INFO 2025-06-26 11:21:37,063 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 11:21:37,063 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Davidson Seamount - John Ryan - ctdToUse = ctd1 INFO 2025-06-26 11:21:37,063 process.py process_mission():449 [1] Processing AUVCTD mission 2006.137.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:21:37,063 process.py download_process():165 [1] Download and processing steps for 2006.137.00 INFO 2025-06-26 11:21:37,063 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006137/2006.137.00 INFO 2025-06-26 11:21:37,063 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006137/2006.137.00 to /data/auv_data/dorado/missionlogs/2006.137.00 INFO 2025-06-26 11:21:42,433 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.137.00 INFO 2025-06-26 11:21:42,433 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/ctdDriver.log (19644107 bytes) INFO 2025-06-26 11:21:43,931 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/ctdDriver2.log (19643485 bytes) INFO 2025-06-26 11:21:45,387 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/gps.log (110876 bytes) INFO 2025-06-26 11:21:45,407 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/hydroscatlog.log (13392734 bytes) INFO 2025-06-26 11:21:46,949 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.137.00/hydroscatlog.log: [ 42687 64021 64022 178607] INFO 2025-06-26 11:21:46,989 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/navigation.log (65849318 bytes) INFO 2025-06-26 11:21:51,803 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/isuslog.log (1206325 bytes) INFO 2025-06-26 11:21:51,924 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/parosci.log (28732214 bytes) INFO 2025-06-26 11:21:54,303 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.137.00/parosci.log: [ 1381 1382 20752 35857 35858 156028 156029 156030 505553 505554 549243 549244 549246 549247 549248 549249] INFO 2025-06-26 11:21:54,380 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/tailCone.log (13399003 bytes) INFO 2025-06-26 11:21:56,025 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.137.00/biolume.log (15190524 bytes) INFO 2025-06-26 11:21:57,461 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:21:58,232 logs2netcdfs.py download_process_logs():807 [1] Time to process: 15.80 seconds WARNING 2025-06-26 11:21:58,233 process.py download_process():196 [1] No lopc.bin file for 2006.137.00 INFO 2025-06-26 11:21:58,233 process.py calibrate():227 [1] Calibration steps for 2006.137.00 INFO 2025-06-26 11:21:58,673 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 2025-06-26 11:21:58,675 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:21:59,408 calibrate.py _nudge_pos():1806 [1] 87: 0.090 0.0066145 0.0005283 17865 59.55 16.616 1.644 2006-05-17T10:43:13.204299648 INFO 2025-06-26 11:21:59,994 calibrate.py _nudge_pos():1806 [1] 144: 0.100 0.0017926 -0.0014537 7690 25.63 10.464 -10.510 2006-05-17T11:09:47.205103104 INFO 2025-06-26 11:22:00,626 calibrate.py _nudge_pos():1806 [1] 204: 0.100 -0.0009485 -0.0054620 12753 42.51 -3.339 -23.807 2006-05-17T11:53:17.206305792 INFO 2025-06-26 11:22:01,290 calibrate.py _nudge_pos():1806 [1] 267: 0.110 -0.0001577 -0.0053815 11592 38.65 -0.611 -25.803 2006-05-17T12:32:59.213127168 INFO 2025-06-26 11:22:01,855 calibrate.py _nudge_pos():1806 [1] 321: 0.100 -0.0006865 -0.0028712 7113 23.71 -4.336 -22.436 2006-05-17T12:57:35.212014208 INFO 2025-06-26 11:22:02,367 calibrate.py _nudge_pos():1806 [1] 371: 0.110 -0.0029480 -0.0068504 13253 44.18 -9.998 -28.732 2006-05-17T13:42:35.207052032 INFO 2025-06-26 11:22:02,932 calibrate.py _nudge_pos():1806 [1] 423: 0.110 -0.0028814 -0.0044121 8833 29.45 -14.665 -27.764 2006-05-17T14:12:53.212510080 INFO 2025-06-26 11:22:03,439 calibrate.py _nudge_pos():1806 [1] 472: 0.120 -0.0046883 -0.0060933 13319 44.40 -15.834 -25.432 2006-05-17T14:58:05.206725888 INFO 2025-06-26 11:22:03,502 calibrate.py _nudge_pos():1806 [1] 478: 0.120 -0.0000923 -0.0000096 20 0.06 -218.557 -28.020 2006-05-17T14:58:14.206109312 INFO 2025-06-26 11:22:03,883 calibrate.py _nudge_pos():1806 [1] 514: 0.120 -0.0024202 -0.0020336 7760 25.86 -14.034 -14.570 2006-05-17T15:24:41.207392256 INFO 2025-06-26 11:22:04,167 calibrate.py _nudge_pos():1806 [1] 540: 0.120 -0.0000314 -0.0000211 15 0.05 -100.820 -83.853 2006-05-17T15:25:09.205474176 INFO 2025-06-26 11:22:04,464 calibrate.py _nudge_pos():1806 [1] 568: 0.130 -0.0033382 -0.0037455 13127 43.76 -11.444 -15.859 2006-05-17T16:09:23.203662848 INFO 2025-06-26 11:22:04,996 calibrate.py _nudge_pos():1806 [1] 618: 0.130 -0.0017350 -0.0020387 11840 39.46 -6.598 -9.573 2006-05-17T16:49:41.208018304 INFO 2025-06-26 11:22:05,572 calibrate.py _nudge_pos():1806 [1] 672: 0.130 0.0000022 0.0000129 15 0.05 7.013 51.103 2006-05-17T16:50:37.204182144 INFO 2025-06-26 11:22:05,689 calibrate.py _nudge_pos():1806 [1] 683: 0.130 -0.0001174 -0.0016454 10320 34.40 -0.512 -8.864 2006-05-17T17:25:11.212102912 INFO 2025-06-26 11:22:05,870 calibrate.py _nudge_pos():1806 [1] 700: 0.130 0.0000869 -0.0000595 20 0.06 206.111 -174.106 2006-05-17T17:25:31.210732928 INFO 2025-06-26 11:22:06,006 calibrate.py _nudge_pos():1806 [1] 713: 0.130 -0.0000094 0.0000382 20 0.06 -22.363 111.739 2006-05-17T17:25:47.209636864 INFO 2025-06-26 11:22:06,281 calibrate.py _nudge_pos():1806 [1] 739: 0.130 0.0005115 -0.0018069 12955 43.18 1.779 -7.754 2006-05-17T18:09:23.210428672 INFO 2025-06-26 11:22:06,786 calibrate.py _nudge_pos():1806 [1] 786: 0.140 0.0016255 -0.0014262 8403 28.03 8.711 -9.428 2006-05-17T18:38:11.212052352 INFO 2025-06-26 11:22:07,261 calibrate.py _nudge_pos():1806 [1] 830: 0.150 0.0026874 -0.0036770 13135 43.78 9.225 -15.563 2006-05-17T19:22:41.209145088 INFO 2025-06-26 11:22:07,848 calibrate.py _nudge_pos():1806 [1] 884: 0.160 0.0033431 -0.0031851 13084 43.61 11.524 -13.533 2006-05-17T20:07:11.206237824 INFO 2025-06-26 11:22:08,434 calibrate.py _nudge_pos():1806 [1] 938: 0.160 0.0016159 -0.0024238 9032 30.11 8.069 -14.914 2006-05-17T20:38:11.208818944 INFO 2025-06-26 11:22:08,928 calibrate.py _nudge_pos():1806 [1] 983: 0.160 0.0028342 -0.0048071 12918 43.06 9.901 -20.685 