INFO 2025-10-21 17:37:26,182 process.py process_mission():429 [1] commandline = /src/data/process_i2map.py -v --noinput --start_year 2022 --end_year 2022 --start_yd 1 --end_yd 365 --num_cores 1 --clobber
INFO 2025-10-21 17:37:26,182 process.py process_mission():449 [1] Processing i2map mission 2022.152.01 by user docker_user on host cb88459c7ecc
INFO 2025-10-21 17:37:26,182 process.py download_process():165 [1] Download and processing steps for 2022.152.01
INFO 2025-10-21 17:37:26,182 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/M3/master/i2MAP/2022/06/20220601/2022.152.01
INFO 2025-10-21 17:37:26,184 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/M3/master/i2MAP/2022/06/20220601/2022.152.01 to /data/auv_data/i2map/missionlogs/2022.152.01
INFO 2025-10-21 17:37:28,460 logs2netcdfs.py download_process_logs():779 [1] Processing mission: i2map 2022.152.01
INFO 2025-10-21 17:37:28,460 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2022.152.01/gps.log (570380 bytes)
INFO 2025-10-21 17:37:28,541 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2022.152.01/navigation.log (142125944 bytes)
INFO 2025-10-21 17:37:39,805 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2022.152.01/parosci.log (39949382 bytes)
INFO 2025-10-21 17:37:43,142 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2022.152.01/seabird25p.log (80206688 bytes)
INFO 2025-10-21 17:37:48,568 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2022.152.01/seabird25p.log: [     1 130664]
INFO 2025-10-21 17:37:48,870 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2022.152.01/tailCone.log (20070923 bytes)
WARNING 2025-10-21 17:37:50,772 logs2netcdfs.py _create_variable():536 [1] rudderCurrent: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:50,773 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of rudderCurrent.shape[0] (418134)
WARNING 2025-10-21 17:37:50,773 logs2netcdfs.py _create_variable():544 [1] rudderCurrent data is short by one, appending the last value: 0
WARNING 2025-10-21 17:37:50,817 logs2netcdfs.py _create_variable():536 [1] propCurrent1: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:50,818 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of propCurrent1.shape[0] (418134)
WARNING 2025-10-21 17:37:50,818 logs2netcdfs.py _create_variable():544 [1] propCurrent1 data is short by one, appending the last value: 0.0
WARNING 2025-10-21 17:37:50,863 logs2netcdfs.py _create_variable():536 [1] propCurrent2: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:50,863 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of propCurrent2.shape[0] (418134)
WARNING 2025-10-21 17:37:50,863 logs2netcdfs.py _create_variable():544 [1] propCurrent2 data is short by one, appending the last value: 0
WARNING 2025-10-21 17:37:50,906 logs2netcdfs.py _create_variable():536 [1] propRpm: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:50,907 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of propRpm.shape[0] (418134)
WARNING 2025-10-21 17:37:50,907 logs2netcdfs.py _create_variable():544 [1] propRpm data is short by one, appending the last value: 0
WARNING 2025-10-21 17:37:50,967 logs2netcdfs.py _create_variable():536 [1] elevatorAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:50,967 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of elevatorAngle.shape[0] (418134)
WARNING 2025-10-21 17:37:50,967 logs2netcdfs.py _create_variable():544 [1] elevatorAngle data is short by one, appending the last value: 0.07948967814445496
WARNING 2025-10-21 17:37:51,029 logs2netcdfs.py _create_variable():536 [1] rudderAngle: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:51,029 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of rudderAngle.shape[0] (418134)
WARNING 2025-10-21 17:37:51,029 logs2netcdfs.py _create_variable():544 [1] rudderAngle data is short by one, appending the last value: 0.17032304406166077
WARNING 2025-10-21 17:37:51,074 logs2netcdfs.py _create_variable():536 [1] propPwm: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:51,074 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of propPwm.shape[0] (418134)
WARNING 2025-10-21 17:37:51,074 logs2netcdfs.py _create_variable():544 [1] propPwm data is short by one, appending the last value: 0
WARNING 2025-10-21 17:37:51,101 logs2netcdfs.py _create_variable():536 [1] propTemp: shape mismatch: objects cannot be broadcast to a single shape.  Mismatch is between arg 0 with shape (418134,) and arg 1 with shape (418133,).
