INFO 2025-10-21 18:44:18,332 process.py process_mission():429 [1] commandline = /src/data/process_i2map.py -v --noinput --start_year 2024 --end_year 2024 --start_yd 1 --end_yd 365 --num_cores 1 --clobber
INFO 2025-10-21 18:44:18,332 process.py process_mission():449 [1] Processing i2map mission 2024.080.06 by user docker_user on host abfc52d0d69d
INFO 2025-10-21 18:44:18,332 process.py download_process():165 [1] Download and processing steps for 2024.080.06
INFO 2025-10-21 18:44:18,333 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/M3/master/i2MAP/2024/03/20240320/2024.080.06
INFO 2025-10-21 18:44:18,334 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/M3/master/i2MAP/2024/03/20240320/2024.080.06 to /data/auv_data/i2map/missionlogs/2024.080.06
INFO 2025-10-21 18:44:20,918 logs2netcdfs.py download_process_logs():779 [1] Processing mission: i2map 2024.080.06
INFO 2025-10-21 18:44:20,919 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2024.080.06/gps.log (842612 bytes)
INFO 2025-10-21 18:44:21,102 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2024.080.06/navigation.log (160996120 bytes)
INFO 2025-10-21 18:44:37,621 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2024.080.06/parosci.log (39660278 bytes)
INFO 2025-10-21 18:44:42,289 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2024.080.06/seabird25p.log (79584488 bytes)
INFO 2025-10-21 18:44:49,648 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2024.080.06/seabird25p.log: [     1      2 524836]
INFO 2025-10-21 18:44:49,969 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2024.080.06/tailCone.log (19923463 bytes)
WARNING 2025-10-21 18:44:52,682 logs2netcdfs.py _create_variable():536 [1] rudderCurrent: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,682 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of rudderCurrent.shape[0] (415062)
WARNING 2025-10-21 18:44:52,682 logs2netcdfs.py _create_variable():544 [1] rudderCurrent data is short by one, appending the last value: 0.0
WARNING 2025-10-21 18:44:52,738 logs2netcdfs.py _create_variable():536 [1] propCurrent1: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,738 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of propCurrent1.shape[0] (415062)
WARNING 2025-10-21 18:44:52,738 logs2netcdfs.py _create_variable():544 [1] propCurrent1 data is short by one, appending the last value: 0.0
WARNING 2025-10-21 18:44:52,778 logs2netcdfs.py _create_variable():536 [1] propCurrent2: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,778 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of propCurrent2.shape[0] (415062)
WARNING 2025-10-21 18:44:52,778 logs2netcdfs.py _create_variable():544 [1] propCurrent2 data is short by one, appending the last value: 0
WARNING 2025-10-21 18:44:52,813 logs2netcdfs.py _create_variable():536 [1] propRpm: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,813 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of propRpm.shape[0] (415062)
WARNING 2025-10-21 18:44:52,813 logs2netcdfs.py _create_variable():544 [1] propRpm data is short by one, appending the last value: 0
WARNING 2025-10-21 18:44:52,859 logs2netcdfs.py _create_variable():536 [1] elevatorAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,859 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of elevatorAngle.shape[0] (415062)
WARNING 2025-10-21 18:44:52,859 logs2netcdfs.py _create_variable():544 [1] elevatorAngle data is short by one, appending the last value: 0.02961578592658043
WARNING 2025-10-21 18:44:52,915 logs2netcdfs.py _create_variable():536 [1] rudderAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,915 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of rudderAngle.shape[0] (415062)
WARNING 2025-10-21 18:44:52,915 logs2netcdfs.py _create_variable():544 [1] rudderAngle data is short by one, appending the last value: 0.17032304406166077
WARNING 2025-10-21 18:44:52,962 logs2netcdfs.py _create_variable():536 [1] propPwm: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,962 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of propPwm.shape[0] (415062)
WARNING 2025-10-21 18:44:52,962 logs2netcdfs.py _create_variable():544 [1] propPwm data is short by one, appending the last value: 0
WARNING 2025-10-21 18:44:52,999 logs2netcdfs.py _create_variable():536 [1] propTemp: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (415062,) and arg 1 with shape (415061,).