2006-05-17T21:21:59.208788352 INFO 2025-06-26 11:22:09,452 calibrate.py _nudge_pos():1806 [1] 1029: 0.170 0.0027514 -0.0062122 13455 44.85 9.233 -25.668 2006-05-17T22:07:35.211359488 INFO 2025-06-26 11:22:09,508 calibrate.py _nudge_pos():1806 [1] 1034: 0.170 0.0000593 -0.0000888 40 0.13 68.640 -126.571 2006-05-17T22:07:47.210537472 INFO 2025-06-26 11:22:09,940 calibrate.py _nudge_pos():1806 [1] 1074: 0.180 0.0011502 -0.0027911 6555 21.85 7.925 -23.674 2006-05-17T22:30:17.208056192 INFO 2025-06-26 11:22:10,188 calibrate.py _nudge_pos():1806 [1] 1096: 0.180 0.0000232 -0.0001022 15 0.05 74.895 -405.890 2006-05-17T22:30:41.206412288 INFO 2025-06-26 11:22:10,468 calibrate.py _nudge_pos():1806 [1] 1122: 0.180 0.0013805 -0.0027819 12890 42.98 4.837 -11.993 2006-05-17T23:14:05.208025984 INFO 2025-06-26 11:22:10,987 calibrate.py _nudge_pos():1806 [1] 1170: 0.190 0.0009844 -0.0024884 12910 43.03 3.446 -10.716 2006-05-17T23:57:55.207858560 INFO 2025-06-26 11:22:11,538 calibrate.py _nudge_pos():1806 [1] 1216: 0.200 -0.0004308 -0.0010383 7325 24.41 -2.659 -7.881 2006-05-18T00:23:05.204416768 INFO 2025-06-26 11:22:12,007 calibrate.py _nudge_pos():1806 [1] 1259: 0.200 -0.0021125 -0.0003871 13319 44.40 -7.171 -1.616 2006-05-18T01:08:11.209042816 INFO 2025-06-26 11:22:12,579 calibrate.py _nudge_pos():1806 [1] 1310: 0.020 -0.0000255 0.0000560 30 0.10 -39.740 107.320 2006-05-18T01:09:08.405124608 INFO 2025-06-26 11:22:14,976 calibrate.py _nudge_pos():1862 [1] 1507: - - - 0 0.00 - - INFO 2025-06-26 11:22:14,977 calibrate.py _nudge_pos():1868 [1] Points in final series = 278884 WARNING 2025-06-26 11:22:24,677 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:22:54,148 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:22:56,300 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:22:58,051 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:22:58,057 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.137.00/ctd1.nc INFO 2025-06-26 11:22:58,059 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:22:58,059 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:22:58,059 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:23:00,253 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:23:01,947 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:23:01,951 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.137.00/ctd2.nc INFO 2025-06-26 11:23:01,953 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 11:23:01,953 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:23:01,953 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:23:02,031 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:23:04,598 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 67 68 69 70 71 72 241920 674940 3349020] INFO 2025-06-26 11:23:05,108 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:23:05,114 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 11:23:05,115 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.137.00 ERROR 2025-06-26 11:23:05,115 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.137.00 INFO 2025-06-26 11:23:05,326 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_cal.nc INFO 2025-06-26 11:23:05,514 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_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, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 11:23:05,519 process.py align():251 [1] Alignment steps for 2006.137.00 INFO 2025-06-26 11:23:05,559 align.py process_cal():139 [1] Processing dorado_2006.137.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.137.00 INFO 2025-06-26 11:23:05,642 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:23:05,650 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:23:05,857 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:23:05,868 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:23:06,068 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:23:06,078 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:23:06,202 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:23:06,203 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:23:06,281 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:23:06,291 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:23:06,486 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:23:06,495 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:06,676 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:23:06,685 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:06,856 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:23:06,865 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,040 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,048 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,214 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,224 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,396 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,405 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,572 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,582 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,753 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,761 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:07,926 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:07,935 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:08,109 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:08,119 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:08,288 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:08,298 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:08,469 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:08,478 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:08,652 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:08,660 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:08,829 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:08,838 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,010 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,019 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,190 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,200 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,370 