INFO 2025-10-21 17:37:51,102 logs2netcdfs.py _create_variable():537 [1] len(data) (418133) does not match shape of propTemp.shape[0] (418134)
WARNING 2025-10-21 17:37:51,102 logs2netcdfs.py _create_variable():544 [1] propTemp data is short by one, appending the last value: 0
INFO 2025-10-21 17:37:51,666 logs2netcdfs.py download_process_logs():807 [1] Time to process: 23.21 seconds
INFO 2025-10-21 17:37:51,667 process.py calibrate():227 [1] Calibration steps for 2022.152.01
INFO 2025-10-21 17:37:52,234 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 17:37:52,236 calibrate.py _nudge_pos():1711 [1]                   -            -            -         0      0.00              -              -                             -
INFO 2025-10-21 17:37:53,959 calibrate.py _nudge_pos():1806 [1]   189:        0.140    0.0043013   -0.0026005     33847    112.82          5.665         -4.271 2022-06-01T18:18:33.802732032
INFO 2025-10-21 17:37:55,226 calibrate.py _nudge_pos():1806 [1]   304:        0.180   -0.0000031   -0.0008358      2615      8.71         -0.053        -17.774 2022-06-01T18:29:11.809025536
INFO 2025-10-21 17:37:55,576 calibrate.py _nudge_pos():1806 [1]   336:        0.100    0.0047611    0.0043168     35553    118.51          5.969          6.750 2022-06-01T20:28:13.409792512
INFO 2025-10-21 17:37:56,626 calibrate.py _nudge_pos():1806 [1]   430:        0.160   -0.0008113   -0.0010650      3280     10.93        -11.029        -18.055 2022-06-01T20:40:42.408482560
INFO 2025-10-21 17:37:56,649 calibrate.py _nudge_pos():1806 [1]   432:        0.180    0.0000057   -0.0001419        70      0.23          3.693       -114.361 2022-06-01T20:40:57.407454976
INFO 2025-10-21 17:37:57,505 calibrate.py _nudge_pos():1806 [1]   508:        0.190    0.0001222   -0.0006287      1445      4.81          3.772        -24.202 2022-06-01T20:47:01.402519808
INFO 2025-10-21 17:37:58,077 calibrate.py _nudge_pos():1806 [1]   559:        0.020    0.0000376   -0.0006494      1661      5.53          1.008        -21.747 2022-06-01T20:53:23.606336768
INFO 2025-10-21 17:37:58,784 calibrate.py _nudge_pos():1806 [1]   617:        0.090    0.0013764    0.0022953     31896    106.32          1.923          4.000 2022-06-01T22:40:40.005413376
INFO 2025-10-21 17:37:59,494 calibrate.py _nudge_pos():1806 [1]   679:        0.120   -0.0001696   -0.0008723      2395      7.98         -3.158        -20.255 2022-06-01T22:49:40.008420608
INFO 2025-10-21 17:38:00,842 calibrate.py _nudge_pos():1806 [1]   800:        0.080    0.0026154    0.0045608     36498    121.66          3.194          6.947 2022-06-02T00:53:19.600143616
INFO 2025-10-21 17:38:01,804 calibrate.py _nudge_pos():1806 [1]   882:        0.120    0.0002480   -0.0006819      3500     11.66          3.160        -10.834 2022-06-02T01:06:20.606641152
INFO 2025-10-21 17:38:02,327 calibrate.py _nudge_pos():1806 [1]   925:        0.180    0.0004845   -0.0005224      1725      5.75         12.527        -16.844 2022-06-02T01:12:47.600130304
INFO 2025-10-21 17:38:03,100 calibrate.py _nudge_pos():1806 [1]   993:        0.010    0.0003567   -0.0004478      1791      5.97          8.882        -13.906 2022-06-02T01:19:52.801001984
INFO 2025-10-21 17:38:03,205 calibrate.py _nudge_pos():1806 [1]  1002:        0.010    0.0000592   -0.0000230        76      0.25         35.154        -17.002 2022-06-02T01:20:15.809425920
INFO 2025-10-21 17:38:04,265 calibrate.py _nudge_pos():1806 [1]  1095:        0.050    0.0029461    0.0047987     18022     60.07          7.286         14.803 2022-06-02T02:21:52.006219008
INFO 2025-10-21 17:38:04,928 calibrate.py _nudge_pos():1806 [1]  1150:        0.080    0.0035965   -0.0005905     14281     47.60         11.226         -2.299 2022-06-02T03:10:22.206856704
INFO 2025-10-21 17:38:06,101 calibrate.py _nudge_pos():1806 [1]  1252:        0.140    0.0027046    0.0024727     17496     58.32          6.890          7.857 2022-06-02T04:10:22.400226560
INFO 2025-10-21 17:38:06,739 calibrate.py _nudge_pos():1806 [1]  1307:        0.150    0.0017230   -0.0024543     14261     47.53          5.386         -9.568 2022-06-02T04:58:49.601069568
INFO 2025-10-21 17:38:08,129 calibrate.py _nudge_pos():1806 [1]  1424:        0.190   -0.0000313   -0.0001885       265      0.88         -5.284        -39.680 2022-06-02T05:01:39.609423104
INFO 2025-10-21 17:38:08,989 calibrate.py _nudge_pos():1806 [1]  1496:        0.010    0.0012783   -0.0006374      3371     11.23         16.907        -10.515 2022-06-02T05:14:04.808373760
INFO 2025-10-21 17:38:09,917 calibrate.py _nudge_pos():1806 [1]  1574:        0.040    0.0005662   -0.0003254      1820      6.06         13.875         -9.943 2022-06-02T05:21:25.808162816
INFO 2025-10-21 17:38:11,449 calibrate.py _nudge_pos():1806 [1]  1704:        0.140    0.0004333   -0.0003013      2100      7.00          9.201         -7.981 2022-06-02T05:30:34.800554496
INFO 2025-10-21 17:38:12,536 calibrate.py _nudge_pos():1806 [1]  1795:        0.150    0.0002259   -0.0002909      1880      6.26          5.359         -8.607 2022-06-02T05:38:20.808630784
INFO 2025-10-21 17:38:50,425 calibrate.py _nudge_pos():1806 [1]  4992:        0.160   -0.0000090    0.0000146        20      0.06        -21.216         42.777 2022-06-02T06:31:41.009402112