INFO 2025-10-21 18:44:52,999 logs2netcdfs.py _create_variable():537 [1] len(data) (415061) does not match shape of propTemp.shape[0] (415062)
WARNING 2025-10-21 18:44:52,999 logs2netcdfs.py _create_variable():544 [1] propTemp data is short by one, appending the last value: 0
INFO 2025-10-21 18:44:53,839 logs2netcdfs.py download_process_logs():807 [1] Time to process: 32.92 seconds
INFO 2025-10-21 18:44:53,840 process.py calibrate():227 [1] Calibration steps for 2024.080.06
INFO 2025-10-21 18:44:54,483 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 18:44:54,486 calibrate.py _nudge_pos():1711 [1]                   -            -            -         0      0.00              -              -                             -
INFO 2025-10-21 18:44:55,698 calibrate.py _nudge_pos():1806 [1]   126:        0.130    0.0047595   -0.0001452     34577    115.25          6.136         -0.233 2024-03-20T18:22:47.208718592
INFO 2025-10-21 18:44:56,774 calibrate.py _nudge_pos():1806 [1]   214:        0.160    0.0004875   -0.0006961      2510      8.36          8.660        -15.423 2024-03-20T18:32:37.208300800
INFO 2025-10-21 18:44:57,951 calibrate.py _nudge_pos():1806 [1]   320:        0.110    0.0027214    0.0033444     37533    125.11          3.232          4.954 2024-03-20T20:39:28.816869888
INFO 2025-10-21 18:44:58,256 calibrate.py _nudge_pos():1806 [1]   342:        0.160   -0.0000567   -0.0002616      3525     11.75         -0.717         -4.127 2024-03-20T20:51:34.817135616
INFO 2025-10-21 18:44:59,500 calibrate.py _nudge_pos():1806 [1]   430:        0.200   -0.0001423   -0.0000584      1930      6.43         -3.287         -1.682 2024-03-20T20:59:27.814733056
INFO 2025-10-21 18:45:00,724 calibrate.py _nudge_pos():1806 [1]   519:        0.060   -0.0001867   -0.0002617      1840      6.13         -4.524         -7.909 2024-03-20T21:07:04.013481216
INFO 2025-10-21 18:45:01,836 calibrate.py _nudge_pos():1806 [1]   605:        0.100   -0.0000849    0.0033318     33231    110.77         -0.114          5.573 2024-03-20T22:59:15.412348672
INFO 2025-10-21 18:45:02,493 calibrate.py _nudge_pos():1806 [1]   652:        0.170   -0.0002946   -0.0004413      2895      9.65         -4.537         -8.477 2024-03-20T23:09:41.409465088
INFO 2025-10-21 18:45:02,665 calibrate.py _nudge_pos():1806 [1]   664:        0.090    0.0044439    0.0033518     37197    123.99          5.325          5.009 2024-03-21T01:13:53.008995584
INFO 2025-10-21 18:45:05,118 calibrate.py _nudge_pos():1806 [1]   849:        0.160    0.0005643   -0.0003485      2855      9.51          8.813         -6.789 2024-03-21T01:26:28.017273856
INFO 2025-10-21 18:45:05,639 calibrate.py _nudge_pos():1806 [1]   887:        0.180    0.0004892   -0.0003971      2010      6.70         10.855        -10.989 2024-03-21T01:33:47.017200384
INFO 2025-10-21 18:45:06,178 calibrate.py _nudge_pos():1806 [1]   925:        0.030    0.0004985   -0.0004033      1921      6.40         11.572        -11.676 2024-03-21T01:40:48.208346880
INFO 2025-10-21 18:45:07,060 calibrate.py _nudge_pos():1806 [1]   989:        0.100    0.0018724    0.0061893     18981     63.27          4.397         18.128 2024-03-21T02:45:07.413972992
INFO 2025-10-21 18:45:07,874 calibrate.py _nudge_pos():1806 [1]  1055:        0.100    0.0022110    0.0021055     14286     47.62          6.899          8.193 2024-03-21T03:33:49.613788672
INFO 2025-10-21 18:45:08,924 calibrate.py _nudge_pos():1806 [1]  1127:        0.150   -0.0001495   -0.0003103       305      1.01        -21.919        -56.735 2024-03-21T03:36:01.614746112
INFO 2025-10-21 18:45:09,755 calibrate.py _nudge_pos():1806 [1]  1184:        0.180    0.0003032   -0.0001297      2820      9.40          4.795         -2.557 2024-03-21T03:46:21.612273152
INFO 2025-10-21 18:45:09,813 calibrate.py _nudge_pos():1806 [1]  1188:        0.190    0.0000660   -0.0001494        85      0.28         35.016        -98.902 2024-03-21T03:46:41.610903296
INFO 2025-10-21 18:45:09,927 calibrate.py _nudge_pos():1806 [1]  1196:        0.170    0.0000477   -0.0000133        35      0.11         62.495        -21.742 2024-03-21T03:46:55.609944320
INFO 2025-10-21 18:45:10,398 calibrate.py _nudge_pos():1806 [1]  1231:        0.160    0.0000625   -0.0003268       335      1.11          8.336        -54.394 2024-03-21T03:48:36.613025280
