INFO 2025-06-26 13:59:00,395 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 13:59:00,395 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Autonomy TREX mission - ctdToUse = ctd1 INFO 2025-06-26 13:59:00,395 process.py process_mission():449 [1] Processing AUVCTD mission 2008.133.05 by user docker_user on host eae60d30a712 INFO 2025-06-26 13:59:00,395 process.py download_process():165 [1] Download and processing steps for 2008.133.05 INFO 2025-06-26 13:59:00,395 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2008/2008133/2008.133.05 INFO 2025-06-26 13:59:00,395 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2008/2008133/2008.133.05 to /data/auv_data/dorado/missionlogs/2008.133.05 INFO 2025-06-26 13:59:03,289 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2008.133.05 INFO 2025-06-26 13:59:03,289 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/ctdDriver.log (3686502 bytes) INFO 2025-06-26 13:59:03,551 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/ctdDriver2.log (3686495 bytes) INFO 2025-06-26 13:59:03,829 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/gps.log (38588 bytes) INFO 2025-06-26 13:59:03,841 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/hydroscatlog.log (2308814 bytes) INFO 2025-06-26 13:59:04,117 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/navigation.log (11322698 bytes) INFO 2025-06-26 13:59:04,950 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/isuslog.log (238261 bytes) INFO 2025-06-26 13:59:04,977 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/parosci.log (3777878 bytes) INFO 2025-06-26 13:59:05,297 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2008.133.05/parosci.log: [35077] INFO 2025-06-26 13:59:05,308 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/tailCone.log (482827 bytes) INFO 2025-06-26 13:59:05,374 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2008.133.05/biolume.log (2621676 bytes) INFO 2025-06-26 13:59:05,623 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 13:59:05,768 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.48 seconds WARNING 2025-06-26 13:59:05,768 process.py download_process():196 [1] No lopc.bin file for 2008.133.05 INFO 2025-06-26 13:59:05,768 process.py calibrate():227 [1] Calibration steps for 2008.133.05 INFO 2025-06-26 13:59:05,892 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 13:59:05,894 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 13:59:06,189 calibrate.py _nudge_pos():1806 [1] 55: 0.090 0.0003572 -0.0005994 4420 14.73 3.596 -7.541 2008-05-12T19:32:31.112600320 INFO 2025-06-26 13:59:06,284 calibrate.py _nudge_pos():1806 [1] 65: 0.090 -0.0000477 -0.0001500 150 0.50 -14.249 -55.948 2008-05-12T19:33:10.109928960 INFO 2025-06-26 13:59:06,304 calibrate.py _nudge_pos():1806 [1] 67: 0.090 0.0000573 -0.0000328 15 0.05 182.101 -130.088 2008-05-12T19:33:14.109654784 INFO 2025-06-26 13:59:06,314 calibrate.py _nudge_pos():1806 [1] 68: 0.090 0.0000764 0.0000314 110 0.36 31.186 16.012 2008-05-12T19:33:36.108147712 INFO 2025-06-26 13:59:08,541 calibrate.py _nudge_pos():1806 [1] 295: 0.090 0.0073263 0.0003646 17620 58.73 18.506 1.151 2008-05-12T20:36:06.111255040 INFO 2025-06-26 13:59:10,394 calibrate.py _nudge_pos():1806 [1] 490: 0.100 -0.0001271 -0.0002328 23210 77.36 -0.244 -0.558 2008-05-12T21:56:42.109966336 INFO 2025-06-26 13:59:10,668 calibrate.py _nudge_pos():1806 [1] 519: 0.100 0.0000405 -0.0000120 15 0.05 128.637 -47.757 2008-05-12T21:57:13.107842816 INFO 2025-06-26 13:59:10,712 calibrate.py _nudge_pos():1862 [1] 494: - - - 1 0.00 - - INFO 2025-06-26 13:59:10,712 calibrate.py _nudge_pos():1868 [1] Points in final series = 47969 WARNING 2025-06-26 13:59:11,972 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 13:59:12,046 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 13 of 38465 INFO 2025-06-26 13:59:12,336 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:59:12,704 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:59:12,998 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:59:13,001 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2008.133.05/ctd1.nc INFO 2025-06-26 13:59:13,003 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 13:59:13,003 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 13:59:13,003 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 13:59:13,357 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:59:13,644 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:59:13,646 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2008.133.05/ctd2.nc INFO 2025-06-26 13:59:13,647 calibrate.py _range_qc_combined_nc():898 [1] Setting 3 ctd2_salinity values to NaN INFO 2025-06-26 13:59:13,648 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 13:59:13,648 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 13:59:13,671 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 13:59:14,155 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 67 68 69 300 301 302 303 304 305 4980 4981 4982 4983 4984 4985 4986 20700 20701 20702 20703 50940 59940 70920 70921 70922 70923 77520 77521 77522 77523 77880 77881 89040 89041 89042 109500 109501 109502 109503 109504 152940 152941 168120 222780 222781 222782 222783 224040 224041 224042 224043 279660 279661 295680 295681 295682 322140 322141 322142 328920 328921 372720 372721 372722 372723 372724 393240] INFO 2025-06-26 13:59:14,240 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -8 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 13:59:14,245 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 13:59:14,245 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2008.133.05 ERROR 2025-06-26 13:59:14,246 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2008.133.05 INFO 2025-06-26 13:59:14,257 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_cal.nc INFO 2025-06-26 13:59:14,322 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, 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 13:59:14,326 process.py align():251 [1] Alignment steps for 2008.133.05 INFO 2025-06-26 13:59:14,352 align.py process_cal():139 [1] Processing dorado_2008.133.05_cal.nc from /data/auv_data/dorado/missionnetcdfs/2008.133.05 INFO 2025-06-26 13:59:14,368 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:59:14,371 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 13:59:14,409 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:59:14,412 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 13:59:14,450 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:59:14,454 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 13:59:14,476 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 13:59:14,476 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 13:59:14,490 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:59:14,494 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 13:59:14,532 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,535 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,569 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,572 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,605 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,608 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,640 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,643 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,677 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,680 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,713 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,717 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,750 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,754 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,787 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,791 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,825 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,828 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,860 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,864 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,898 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,901 