INFO 2025-10-21 17:39:04,984 calibrate.py _nudge_pos():1806 [1]  6218:        0.150    0.0058931    0.0004136      7515     25.05         34.957          3.060 2022-06-02T07:17:09.202508032
INFO 2025-10-21 17:39:05,472 calibrate.py _nudge_pos():1806 [1]  6259:        0.190    0.0008233    0.0001612      3915     13.05          9.375          2.290 2022-06-02T07:30:52.206128384
INFO 2025-10-21 17:39:05,736 calibrate.py _nudge_pos():1806 [1]  6280:        0.010    0.0000175   -0.0000452        81      0.27          9.776        -31.434 2022-06-02T07:31:28.403648512
INFO 2025-10-21 17:39:05,948 calibrate.py _nudge_pos():1806 [1]  6297:        0.140    0.0050199    0.0045612     32452    108.17          6.894          7.813 2022-06-02T09:19:54.807929600
INFO 2025-10-21 17:39:08,349 calibrate.py _nudge_pos():1806 [1]  6496:        0.180   -0.0002771   -0.0015339      4620     15.40         -2.674        -18.461 2022-06-02T09:38:36.801067520
INFO 2025-10-21 17:39:09,325 calibrate.py _nudge_pos():1806 [1]  6577:        0.100    0.0008591    0.0032330     35853    119.51          1.068          5.013 2022-06-02T11:39:27.404367104
INFO 2025-10-21 17:39:11,371 calibrate.py _nudge_pos():1806 [1]  6745:        0.170   -0.0003538   -0.0012637      3410     11.36         -4.626        -20.606 2022-06-02T11:53:36.406206720
INFO 2025-10-21 17:39:12,278 calibrate.py _nudge_pos():1806 [1]  6820:        0.180    0.0002669   -0.0006228      1645      5.48          7.237        -21.059 2022-06-02T12:00:19.408599040
INFO 2025-10-21 17:39:12,662 calibrate.py _nudge_pos():1806 [1]  6851:        0.040   -0.0001867   -0.0003657      1821      6.07         -4.574        -11.170 2022-06-02T12:06:53.601594880
INFO 2025-10-21 17:39:13,542 calibrate.py _nudge_pos():1806 [1]  6923:        0.190    0.0023702    0.0010822     32207    107.35          3.280          1.868 2022-06-02T13:55:26.005464832
INFO 2025-10-21 17:39:18,545 calibrate.py _nudge_pos():1806 [1]  7324:        0.030   -0.0011755   -0.0032992      9686     32.28         -5.410        -18.937 2022-06-02T14:34:23.205355520
INFO 2025-10-21 17:39:19,359 calibrate.py _nudge_pos():1806 [1]  7390:        0.200   -0.0011183   -0.0025214      9580     31.93         -5.204        -14.633 2022-06-02T15:07:24.209647616
INFO 2025-10-21 17:39:23,689 calibrate.py _nudge_pos():1806 [1]  7741:        0.060    0.0003147   -0.0004752      2415      8.05          5.812        -10.944 2022-06-02T15:21:17.402569984
INFO 2025-10-21 17:39:24,503 calibrate.py _nudge_pos():1806 [1]  7807:        0.100   -0.0000699   -0.0002699      2020      6.73         -1.542         -7.432 2022-06-02T15:29:06.400441344
INFO 2025-10-21 17:39:25,094 calibrate.py _nudge_pos():1806 [1]  7855:        0.140   -0.0001638   -0.0002498      1750      5.83         -4.176         -7.939 2022-06-02T15:35:43.403244800
INFO 2025-10-21 17:39:25,776 calibrate.py _nudge_pos():1862 [1] 7872:            -            -            -         2      0.00              -              -
INFO 2025-10-21 17:39:25,776 calibrate.py _nudge_pos():1868 [1] Points in final series = 417644
INFO 2025-10-21 17:40:02,223 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 143 on port side
INFO 2025-10-21 17:40:02,225 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "143" 
INFO 2025-10-21 17:40:02,601 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 17:40:02,607 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 17:40:02,607 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,612 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 17:40:02,612 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,618 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 17:40:02,618 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,624 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 17:40:02,624 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,631 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 17:40:02,631 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,636 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 17:40:02,637 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,644 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 17:40:02,644 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,650 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 17:40:02,650 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:02,656 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 17:40:02,656 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
INFO 2025-10-21 17:40:02,664 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 17:40:02,664 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 2022.152.01 with mission_start=2022-06-01T16:23:11.906914560
INFO 2025-10-21 17:40:14,416 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_port: 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 17:40:14,423 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 3968 on stbd side
INFO 2025-10-21 17:40:14,424 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "3968" 
INFO 2025-10-21 17:40:14,785 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2020_Jul 2025_Jan
