0.01 to target drift = 0.07 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00039_37.0.tif Frame alignment results: distance raw = 1.2 smoothed = 1.1 Residual mean = 0.05 max max = 0.08 Record image shifted 0.001, 0.006 um Tracking reference shifted by -1.8,-12.2 pixels, 0.001,0.006 um Saved Z = 7 at 3.28 min Tilt = 36.98 Mean = 23 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.002 0.034 -0.722 Errors in X/Y Prediction -0.000 -0.135 um, 0.0 12.9 % Error in Z Prediction -0.008 Predicted X = -0.005 StdErr = 0.000 nFit = 4 nDrop = 0 Predicted Y = 0.056 StdErr = 0.080 nFit = 5 nDrop = 0 Predicted Z = -0.692 StdErr = 0.011 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 120 120, reference by 110 110 Tracking image shifted -0.001, -0.005 um; position -0.004, 0.061 Trimming A by 48 18 18 18, reference by 48 18 18 18 Drift reached 0.8 A/sec after 6.7 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00040_39.0.tif Frame alignment results: distance raw = 1.4 smoothed = 1.4 Residual mean = 0.04 max max = 0.06 Record image shifted -0.001, 0.000 um Tracking reference shifted by 1.1,-0.1 pixels, -0.001,0.000 um Saved Z = 8 at 3.69 min Tilt = 38.98 Mean = 22 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.004 0.060 -0.692 Errors in X/Y Prediction 0.001 0.005 um, 0.1 0.5 % Predicted X = -0.006 StdErr = 0.001 nFit = 4 nDrop = 0 Predicted Y = 0.057 StdErr = 0.057 nFit = 6 nDrop = 0 Predicted Z = -0.664 StdErr = 0.012 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 125 125, reference by 120 120 Tracking image shifted 0.001, -0.094 um; position -0.007, 0.151 Trimming A by 38 18 18 18, reference by 38 18 28 18 Drift reached 0.7 A/sec after 6.7 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00041_41.0.tif Frame alignment results: distance raw = 1.3 smoothed = 1.1 Residual mean = 0.03 max max = 0.04 Record image shifted -0.001, 0.000 um Tracking reference shifted by 1.3,-0.2 pixels, -0.001,0.000 um Saved Z = 9 at 4.10 min Tilt = 40.98 Mean = 21 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.006 0.151 -0.664 Errors in X/Y Prediction -0.001 0.093 um, 0.1 8.9 % Predicted X = -0.008 StdErr = 0.001 nFit = 3 nDrop = 0 Predicted Y = 0.170 StdErr = 0.078 nFit = 6 nDrop = 0 Predicted Z = -0.636 StdErr = 0.014 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 120 120, reference by 125 125 Tracking image shifted -0.002, -0.008 um; position -0.007, 0.179 Trimming A by 38 18 33 18, reference by 42 18 18 18 Drift reached 0.7 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00042_43.0.tif Frame alignment results: distance raw = 1.6 smoothed = 1.6 Residual mean = 0.05 max max = 0.08 Record image shifted 0.001, 0.006 um Tracking reference shifted by -2.4,-11.0 pixels, 0.001,0.006 um Saved Z = 10 at 4.51 min Tilt = 42.98 Mean = 21 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.008 0.172 -0.636 Errors in X/Y Prediction 0.000 0.002 um, 0.0 0.2 % Predicted X = -0.010 StdErr = 0.002 nFit = 4 nDrop = 0 Predicted Y = 0.229 StdErr = 0.076 nFit = 6 nDrop = 0 Predicted Z = -0.609 StdErr = 0.015 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Trimming A by 120 120, reference by 120 120 Tracking image shifted -0.002, 0.028 um; position -0.008, 0.201 Trimming A by 28 18 28 18, reference by 36 18 23 18 Drift reached 0.7 A/sec after 6.6 sec, going on Using peak at 9.2,-15.7, rejecting 1.48 times higher peak at 0.0,-0.0 Using peak at -9.1,16.0, rejecting 1.31 times higher peak at -0.0,-0.0 Measured defocus = -4.98 microns changed by -0.02 to target drift = 0.03 nm/sec 4 frames were saved to X:\Luke_20191213\tomo-g2_00043_45.0.tif Frame alignment results: distance raw = 1.7 smoothed = 1.6 Residual mean = 0.08 max max = 0.12 Record image shifted 0.001, 0.005 um Tracking reference shifted by -1.7,-9.2 pixels, 0.001,0.005 um Saved Z = 11 at 5.02 min Tilt = 44.98 Mean = 20 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.009 0.195 -0.630 Errors in X/Y Prediction 0.001 -0.033 um, 0.1 3.2 % Error in Z Prediction -0.022 Predicted X = -0.010 StdErr = 0.000 nFit = 3 nDrop = 0 Predicted Y = 0.215 StdErr = 0.052 nFit = 5 nDrop = 0 Predicted Z = -0.605 StdErr = 0.005 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 95 115, reference by 120 120 Tracking image shifted -0.000, 0.026 um; position -0.010, 0.189 Trimming A by 33 128 18 138, reference by 34 118 18 138 Drift reached 0.5 A/sec after 6.6 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00044_47.0.tif Frame alignment results: distance raw = 1.7 smoothed = 1.5 Residual mean = 0.06 max max = 0.09 Record image shifted 0.001, 0.002 um Tracking reference shifted by -1.9,-4.1 pixels, 0.001,0.002 um Saved Z = 12 at 5.43 min Tilt = 46.98 Mean = 17 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.010 0.187 -0.605 Errors in X/Y Prediction -0.001 -0.029 um, 0.1 2.7 % Predicted X = -0.012 StdErr = 0.001 nFit = 3 nDrop = 0 Predicted Y = 0.144 StdErr = 0.028 nFit = 5 nDrop = 1 Predicted Z = -0.582 StdErr = 0.005 nFit = 3 nDrop = 0 Need regular tracking - Trimming A by 20 20, reference by 100 100 Tracking image shifted 0.008, 0.355 um; position -0.019, -0.211 Drift reached 0.2 A/sec after 6.8 sec, going on 4 frames were saved to X:\Luke_20191213\tomo-g2_00045_49.0.tif Frame alignment results: distance raw = 1.5 smoothed = 1.5 Residual mean = 0.08 max max = 0.13 Record image shifted 0.000, 0.011 um Tracking reference shifted by -0.6,-22.3 pixels, 0.000,0.011 um Saved Z = 13 at 5.86 min Tilt = 48.98 Mean = 17 IA = 2.15um dose = 1.98 e/A2 X/Y/Z = -0.019 -0.223 -0.582 Errors in X/Y Prediction -0.008 -0.367 um, 0.7 34.9 % Predicted X = -0.024 StdErr = 0.005 nFit = 3 nDrop = 0 Predicted Y = -0.474 StdErr = 0.184 nFit = 6 nDrop = 0 Predicted Z = -0.558 StdErr = 0.006 nFit = 3 nDrop = 0 Need regular tracking - Need autofocus Ending Navigator acquisition after current item 2019/12/13 15:56 X:\Luke_20191213\s1_2part.st 0 14 11520 8184 2639 23.0 49.0 2.00 REG 5.9 1x1 GIF-K3 33000 1 0.13 LD 20.0 0.0 Total dose in electrons/square Angstrom: Recording: 27.8 Tracking: 15.8 Focusing: 12.0 Tasks: 0.00 Previews: 0.0 Ending Navigator acquisition after current item