INFO 2025-10-21 21:47:46,548 process.py process_mission():429 [1] commandline = /src/data/process_i2map.py -v --noinput --start_year 2025 --end_year 2025 --start_yd 1 --end_yd 365 --num_cores 1 --clobber
INFO 2025-10-21 21:47:46,548 process.py process_mission():449 [1] Processing i2map mission 2025.218.01 by user docker_user on host db3cf4b524d0
INFO 2025-10-21 21:47:46,548 process.py download_process():165 [1] Download and processing steps for 2025.218.01
INFO 2025-10-21 21:47:46,548 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/M3/master/i2MAP/2025/08/20250806/2025.218.01
INFO 2025-10-21 21:47:46,549 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/M3/master/i2MAP/2025/08/20250806/2025.218.01 to /data/auv_data/i2map/missionlogs/2025.218.01
INFO 2025-10-21 21:47:49,137 logs2netcdfs.py download_process_logs():779 [1] Processing mission: i2map 2025.218.01
INFO 2025-10-21 21:47:49,138 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2025.218.01/gps.log (767876 bytes)
INFO 2025-10-21 21:47:49,300 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2025.218.01/navigation.log (187031696 bytes)
INFO 2025-10-21 21:48:04,007 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2025.218.01/parosci.log (46071302 bytes)
INFO 2025-10-21 21:48:07,862 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2025.218.01/seabird25p.log (92499610 bytes)
INFO 2025-10-21 21:48:14,169 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2025.218.01/seabird25p.log: [     1 397587 397588]
INFO 2025-10-21 21:48:14,510 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2025.218.01/tailCone.log (23134727 bytes)
WARNING 2025-10-21 21:48:16,709 logs2netcdfs.py _create_variable():536 [1] elevatorAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (481963,) and arg 1 with shape (481962,).
INFO 2025-10-21 21:48:16,709 logs2netcdfs.py _create_variable():537 [1] len(data) (481962) does not match shape of elevatorAngle.shape[0] (481963)
WARNING 2025-10-21 21:48:16,709 logs2netcdfs.py _create_variable():544 [1] elevatorAngle data is short by one, appending the last value: -0.03878841921687126
WARNING 2025-10-21 21:48:16,774 logs2netcdfs.py _create_variable():536 [1] rudderAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (481963,) and arg 1 with shape (481962,).
INFO 2025-10-21 21:48:16,775 logs2netcdfs.py _create_variable():537 [1] len(data) (481962) does not match shape of rudderAngle.shape[0] (481963)
WARNING 2025-10-21 21:48:16,775 logs2netcdfs.py _create_variable():544 [1] rudderAngle data is short by one, appending the last value: 0.17068888247013092
WARNING 2025-10-21 21:48:16,822 logs2netcdfs.py _create_variable():536 [1] propPwm: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (481963,) and arg 1 with shape (481962,).
INFO 2025-10-21 21:48:16,822 logs2netcdfs.py _create_variable():537 [1] len(data) (481962) does not match shape of propPwm.shape[0] (481963)
WARNING 2025-10-21 21:48:16,823 logs2netcdfs.py _create_variable():544 [1] propPwm data is short by one, appending the last value: 0
WARNING 2025-10-21 21:48:16,853 logs2netcdfs.py _create_variable():536 [1] propTemp: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (481963,) and arg 1 with shape (481962,).