WARNING 2025-10-21 17:40:14,789 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 17:40:14,789 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
WARNING 2025-10-21 17:40:14,793 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 17:40:14,793 calibrate.py _cal_date_xml_files():1087 [1] {xml_files}
INFO 2025-10-21 17:40:14,799 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 17:40:14,800 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 2022.152.01 with mission_start=2022-06-01T16:23:11.906914560
INFO 2025-10-21 17:40:26,531 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 17:40:42,861 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds
INFO 2025-10-21 17:40:47,541 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 21 seconds, d_end_time_diff: -1 seconds
INFO 2025-10-21 17:40:47,549 calibrate.py _ctd_process():2919 [1] Performing range checking of ['seabird25p_salinity'] in 2022.152.01/seabird25p.nc
WARNING 2025-10-21 17:40:47,552 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (1467) seabird25p_salinity values found outside of range. This may indicate a problem with the seabird25p data.
INFO 2025-10-21 17:40:47,553 calibrate.py _range_qc_combined_nc():898 [1] Setting 1467 seabird25p_salinity values to NaN
INFO 2025-10-21 17:40:47,553 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 17:40:47,553 calibrate.py _range_qc_combined_nc():936 [1] Done range checking seabird25p
INFO 2025-10-21 17:40:47,870 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_cal.nc
INFO 2025-10-21 17:41:46,564 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 17:41:46,569 process.py align():251 [1] Alignment steps for 2022.152.01
INFO 2025-10-21 17:41:46,610 align.py process_cal():139 [1] Processing i2map_2022.152.01_cal.nc from /data/auv_data/i2map/missionnetcdfs/2022.152.01
INFO 2025-10-21 17:41:46,719 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 17:41:46,730 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 17:41:46,992 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 17:41:47,007 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 17:41:47,270 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 17:41:47,289 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 17:41:47,445 align.py process_cal():161 [1] Skipping navigation_posx
INFO 2025-10-21 17:41:47,446 align.py process_cal():161 [1] Skipping navigation_posy
INFO 2025-10-21 17:41:47,550 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc
INFO 2025-10-21 17:41:47,564 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 17:41:47,849 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:47,871 align.py process_cal():249 [1] seabird25p_temperature: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:48,245 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:48,269 align.py process_cal():249 [1] seabird25p_conductivity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:48,642 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:48,664 align.py process_cal():249 [1] seabird25p_salinity: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:49,038 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:49,062 align.py process_cal():249 [1] seabird25p_temperature_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:49,446 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:49,469 align.py process_cal():249 [1] seabird25p_conductivity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:49,843 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:49,869 align.py process_cal():249 [1] seabird25p_salinity_onboard: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:50,241 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:50,263 align.py process_cal():249 [1] seabird25p_dissolvedO2_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:50,637 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:50,660 align.py process_cal():249 [1] seabird25p_oxygen_mll_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:51,033 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:51,055 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_port: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:51,429 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:51,457 align.py process_cal():249 [1] seabird25p_dissolvedO2_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:51,829 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:51,849 align.py process_cal():249 [1] seabird25p_oxygen_mll_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:52,221 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:52,243 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_stbd: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:52,616 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:52,637 align.py process_cal():249 [1] seabird25p_beam_transmittance: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:53,008 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:53,029 align.py process_cal():249 [1] seabird25p_depth: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:53,401 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2022.152.01_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0)