INFO 2025-10-21 18:45:10,928 calibrate.py _nudge_pos():1806 [1]  1268:        0.020    0.0006483    0.0000009      2251      7.50         12.843          0.021 2024-03-21T03:56:42.809718272
INFO 2025-10-21 18:45:12,063 calibrate.py _nudge_pos():1806 [1]  1341:        0.030    0.0004135   -0.0003795      1515      5.05         12.174        -13.934 2024-03-21T04:02:57.814028800
INFO 2025-10-21 18:45:13,689 calibrate.py _nudge_pos():1806 [1]  1458:        0.090    0.0003841   -0.0001885      1960      6.53          8.739         -5.348 2024-03-21T04:11:25.809228544
INFO 2025-10-21 18:45:14,571 calibrate.py _nudge_pos():1806 [1]  1522:        0.090    0.0004150   -0.0001541      1730      5.76         10.700         -4.955 2024-03-21T04:18:14.811210240
INFO 2025-10-21 18:46:23,158 calibrate.py _nudge_pos():1806 [1]  6278:        0.180    0.0077932    0.0009031     10460     34.86         33.212          4.800 2024-03-21T06:12:23.212062720
INFO 2025-10-21 18:46:25,262 calibrate.py _nudge_pos():1806 [1]  6408:        0.070    0.0014130    0.0007988      5235     17.45         12.033          8.484 2024-03-21T06:31:59.411487232
INFO 2025-10-21 18:46:26,495 calibrate.py _nudge_pos():1806 [1]  6491:        0.160    0.0054654    0.0032306     33706    112.35          7.227          5.328 2024-03-21T08:25:42.814052352
INFO 2025-10-21 18:46:26,777 calibrate.py _nudge_pos():1806 [1]  6514:        0.160    0.0000445    0.0000457        35      0.11         58.387         74.669 2024-03-21T08:26:11.812065792
INFO 2025-10-21 18:46:27,091 calibrate.py _nudge_pos():1806 [1]  6536:        0.040    0.0001380   -0.0004794      3716     12.38          1.655         -7.174 2024-03-21T08:38:56.009714688
INFO 2025-10-21 18:46:27,897 calibrate.py _nudge_pos():1806 [1]  6594:        0.150    0.0010025    0.0025004     37227    124.09          1.200          3.734 2024-03-21T10:43:58.415764480
INFO 2025-10-21 18:46:31,547 calibrate.py _nudge_pos():1806 [1]  6825:        0.040   -0.0000201   -0.0000635      3831     12.77         -0.233         -0.922 2024-03-21T11:00:34.617520128
INFO 2025-10-21 18:46:31,843 calibrate.py _nudge_pos():1806 [1]  6843:        0.070    0.0003022   -0.0002198      1979      6.60          6.808         -6.174 2024-03-21T11:07:27.609228288
INFO 2025-10-21 18:46:32,273 calibrate.py _nudge_pos():1806 [1]  6868:        0.110    0.0002485   -0.0000047      1910      6.36          5.802         -0.137 2024-03-21T11:14:14.611346688
INFO 2025-10-21 18:46:33,374 calibrate.py _nudge_pos():1806 [1]  6933:        0.010    0.0001846    0.0034315     33868    112.89          0.243          5.633 2024-03-21T13:08:13.212870400
INFO 2025-10-21 18:46:44,274 calibrate.py _nudge_pos():1806 [1]  7622:        0.170    0.0007923   -0.0009196      9725     32.41          3.632         -5.257 2024-03-21T13:52:07.212429056
INFO 2025-10-21 18:46:45,306 calibrate.py _nudge_pos():1806 [1]  7687:        0.100   -0.0000700   -0.0012236      8841     29.47         -0.353         -7.695 2024-03-21T14:22:39.416914432
INFO 2025-10-21 18:47:46,162 calibrate.py _nudge_pos():1862 [1] 11641:            -            -            -         4      0.01              -              -
INFO 2025-10-21 18:47:46,162 calibrate.py _nudge_pos():1868 [1] Points in final series = 414229
INFO 2025-10-21 18:48:33,150 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 2510 on port side
INFO 2025-10-21 18:48:33,152 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "2510" 
INFO 2025-10-21 18:48:33,417 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2013_Jan 2014_sep 2016_Jan 2018_apr 2019_Jun 2022_Jun 2025_Jan
WARNING 2025-10-21 18:48:33,422 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2013_Jan
INFO 2025-10-21 18:48:33,422 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,428 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2014_sep
INFO 2025-10-21 18:48:33,428 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,434 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2016_Jan
INFO 2025-10-21 18:48:33,434 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,440 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2018_apr
INFO 2025-10-21 18:48:33,440 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,447 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2019_Jun