INFO 2025-10-21 21:48:16,853 logs2netcdfs.py _create_variable():537 [1] len(data) (481962) does not match shape of propTemp.shape[0] (481963)
WARNING 2025-10-21 21:48:16,853 logs2netcdfs.py _create_variable():544 [1] propTemp data is short by one, appending the last value: 0
INFO 2025-10-21 21:48:17,490 logs2netcdfs.py download_process_logs():807 [1] Time to process: 28.35 seconds
INFO 2025-10-21 21:48:17,491 process.py calibrate():227 [1] Calibration steps for 2025.218.01
INFO 2025-10-21 21:48:18,012 calibrate.py _nudge_pos():1680 [1] seg#   end_sec_diff end_lon_diff end_lat_diff len(segi)   seg_min u_drift (cm/s) v_drift (cm/s)     start datetime of segment
INFO 2025-10-21 21:48:18,014 calibrate.py _nudge_pos():1711 [1]                   -            -            -         0      0.00              -              -                             -
INFO 2025-10-21 21:48:19,417 calibrate.py _nudge_pos():1806 [1]   172:        0.040   -0.0039456   -0.0001065     35697    118.99         -4.927         -0.166 2025-08-06T18:06:20.450860800
INFO 2025-10-21 21:48:22,793 calibrate.py _nudge_pos():1806 [1]   495:        0.100   -0.0004532   -0.0001158      2575      8.58         -7.849         -2.502 2025-08-06T18:20:17.453522176
INFO 2025-10-21 21:48:23,421 calibrate.py _nudge_pos():1806 [1]   554:        0.110   -0.0009818    0.0001006     40948    136.49         -1.069          0.137 2025-08-06T20:37:47.048386048
INFO 2025-10-21 21:48:25,520 calibrate.py _nudge_pos():1806 [1]   751:        0.140   -0.0001873    0.0006204      3586     11.95         -2.328          9.620 2025-08-06T20:53:00.255827200
INFO 2025-10-21 21:48:28,459 calibrate.py _nudge_pos():1806 [1]  1028:        0.030   -0.0000468    0.0001248      2866      9.55         -0.728          2.422 2025-08-06T21:07:09.257666560
INFO 2025-10-21 21:48:29,800 calibrate.py _nudge_pos():1806 [1]  1151:        0.070   -0.0000187   -0.0002216      2010      6.70         -0.416         -6.131 2025-08-06T21:15:53.251770624
INFO 2025-10-21 21:48:30,370 calibrate.py _nudge_pos():1806 [1]  1204:        0.170   -0.0018627    0.0030761     35072    116.90         -2.367          4.876 2025-08-06T23:13:39.657688576
INFO 2025-10-21 21:48:31,295 calibrate.py _nudge_pos():1806 [1]  1288:        0.030    0.0003964    0.0005031      3286     10.95          5.378          8.514 2025-08-06T23:25:59.856981504
INFO 2025-10-21 21:48:34,356 calibrate.py _nudge_pos():1806 [1]  1564:        0.070   -0.0008676    0.0000905     42562    141.87         -0.909          0.118 2025-08-07T01:52:27.454989568
INFO 2025-10-21 21:48:34,905 calibrate.py _nudge_pos():1806 [1]  1614:        0.180   -0.0001905    0.0001565      4380     14.60         -1.939          1.987 2025-08-07T02:07:52.451623168
INFO 2025-10-21 21:48:36,193 calibrate.py _nudge_pos():1806 [1]  1727:        0.190   -0.0002409   -0.0000359      1995      6.65         -5.385         -1.000 2025-08-07T02:16:23.456616960
INFO 2025-10-21 21:48:36,336 calibrate.py _nudge_pos():1806 [1]  1740:        0.030   -0.0005327   -0.0000977      1816      6.05        -13.082         -2.992 2025-08-07T02:22:38.650914304
INFO 2025-10-21 21:48:37,059 calibrate.py _nudge_pos():1806 [1]  1805:        0.060   -0.0009694    0.0037347     18452     61.50         -2.342         11.252 2025-08-07T03:25:12.853733888
INFO 2025-10-21 21:48:38,085 calibrate.py _nudge_pos():1806 [1]  1896:        0.080    0.0007494    0.0026059     14341     47.80          2.329         10.102 2025-08-07T04:14:31.051083264
INFO 2025-10-21 21:48:39,268 calibrate.py _nudge_pos():1806 [1]  2002:        0.150   -0.0002910   -0.0001438       321      1.07        -40.535        -24.975 2025-08-07T04:17:20.249492736
INFO 2025-10-21 21:48:40,079 calibrate.py _nudge_pos():1806 [1]  2074:        0.200   -0.0000639    0.0001137      6540     21.80         -0.436          0.967 2025-08-07T04:40:19.055037952
INFO 2025-10-21 21:48:40,598 calibrate.py _nudge_pos():1806 [1]  2118:        0.020   -0.0000226   -0.0000020        11      0.03       -100.619        -11.360 2025-08-07T04:41:04.251941632
INFO 2025-10-21 21:48:40,746 calibrate.py _nudge_pos():1806 [1]  2131:        0.040   -0.0004327   -0.0001829       336      1.12        -57.563        -30.353 2025-08-07T04:42:23.256529664
INFO 2025-10-21 21:48:41,522 calibrate.py _nudge_pos():1806 [1]  2199:        0.030   -0.0006821   -0.0001073      1515      5.05        -20.080         -3.938 2025-08-07T04:48:33.251183104
INFO 2025-10-21 21:48:43,571 calibrate.py _nudge_pos():1806 [1]  2381:        0.070   -0.0004294   -0.0000870       960      3.20        -19.959         -5.040 2025-08-07T04:54:46.255630592
INFO 2025-10-21 21:48:44,670 calibrate.py _nudge_pos():1806 [1]  2478:        0.090   -0.0004574   -0.0002953      1565      5.21        -13.034        -10.495 2025-08-07T05:01:35.257612032
INFO 2025-10-21 21:48:45,977 calibrate.py _nudge_pos():1806 [1]  2590:        0.130    0.0000381   -0.0002978      1085      3.61          1.566        -15.271 2025-08-07T05:07:03.255142656