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,934 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,937 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:14,972 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:14,975 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,009 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,012 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,046 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,050 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,082 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,086 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,120 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,123 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,157 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,161 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,195 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,199 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,232 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,236 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,271 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,274 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,307 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2008.133.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:59:15,311 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 13:59:15,352 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 13:59:15,382 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 13:59:15,412 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 13:59:15,445 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 13:59:15,477 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.04 INFO 2025-06-26 13:59:15,491 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_align.nc INFO 2025-06-26 13:59:15,551 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, 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 13:59:15,554 process.py resample():273 [1] Resampling steps for 2008.133.05 INFO 2025-06-26 13:59:15,554 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 13:59:15,579 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_align.nc mission netCDF file INFO 2025-06-26 13:59:15,584 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_align.nc mission netCDF file INFO 2025-06-26 13:59:15,586 resample.py get_mission_start_end():1145 [1] navigation: 2008-05-12T19:17:23.804754944 to 2008-05-12T21:57:17.307555072 (0 days 00:00:00.149989632 before mission_end) INFO 2025-06-26 13:59:15,587 resample.py get_mission_start_end():1145 [1] hs2 : 2008-05-12T19:16:57.896529920 to 2008-05-12T21:57:17.447545600 (0 days 00:00:00.009999104 before mission_end) INFO 2025-06-26 13:59:15,589 resample.py get_mission_start_end():1145 [1] ctd1 : 2008-05-12T19:17:19.405056512 to 2008-05-12T21:57:17.457544704 (0 days 00:00:00 before mission_end) INFO 2025-06-26 13:59:15,591 resample.py get_mission_start_end():1145 [1] ctd2 : 2008-05-12T19:17:19.175072256 to 2008-05-12T21:57:17.447545600 (0 days 00:00:00.009999104 before mission_end) INFO 2025-06-26 13:59:15,592 resample.py get_mission_start_end():1145 [1] isus : 2008-05-12T19:18:11.201508352 to 2008-05-12T21:57:16.637601024 (0 days 00:00:00.819943680 before mission_end) INFO 2025-06-26 13:59:15,594 resample.py get_mission_start_end():1145 [1] biolume : 2008-05-12T19:16:50.976969728 to 2008-05-12T21:57:16.777557248 (0 days 00:00:00.679987456 before mission_end) INFO 2025-06-26 13:59:15,595 resample.py get_mission_start_end():1145 [1] tailcone : 2008-05-12T19:16:56.646615552 to 2008-05-12T21:57:16.747593472 (0 days 00:00:00.709951232 before mission_end) INFO 2025-06-26 13:59:15,596 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_align.nc mission netCDF file INFO 2025-06-26 13:59:15,597 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,716 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,739 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,761 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,783 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,804 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,824 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,843 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,862 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,880 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,898 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,916 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,934 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,952 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,970 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:15,988 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,007 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,025 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,045 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,065 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,084 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,103 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,122 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,141 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,160 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,172 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,183 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,194 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,206 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,218 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 13:59:16,368 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_1S.nc INFO 2025-06-26 13:59:18,192 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 13:59:20,315 create_products.py gulper_odv():522 [1] Wrote 2 Gulper data lines to /data/auv_data/dorado/missionodvs/2008.133.05/dorado_2008.133.05_1S_Gulper.txt INFO 2025-06-26 13:59:20,315 process.py archive():337 [1] Archiving steps for 2008.133.05 INFO 2025-06-26 13:59:20,315 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05, BASE_PATH = /data/auv_data INFO 2025-06-26 13:59:20,315 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05 files to /Volumes/AUVCTD/surveys/2008/netcdf INFO 2025-06-26 13:59:20,316 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.133.05_1S.nc INFO 2025-06-26 13:59:20,330 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_1S.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 13:59:20,330 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.133.05_cal.nc INFO 2025-06-26 13:59:20,379 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_cal.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 13:59:20,380 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2008/netcdf/dorado_2008.133.05_align.nc INFO 2025-06-26 13:59:20,421 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_align.nc /Volumes/AUVCTD/surveys/2008/netcdf done. INFO 2025-06-26 13:59:20,437 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,452 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,456 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/gps.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,467 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,500 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,505 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,520 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,527 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,555 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2008/2008133/2008.133.05 done. INFO 2025-06-26 13:59:20,555 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 13:59:20,556 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2008/odv/dorado_2008.133.05_1S_Gulper.txt INFO 2025-06-26 13:59:20,561 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2008.133.05/dorado_2008.133.05_1S_Gulper.txt /Volumes/AUVCTD/surveys/2008/odv done. INFO 2025-06-26 13:59:20,561 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2008.133.05/dorado_2008.133.05_processing.log /Volumes/AUVCTD/surveys/2008/netcdf