INFO 2025-10-21 18:48:33,447 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,453 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2022_Jun
INFO 2025-10-21 18:48:33,453 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:33,459 calibrate.py _cal_date_xml_files():1081 [1] Found 8 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2025_Jan
INFO 2025-10-21 18:48:33,459 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
INFO 2025-10-21 18:48:33,467 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2025_Jan/Oxygen_SBE43_2510.xml has CalibrationDate 2024-12-24 00:00:00+00:00
INFO 2025-10-21 18:48:33,468 calibrate.py _read_oxy_coeffs():1253 [1] Breaking from loop as /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2025_Jan/Oxygen_SBE43_2510.xml is after 2024.080.06 with mission_start=2024-03-20T16:26:46.645549824
INFO 2025-10-21 18:48:33,468 calibrate.py _read_oxy_coeffs():1270 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2025_Jan/Oxygen_SBE43_2510.xml is the first calibration file, but is after 2024.080.06 with mission_start=2024-03-20T16:26:46.645549824
INFO 2025-10-21 18:48:48,788 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_port: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2510/2025_Jan/Oxygen_SBE43_2510.xml file: {'Soc': 0.58626, 'offset': -0.517, 'A': -0.0038384, 'B': 0.00019113, 'C': -3.1968e-06, 'D0': 2.5826, 'D1': 0.000192634, 'D2': -0.0464803, 'E': 0.036, 'Tau20': 1.65, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0}
INFO 2025-10-21 18:48:48,798 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 3968 on stbd side
INFO 2025-10-21 18:48:48,798 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "3968" 
INFO 2025-10-21 18:48:48,989 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2020_Jul 2025_Jan
WARNING 2025-10-21 18:48:48,994 calibrate.py _cal_date_xml_files():1081 [1] Found 3 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3968/2020_Jul
INFO 2025-10-21 18:48:48,994 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 18:48:48,998 calibrate.py _cal_date_xml_files():1081 [1] Found 3 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3968/2025_Jan
INFO 2025-10-21 18:48:48,998 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
INFO 2025-10-21 18:48:49,006 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3968/2020_Jul/SBE43_3968.xml has CalibrationDate 2020-06-16 00:00:00+00:00
INFO 2025-10-21 18:48:49,006 calibrate.py _read_oxy_coeffs():1263 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3968/2020_Jul/SBE43_3968.xml is just before 2024.080.06 with mission_start=2024-03-20T16:26:46.645549824
INFO 2025-10-21 18:49:03,819 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_stbd: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3968/2020_Jul/SBE43_3968.xml file: {'Soc': 0.43332, 'offset': -0.5106, 'A': -0.0037655, 'B': 0.00018802, 'C': -3.038e-06, 'D0': 2.5826, 'D1': 0.000192634, 'D2': -0.0464803, 'E': 0.036, 'Tau20': 1.54, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0}
INFO 2025-10-21 18:49:25,602 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 66 seconds, d_end_time_diff: 0 seconds
INFO 2025-10-21 18:49:32,105 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 66 seconds, d_end_time_diff: 0 seconds
INFO 2025-10-21 18:49:32,113 calibrate.py _ctd_process():2919 [1] Performing range checking of ['seabird25p_salinity'] in 2024.080.06/seabird25p.nc
WARNING 2025-10-21 18:49:32,117 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (5596) seabird25p_salinity values found outside of range. This may indicate a problem with the seabird25p data.
INFO 2025-10-21 18:49:32,117 calibrate.py _range_qc_combined_nc():898 [1] Setting 5596 seabird25p_salinity values to NaN
INFO 2025-10-21 18:49:32,117 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 18:49:32,117 calibrate.py _range_qc_combined_nc():936 [1] Done range checking seabird25p
INFO 2025-10-21 18:49:32,467 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_cal.nc
INFO 2025-10-21 18:50:48,919 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_par, seabird25p_salinity, seabird25p_salinity_onboard, seabird25p_temperature, seabird25p_temperature_onboard, seabird25p_time, tailcone_propRpm, tailcone_time, time