INFO 2025-10-21 21:49:03,268 calibrate.py _nudge_pos():1806 [1]  4098:        0.110   -0.0001872   -0.0004050      2495      8.31         -3.346         -9.028 2025-08-07T05:40:29.457708288
INFO 2025-10-21 21:49:06,069 calibrate.py _nudge_pos():1806 [1]  4341:        0.120   -0.0003455   -0.0002791      2225      7.41         -6.924         -6.976 2025-08-07T05:51:56.450646272
INFO 2025-10-21 21:49:06,684 calibrate.py _nudge_pos():1806 [1]  4394:        0.030   -0.0037710    0.0015751     34968    116.56         -4.807          2.504 2025-08-07T07:49:22.057988864
INFO 2025-10-21 21:49:08,099 calibrate.py _nudge_pos():1806 [1]  4515:        0.060    0.0002206   -0.0005734      3560     11.86          2.763         -8.956 2025-08-07T08:03:14.050993408
INFO 2025-10-21 21:49:08,240 calibrate.py _nudge_pos():1806 [1]  4527:        0.120    0.0029734    0.0016474     41608    138.69          3.185          2.201 2025-08-07T10:22:06.650171392
INFO 2025-10-21 21:49:16,019 calibrate.py _nudge_pos():1806 [1]  5192:        0.130    0.0031662   -0.0034594     13881     46.27         10.166        -13.855 2025-08-07T11:19:26.854501120
INFO 2025-10-21 21:49:20,333 calibrate.py _nudge_pos():1806 [1]  5553:        0.170    0.0032229   -0.0068220     14006     46.68         10.255        -27.078 2025-08-07T12:12:08.057944064
INFO 2025-10-21 21:49:24,535 calibrate.py _nudge_pos():1806 [1]  5910:        0.190   -0.0006123   -0.0065665     13946     46.48         -1.957        -26.176 2025-08-07T13:04:33.252483328
INFO 2025-10-21 21:49:24,560 calibrate.py _nudge_pos():1806 [1]  5912:        0.180    0.0002181    0.0000222       105      0.35         93.453         11.891 2025-08-07T13:04:55.250976256
INFO 2025-10-21 21:49:29,324 calibrate.py _nudge_pos():1806 [1]  6306:        0.200   -0.0010742   -0.0055307     13935     46.45         -3.435        -22.065 2025-08-07T13:57:55.453117696
INFO 2025-10-21 21:49:34,092 calibrate.py _nudge_pos():1806 [1]  6676:        0.040    0.0001974   -0.0035122     13971     46.57          0.629        -13.976 2025-08-07T14:50:38.856409600
INFO 2025-10-21 21:49:38,756 calibrate.py _nudge_pos():1806 [1]  7063:        0.060    0.0007953   -0.0030114     13936     46.45          2.542        -12.013 2025-08-07T15:43:32.049030912
INFO 2025-10-21 21:49:46,587 calibrate.py _nudge_pos():1806 [1]  7716:        0.140    0.0006718   -0.0035251     13916     46.38          2.150        -14.083 2025-08-07T16:40:47.253703424
INFO 2025-10-21 21:50:02,404 calibrate.py _nudge_pos():1806 [1]  9012:        0.020    0.0011976   -0.0038338     13931     46.43          3.828        -15.299 2025-08-07T17:48:48.654108160
INFO 2025-10-21 21:50:18,237 calibrate.py _nudge_pos():1806 [1] 10287:        0.040    0.0016323   -0.0013201     10796     35.98          6.730         -6.798 2025-08-07T18:46:01.848918528
INFO 2025-10-21 21:50:22,828 calibrate.py _nudge_pos():1862 [1] 10603:            -            -            -         2      0.00              -              -
INFO 2025-10-21 21:50:22,829 calibrate.py _nudge_pos():1868 [1] Points in final series = 481579
INFO 2025-10-21 21:51:05,395 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 103 on port side
INFO 2025-10-21 21:51:05,397 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "103" 
INFO 2025-10-21 21:51:05,658 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2010-2008 2011_Feb 2012_Feb 2013_Apr 2013_Aug 2014_Sep 2015_Aug 2019_Oct 2021_Apr 2024_Jun
WARNING 2025-10-21 21:51:05,664 calibrate.py _cal_date_xml_files():1081 [1] Found 17 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2010-2008
INFO 2025-10-21 21:51:05,664 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,665 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,665 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,671 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2011_Feb
INFO 2025-10-21 21:51:05,671 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,671 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,672 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,677 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2012_Feb
INFO 2025-10-21 21:51:05,677 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,677 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,678 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,683 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2013_Apr
INFO 2025-10-21 21:51:05,683 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,683 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,684 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,690 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2013_Aug
INFO 2025-10-21 21:51:05,690 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,690 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,690 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,696 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2014_Sep
INFO 2025-10-21 21:51:05,696 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,696 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,697 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,702 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2015_Aug