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,378 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,549 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,558 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,733 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,742 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:09,916 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:23:09,924 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:23:10,142 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:23:10,280 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:23:10,418 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:23:10,565 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:23:10,719 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:23:10,850 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_align.nc INFO 2025-06-26 11:23:10,991 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 11:23:10,993 process.py resample():273 [1] Resampling steps for 2006.137.00 INFO 2025-06-26 11:23:10,993 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:23:11,027 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_align.nc mission netCDF file INFO 2025-06-26 11:23:11,036 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_align.nc mission netCDF file INFO 2025-06-26 11:23:11,038 resample.py get_mission_start_end():1145 [1] navigation: 2006-05-17T09:42:36.013464192 to 2006-05-18T01:12:45.410258816 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 11:23:11,040 resample.py get_mission_start_end():1145 [1] hs2 : 2006-05-17T09:42:18.894637056 to 2006-05-18T01:12:45.520251264 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:23:11,043 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-05-17T09:42:41.483089664 to 2006-05-18T01:12:45.480253952 (0 days 00:00:00.039997312 before mission_end) INFO 2025-06-26 11:23:11,045 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-05-17T09:42:41.593081984 to 2006-05-18T01:12:45.320264832 (0 days 00:00:00.199986432 before mission_end) INFO 2025-06-26 11:23:11,047 resample.py get_mission_start_end():1145 [1] isus : 2006-05-17T09:43:43.468843264 to 2006-05-18T01:12:44.410327168 (0 days 00:00:01.109924096 before mission_end) INFO 2025-06-26 11:23:11,049 resample.py get_mission_start_end():1145 [1] biolume : 2006-05-17T09:42:14.294917760 to 2006-05-18T01:12:44.210306688 (0 days 00:00:01.309944576 before mission_end) INFO 2025-06-26 11:23:11,051 resample.py get_mission_start_end():1145 [1] tailcone : 2006-05-17T09:42:14.694924544 to 2006-05-18T01:12:45.450255872 (0 days 00:00:00.069995392 before mission_end) INFO 2025-06-26 11:23:11,052 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_align.nc mission netCDF file INFO 2025-06-26 11:23:11,052 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:11,612 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:11,704 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:11,793 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:11,883 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:11,959 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,036 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,111 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,184 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,257 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,329 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,400 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,471 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,543 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,614 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,685 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,756 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,832 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,911 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:12,986 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,063 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,139 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,215 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,245 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,269 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,290 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,319 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,404 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:23:13,821 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_1S.nc INFO 2025-06-26 11:23:15,790 create_products.py gulper_odv():401 [1] No gulper times found for 2006.137.00 INFO 2025-06-26 11:23:15,790 process.py archive():337 [1] Archiving steps for 2006.137.00 INFO 2025-06-26 11:23:15,790 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00, BASE_PATH = /data/auv_data INFO 2025-06-26 11:23:15,792 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:23:15,793 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.137.00_1S.nc INFO 2025-06-26 11:23:16,039 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:23:16,040 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.137.00_cal.nc INFO 2025-06-26 11:23:16,264 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:23:16,265 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.137.00_align.nc INFO 2025-06-26 11:23:16,487 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:23:16,549 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,609 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,614 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,653 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,830 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,839 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,924 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:16,973 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:17,128 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006137/2006.137.00 done. INFO 2025-06-26 11:23:17,128 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:23:17,128 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.137.00/dorado_2006.137.00_processing.log /Volumes/AUVCTD/surveys/2006/netcdf