INFO 2025-10-21 18:50:48,928 process.py align():251 [1] Alignment steps for 2024.080.06
INFO 2025-10-21 18:50:48,990 align.py process_cal():139 [1] Processing i2map_2024.080.06_cal.nc from /data/auv_data/i2map/missionnetcdfs/2024.080.06
INFO 2025-10-21 18:50:49,158 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 18:50:49,173 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 18:50:49,576 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 18:50:49,604 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 18:50:50,000 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 18:50:50,019 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 18:50:50,208 align.py process_cal():161 [1] Skipping navigation_posx
INFO 2025-10-21 18:50:50,208 align.py process_cal():161 [1] Skipping navigation_posy
INFO 2025-10-21 18:50:50,334 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 18:50:50,353 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 18:50:50,715 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:50,747 align.py process_cal():249 [1] seabird25p_temperature: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:51,324 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:51,364 align.py process_cal():249 [1] seabird25p_conductivity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:51,876 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:51,913 align.py process_cal():249 [1] seabird25p_salinity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:52,468 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:52,506 align.py process_cal():249 [1] seabird25p_temperature_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:53,019 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:53,052 align.py process_cal():249 [1] seabird25p_conductivity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:53,613 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:53,650 align.py process_cal():249 [1] seabird25p_salinity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:54,155 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:54,184 align.py process_cal():249 [1] seabird25p_dissolvedO2_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:54,703 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:54,738 align.py process_cal():249 [1] seabird25p_oxygen_mll_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:55,257 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:55,288 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:55,777 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:55,819 align.py process_cal():249 [1] seabird25p_dissolvedO2_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:56,343 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:56,373 align.py process_cal():249 [1] seabird25p_oxygen_mll_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:56,851 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:56,879 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:57,312 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:57,337 align.py process_cal():249 [1] seabird25p_beam_transmittance: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:57,824 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:57,852 align.py process_cal():249 [1] seabird25p_depth: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:58,345 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2024.080.06_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 18:50:58,375 align.py process_cal():249 [1] seabird25p_par: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 18:50:58,916 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 18:50:59,129 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_align.nc
INFO 2025-10-21 18:50:59,342 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_par, 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 18:50:59,351 process.py resample():273 [1] Resampling steps for 2024.080.06
INFO 2025-10-21 18:50:59,353 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m
INFO 2025-10-21 18:50:59,390 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_align.nc mission netCDF file
INFO 2025-10-21 18:50:59,400 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_align.nc mission netCDF file
INFO 2025-10-21 18:50:59,404 resample.py get_mission_start_end():1145 [1] navigation: 2024-03-20T16:26:16.847591168 to 2024-03-21T15:29:23.612608512 (0 days 00:00:00.079994368 before mission_end)