INFO 2025-10-21 21:51:05,703 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,703 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,703 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,709 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2019_Oct
INFO 2025-10-21 21:51:05,709 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,709 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,709 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,714 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2021_Apr
INFO 2025-10-21 21:51:05,714 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,715 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,715 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
WARNING 2025-10-21 21:51:05,721 calibrate.py _cal_date_xml_files():1081 [1] Found 14 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2024_Jun
INFO 2025-10-21 21:51:05,721 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:05,722 calibrate.py _cal_date_xml_files():1116 [1] Cannot parse CalibrationDate, 16-Feb-11p
INFO 2025-10-21 21:51:05,722 calibrate.py _cal_date_xml_files():1123 [1] Trying to parse CalibrationDate without 'p'
INFO 2025-10-21 21:51:05,729 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2011_Feb/Oxygen_SBE43_0103.XML has CalibrationDate 2011-02-16 00:00:00+00:00
INFO 2025-10-21 21:51:05,729 calibrate.py _read_oxy_coeffs():1263 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2011_Feb/Oxygen_SBE43_0103.XML is just before 2025.218.01 with mission_start=2025-08-06T16:05:07.429096960
INFO 2025-10-21 21:51:19,488 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_port: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/103/2011_Feb/Oxygen_SBE43_0103.XML file: {'Soc': 0.4598, 'offset': -0.539, 'A': -0.0030238, 'B': 0.00015619, 'C': -2.652e-06, 'D0': 2.5826, 'D1': 0.00019263, 'D2': -0.04648, 'E': 0.036, 'Tau20': 1.83, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0}
INFO 2025-10-21 21:51:19,496 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 143 on stbd side
INFO 2025-10-21 21:51:19,496 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "143" 
INFO 2025-10-21 21:51:19,682 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2011_June 2012_Oct 2013-Dec 2013_July 2015-Oct 2017_Mar 2020_Feb 2023_Jan 2024_Jan
WARNING 2025-10-21 21:51:19,687 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2011_June
INFO 2025-10-21 21:51:19,687 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,692 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2012_Oct
INFO 2025-10-21 21:51:19,692 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,697 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2013-Dec
INFO 2025-10-21 21:51:19,697 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,702 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2013_July
INFO 2025-10-21 21:51:19,702 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,707 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2015-Oct
INFO 2025-10-21 21:51:19,707 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,712 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2017_Mar
INFO 2025-10-21 21:51:19,712 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,717 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2020_Feb
INFO 2025-10-21 21:51:19,717 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,722 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2023_Jan
INFO 2025-10-21 21:51:19,722 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 21:51:19,727 calibrate.py _cal_date_xml_files():1081 [1] Found 11 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2024_Jan
INFO 2025-10-21 21:51:19,727 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
INFO 2025-10-21 21:51:19,732 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2013_July/Oxygen_SBE43_0143.XML has CalibrationDate 2013-07-17 00:00:00+00:00
INFO 2025-10-21 21:51:19,733 calibrate.py _read_oxy_coeffs():1263 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2013_July/Oxygen_SBE43_0143.XML is just before 2025.218.01 with mission_start=2025-08-06T16:05:07.429096960
INFO 2025-10-21 21:51:33,493 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_stbd: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/143/2013_July/Oxygen_SBE43_0143.XML file: {'Soc': 0.42815, 'offset': -0.4829, 'A': -0.0031081, 'B': 0.0001985, 'C': -3.3814e-06, 'D0': 2.5826, 'D1': 0.000192634, 'D2': -0.0464803, 'E': 0.036, 'Tau20': 1.28, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0}
INFO 2025-10-21 21:51:52,397 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 23 seconds, d_end_time_diff: -1 seconds
INFO 2025-10-21 21:51:57,785 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 23 seconds, d_end_time_diff: -1 seconds
INFO 2025-10-21 21:51:57,794 calibrate.py _ctd_process():2919 [1] Performing range checking of ['seabird25p_salinity'] in 2025.218.01/seabird25p.nc
WARNING 2025-10-21 21:51:57,797 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (580) seabird25p_salinity values found outside of range. This may indicate a problem with the seabird25p data.