INFO 2025-10-21 17:41:53,429 align.py process_cal():249 [1] seabird25p_par: instrument_sample_rate_hz = 7.99
INFO 2025-10-21 17:41:53,837 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00
INFO 2025-10-21 17:41:54,008 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_align.nc
INFO 2025-10-21 17:41:54,169 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 17:41:54,170 process.py resample():273 [1] Resampling steps for 2022.152.01
INFO 2025-10-21 17:41:54,171 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m
INFO 2025-10-21 17:41:54,198 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_align.nc mission netCDF file
INFO 2025-10-21 17:41:54,208 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_align.nc mission netCDF file
INFO 2025-10-21 17:41:54,211 resample.py get_mission_start_end():1145 [1] navigation: 2022-06-01T16:23:15.026700800 to 2022-06-02T15:36:37.809517568 (0 days 00:00:00 before mission_end)
INFO 2025-10-21 17:41:54,217 resample.py get_mission_start_end():1145 [1] seabird25p: 2022-06-01T16:23:11.906914560 to 2022-06-02T15:36:37.769520640 (0 days 00:00:00.039996928 before mission_end)
INFO 2025-10-21 17:41:54,222 resample.py get_mission_start_end():1145 [1] tailcone  : 2022-06-01T16:22:44.678779648 to 2022-06-02T15:36:31.209969664 (0 days 00:00:06.599547904 before mission_end)
INFO 2025-10-21 17:41:54,223 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_align.nc mission netCDF file
INFO 2025-10-21 17:41:54,223 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter 
INFO 2025-10-21 17:41:55,448 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:55,583 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:55,741 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:55,866 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:56,060 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:56,257 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:56,469 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:56,662 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:56,856 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:57,057 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity_onboard with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:57,261 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_port with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:57,468 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_port with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:57,678 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_port with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:57,892 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:58,107 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:58,321 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_stbd with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:58,535 resample.py resample_variable():1031 [1] Resampling seabird25p_beam_transmittance with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:58,740 resample.py resample_variable():1031 [1] Resampling seabird25p_par with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:58,875 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter
INFO 2025-10-21 17:41:59,398 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_1S.nc
INFO 2025-10-21 17:41:59,401 process.py archive():337 [1] Archiving steps for 2022.152.01
INFO 2025-10-21 17:41:59,402 process.py archive():347 [1] nc_file_base = /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01, BASE_PATH = /data/auv_data
INFO 2025-10-21 17:41:59,403 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01 files to /Volumes/AUVCTD/surveys/2022/netcdf
INFO 2025-10-21 17:41:59,404 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2022/netcdf/i2map_2022.152.01_1S.nc
INFO 2025-10-21 17:41:59,453 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_1S.nc /Volumes/AUVCTD/surveys/2022/netcdf done.
INFO 2025-10-21 17:41:59,454 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2022/netcdf/i2map_2022.152.01_cal.nc
INFO 2025-10-21 17:41:59,834 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_cal.nc /Volumes/AUVCTD/surveys/2022/netcdf done.
INFO 2025-10-21 17:41:59,836 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2022/netcdf/i2map_2022.152.01_align.nc
INFO 2025-10-21 17:42:00,148 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_align.nc /Volumes/AUVCTD/surveys/2022/netcdf done.
INFO 2025-10-21 17:42:00,159 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2022/2022152/2022.152.01 done.
INFO 2025-10-21 17:42:00,497 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2022/2022152/2022.152.01 done.
INFO 2025-10-21 17:42:00,609 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2022/2022152/2022.152.01 done.
INFO 2025-10-21 17:42:00,808 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/seabird25p.nc /Volumes/AUVCTD/missionnetcdfs/2022/2022152/2022.152.01 done.
INFO 2025-10-21 17:42:00,884 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2022/2022152/2022.152.01 done.
INFO 2025-10-21 17:42:00,884 archive.py copy_to_AUVTCD():116 [1] Archiving product files
INFO 2025-10-21 17:42:00,884 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2022.152.01/i2map_2022.152.01_processing.log /Volumes/AUVCTD/surveys/2022/netcdf