INFO 2025-10-21 18:50:59,410 resample.py get_mission_start_end():1145 [1] seabird25p: 2024-03-20T16:26:46.645549824 to 2024-03-21T15:29:23.692602880 (0 days 00:00:00 before mission_end)
INFO 2025-10-21 18:50:59,415 resample.py get_mission_start_end():1145 [1] tailcone  : 2024-03-20T16:25:35.860399104 to 2024-03-21T15:29:08.053674240 (0 days 00:00:15.638928640 before mission_end)
INFO 2025-10-21 18:50:59,416 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_align.nc mission netCDF file
INFO 2025-10-21 18:50:59,417 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter 
INFO 2025-10-21 18:51:01,040 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:01,204 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:01,360 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:01,519 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:01,783 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:02,060 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:02,372 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:02,652 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:02,938 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:03,239 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:03,539 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_port with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:03,838 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_port with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:04,135 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_port with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:04,416 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:04,720 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:05,015 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:05,317 resample.py resample_variable():1031 [1] Resampling seabird25p_beam_transmittance with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:05,581 resample.py resample_variable():1031 [1] Resampling seabird25p_par with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:05,740 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter
INFO 2025-10-21 18:51:06,502 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_1S.nc
INFO 2025-10-21 18:51:06,511 process.py archive():337 [1] Archiving steps for 2024.080.06
INFO 2025-10-21 18:51:06,511 process.py archive():347 [1] nc_file_base = /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06, BASE_PATH = /data/auv_data
INFO 2025-10-21 18:51:06,513 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06 files to /Volumes/AUVCTD/surveys/2024/netcdf
INFO 2025-10-21 18:51:06,516 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2024/netcdf/i2map_2024.080.06_1S.nc
INFO 2025-10-21 18:51:06,563 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_1S.nc /Volumes/AUVCTD/surveys/2024/netcdf done.
INFO 2025-10-21 18:51:06,565 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2024/netcdf/i2map_2024.080.06_cal.nc
INFO 2025-10-21 18:51:06,985 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_cal.nc /Volumes/AUVCTD/surveys/2024/netcdf done.
INFO 2025-10-21 18:51:06,986 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2024/netcdf/i2map_2024.080.06_align.nc
INFO 2025-10-21 18:51:07,398 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_align.nc /Volumes/AUVCTD/surveys/2024/netcdf done.
INFO 2025-10-21 18:51:07,412 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/gps.nc /Volumes/AUVCTD/missionnetcdfs/2024/2024080/2024.080.06 done.
INFO 2025-10-21 18:51:07,855 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2024/2024080/2024.080.06 done.
INFO 2025-10-21 18:51:08,001 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2024/2024080/2024.080.06 done.
INFO 2025-10-21 18:51:08,246 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/seabird25p.nc /Volumes/AUVCTD/missionnetcdfs/2024/2024080/2024.080.06 done.
INFO 2025-10-21 18:51:08,337 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2024/2024080/2024.080.06 done.
INFO 2025-10-21 18:51:08,338 archive.py copy_to_AUVTCD():116 [1] Archiving product files
INFO 2025-10-21 18:51:08,338 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2024.080.06/i2map_2024.080.06_processing.log /Volumes/AUVCTD/surveys/2024/netcdf