INFO 2025-10-21 21:51:57,797 calibrate.py _range_qc_combined_nc():898 [1] Setting 580 seabird25p_salinity values to NaN
INFO 2025-10-21 21:51:57,797 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('seabird25p_salinity', Range(min=30, max=40))]
INFO 2025-10-21 21:51:57,798 calibrate.py _range_qc_combined_nc():936 [1] Done range checking seabird25p
INFO 2025-10-21 21:51:58,236 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_cal.nc
INFO 2025-10-21 21:52:52,631 calibrate.py write_netcdf():3512 [1] Data variables written: depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, seabird25p_beam_transmittance, seabird25p_conductivity, seabird25p_conductivity_onboard, seabird25p_depth, seabird25p_dissolvedO2_port, seabird25p_dissolvedO2_stbd, seabird25p_oxygen_mll_port, seabird25p_oxygen_mll_stbd, seabird25p_oxygen_umolkg_port, seabird25p_oxygen_umolkg_stbd, seabird25p_salinity, seabird25p_salinity_onboard, seabird25p_temperature, seabird25p_temperature_onboard, seabird25p_time, tailcone_propRpm, tailcone_time, time
INFO 2025-10-21 21:52:52,635 process.py align():251 [1] Alignment steps for 2025.218.01
INFO 2025-10-21 21:52:52,680 align.py process_cal():139 [1] Processing i2map_2025.218.01_cal.nc from /data/auv_data/i2map/missionnetcdfs/2025.218.01
INFO 2025-10-21 21:52:52,802 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 21:52:52,813 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 21:52:53,108 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 21:52:53,124 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 21:52:53,419 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 21:52:53,435 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 21:52:53,610 align.py process_cal():161 [1] Skipping navigation_posx
INFO 2025-10-21 21:52:53,610 align.py process_cal():161 [1] Skipping navigation_posy
INFO 2025-10-21 21:52:53,735 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 21:52:53,750 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 21:52:54,075 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:54,101 align.py process_cal():249 [1] seabird25p_temperature: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:54,526 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:54,553 align.py process_cal():249 [1] seabird25p_conductivity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:54,977 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:55,006 align.py process_cal():249 [1] seabird25p_salinity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:55,422 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:55,449 align.py process_cal():249 [1] seabird25p_temperature_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:55,870 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:55,897 align.py process_cal():249 [1] seabird25p_conductivity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:56,317 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:56,350 align.py process_cal():249 [1] seabird25p_salinity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:56,767 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:56,793 align.py process_cal():249 [1] seabird25p_dissolvedO2_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:57,215 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:57,242 align.py process_cal():249 [1] seabird25p_oxygen_mll_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:57,662 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:57,688 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:58,113 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:58,137 align.py process_cal():249 [1] seabird25p_dissolvedO2_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:58,561 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:58,592 align.py process_cal():249 [1] seabird25p_oxygen_mll_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:59,009 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:59,033 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:59,452 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:59,475 align.py process_cal():249 [1] seabird25p_beam_transmittance: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:52:59,890 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2025.218.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 21:52:59,911 align.py process_cal():249 [1] seabird25p_depth: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 21:53:00,375 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 21:53:00,569 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_align.nc
INFO 2025-10-21 21:53:00,744 align.py write_netcdf():342 [1] Data variables written: navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, seabird25p_beam_transmittance, seabird25p_conductivity, seabird25p_conductivity_onboard, seabird25p_depth, seabird25p_dissolvedO2_port, seabird25p_dissolvedO2_stbd, seabird25p_latitude, seabird25p_longitude, seabird25p_oxygen_mll_port, seabird25p_oxygen_mll_stbd, seabird25p_oxygen_umolkg_port, seabird25p_oxygen_umolkg_stbd, seabird25p_salinity, seabird25p_salinity_onboard, seabird25p_temperature, seabird25p_temperature_onboard, seabird25p_time, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time
INFO 2025-10-21 21:53:00,745 process.py resample():273 [1] Resampling steps for 2025.218.01
INFO 2025-10-21 21:53:00,746 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m
INFO 2025-10-21 21:53:00,774 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_align.nc mission netCDF file
INFO 2025-10-21 21:53:00,784 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_align.nc mission netCDF file
INFO 2025-10-21 21:53:00,788 resample.py get_mission_start_end():1145 [1] navigation: 2025-08-06T16:05:20.458204160 to 2025-08-07T18:52:07.253886464 (0 days 00:00:00 before mission_end)
INFO 2025-10-21 21:53:00,793 resample.py get_mission_start_end():1145 [1] seabird25p: 2025-08-06T16:05:07.429096960 to 2025-08-07T18:52:07.233888000 (0 days 00:00:00.019998464 before mission_end)
INFO 2025-10-21 21:53:00,798 resample.py get_mission_start_end():1145 [1] tailcone  : 2025-08-06T16:04:39.700996352 to 2025-08-07T18:51:12.497637632 (0 days 00:00:54.756248832 before mission_end)
INFO 2025-10-21 21:53:00,800 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_align.nc mission netCDF file
INFO 2025-10-21 21:53:00,800 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter 
INFO 2025-10-21 21:53:02,107 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:02,257 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:02,401 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:02,541 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:02,758 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:02,987 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:03,222 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:03,442 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:03,660 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:03,879 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:04,099 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_port with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:04,320 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_port with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:04,543 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_port with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:04,777 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:05,013 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:05,254 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:05,495 resample.py resample_variable():1031 [1] Resampling seabird25p_beam_transmittance with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:05,641 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter
INFO 2025-10-21 21:53:06,287 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_1S.nc
INFO 2025-10-21 21:53:06,289 process.py archive():337 [1] Archiving steps for 2025.218.01
INFO 2025-10-21 21:53:06,289 process.py archive():347 [1] nc_file_base = /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01, BASE_PATH = /data/auv_data
INFO 2025-10-21 21:53:06,291 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01 files to /Volumes/AUVCTD/surveys/2025/netcdf
INFO 2025-10-21 21:53:06,292 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2025/netcdf/i2map_2025.218.01_1S.nc
INFO 2025-10-21 21:53:06,345 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_1S.nc /Volumes/AUVCTD/surveys/2025/netcdf done.
INFO 2025-10-21 21:53:06,346 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2025/netcdf/i2map_2025.218.01_cal.nc
INFO 2025-10-21 21:53:06,738 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_cal.nc /Volumes/AUVCTD/surveys/2025/netcdf done.
INFO 2025-10-21 21:53:06,739 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2025/netcdf/i2map_2025.218.01_align.nc
INFO 2025-10-21 21:53:07,092 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_align.nc /Volumes/AUVCTD/surveys/2025/netcdf done.
INFO 2025-10-21 21:53:07,103 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2025/2025218/2025.218.01 done.
INFO 2025-10-21 21:53:07,538 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2025/2025218/2025.218.01 done.
INFO 2025-10-21 21:53:07,664 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2025/2025218/2025.218.01 done.
INFO 2025-10-21 21:53:07,891 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/seabird25p.nc /Volumes/AUVCTD/missionnetcdfs/2025/2025218/2025.218.01 done.
INFO 2025-10-21 21:53:07,980 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2025/2025218/2025.218.01 done.
INFO 2025-10-21 21:53:07,980 archive.py copy_to_AUVTCD():116 [1] Archiving product files
INFO 2025-10-21 21:53:07,981 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2025.218.01/i2map_2025.218.01_processing.log /Volumes/AUVCTD/surveys/2025/netcdf