INFO 2025-06-26 10:33:43,458 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 10:33:43,458 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Night-time survey that hit mud near Pt. Pinos. - ctdToUse = ctd1 INFO 2025-06-26 10:33:43,458 process.py process_mission():449 [1] Processing BIOLUME mission 2005.103.02 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:33:43,458 process.py download_process():165 [1] Download and processing steps for 2005.103.02 INFO 2025-06-26 10:33:43,458 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005103/2005.103.02 INFO 2025-06-26 10:33:43,458 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005103/2005.103.02 to /data/auv_data/dorado/missionlogs/2005.103.02 INFO 2025-06-26 10:33:44,396 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.103.02 INFO 2025-06-26 10:33:44,397 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/ctdDriver.log (11821171 bytes) INFO 2025-06-26 10:33:45,331 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/ctdDriver2.log (11823717 bytes) INFO 2025-06-26 10:33:46,244 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/gps.log (30524 bytes) INFO 2025-06-26 10:33:46,256 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/hydroscatlog.log (8061854 bytes) INFO 2025-06-26 10:33:47,194 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.103.02/hydroscatlog.log: [98922 98923 98924] INFO 2025-06-26 10:33:47,217 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/navigation.log (39630190 bytes) INFO 2025-06-26 10:33:50,167 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/isuslog.log (669877 bytes) INFO 2025-06-26 10:33:50,236 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/parosci.log (7936166 bytes) INFO 2025-06-26 10:33:50,924 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/tailCone.log (8058811 bytes) INFO 2025-06-26 10:33:51,914 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.02/biolume.log (9145596 bytes) INFO 2025-06-26 10:33:52,854 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:33:53,327 logs2netcdfs.py download_process_logs():807 [1] Time to process: 8.93 seconds WARNING 2025-06-26 10:33:53,327 process.py download_process():196 [1] No lopc.bin file for 2005.103.02 INFO 2025-06-26 10:33:53,327 process.py calibrate():227 [1] Calibration steps for 2005.103.02 INFO 2025-06-26 10:33:53,584 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 10:33:53,586 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:33:54,215 calibrate.py _nudge_pos():1806 [1] 81: 0.030 -0.0022189 -0.0023080 9777 32.60 -10.102 -13.120 2005-04-13T06:32:01.103146496 INFO 2025-06-26 10:33:54,764 calibrate.py _nudge_pos():1806 [1] 138: 0.020 -0.0021162 -0.0020145 9949 33.16 -9.473 -11.256 2005-04-13T07:06:07.102985856 INFO 2025-06-26 10:33:55,237 calibrate.py _nudge_pos():1806 [1] 187: 0.010 -0.0000172 -0.0000762 170 0.56 -4.542 -25.055 2005-04-13T07:07:29.107368192 INFO 2025-06-26 10:33:55,267 calibrate.py _nudge_pos():1806 [1] 190: 0.020 -0.0000139 -0.0000110 60 0.20 -10.520 -10.368 2005-04-13T07:07:43.106409344 INFO 2025-06-26 10:33:55,315 calibrate.py _nudge_pos():1806 [1] 195: 0.020 0.0000140 -0.0000232 65 0.21 9.726 -20.157 2005-04-13T07:08:00.105244672 INFO 2025-06-26 10:33:55,325 calibrate.py _nudge_pos():1806 [1] 196: 0.020 -0.0006601 -0.0004072 2885 9.61 -10.195 -7.849 2005-04-13T07:17:37.105717376 INFO 2025-06-26 10:33:55,787 calibrate.py _nudge_pos():1806 [1] 244: 0.020 0.0013151 -0.0038868 11223 37.41 5.220 -19.250 2005-04-13T07:55:49.108704512 INFO 2025-06-26 10:33:56,350 calibrate.py _nudge_pos():1806 [1] 300: 0.020 0.0001749 -0.0015169 10644 35.48 0.732 -7.922 2005-04-13T08:32:13.109090304 INFO 2025-06-26 10:33:56,912 calibrate.py _nudge_pos():1806 [1] 357: 0.030 0.0006275 -0.0000792 10370 34.56 2.698 -0.425 2005-04-13T09:07:43.103175680 INFO 2025-06-26 10:33:56,934 calibrate.py _nudge_pos():1806 [1] 359: 0.030 -0.0000330 0.0000151 55 0.18 -27.256 15.506 2005-04-13T09:07:55.102353536 INFO 2025-06-26 10:33:57,432 calibrate.py _nudge_pos():1806 [1] 409: 0.030 -0.0125987 0.0109815 14091 46.98 -39.857 43.313 2005-04-13T09:55:43.105881984 INFO 2025-06-26 10:33:57,462 calibrate.py _nudge_pos():1862 [1] 391: - - - 96731 322.47 - - INFO 2025-06-26 10:33:57,462 calibrate.py _nudge_pos():1868 [1] Points in final series = 167915 WARNING 2025-06-26 10:33:57,598 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:34:14,294 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 2060 of 134346 INFO 2025-06-26 10:34:15,316 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:34:16,548 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:34:17,551 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:34:17,554 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.103.02/ctd1.nc INFO 2025-06-26 10:34:17,555 calibrate.py _range_qc_combined_nc():898 [1] Setting 26 ctd1_salinity values to NaN INFO 2025-06-26 10:34:17,556 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 10:34:17,556 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:34:18,805 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:34:19,825 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:34:19,827 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.103.02/ctd2.nc INFO 2025-06-26 10:34:19,829 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:34:19,829 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 10:34:19,829 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:34:19,877 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:34:21,405 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 426720 426721 426722 426723] INFO 2025-06-26 10:34:21,696 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:34:21,702 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 10:34:21,703 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.103.02 ERROR 2025-06-26 10:34:21,704 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.103.02 INFO 2025-06-26 10:34:21,834 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_cal.nc INFO 2025-06-26 10:34:21,957 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 10:34:21,961 process.py align():251 [1] Alignment steps for 2005.103.02 INFO 2025-06-26 10:34:21,993 align.py process_cal():139 [1] Processing dorado_2005.103.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.103.02 INFO 2025-06-26 10:34:22,042 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:34:22,048 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:34:22,170 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:34:22,178 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:34:22,292 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:34:22,300 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:34:22,374 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:34:22,374 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:34:22,422 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:34:22,429 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:34:22,543 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:34:22,549 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.94 INFO 2025-06-26 10:34:22,649 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:34:22,655 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.94 INFO 2025-06-26 10:34:22,755 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:34:22,761 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.94 INFO 2025-06-26 10:34:22,858 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:22,864 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:22,964 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:22,970 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,068 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,074 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,172 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,177 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,276 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,282 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,390 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,396 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,497 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,503 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,602 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,608 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,706 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,713 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,813 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,818 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:23,918 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:23,924 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,026 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,032 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,131 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,138 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,237 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,243 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,342 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,348 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,448 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,454 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,555 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:34:24,560 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:34:24,665 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:34:24,731 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:34:24,797 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:34:24,868 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:34:24,943 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:34:25,017 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_align.nc INFO 2025-06-26 10:34:25,120 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 10:34:25,122 process.py resample():273 [1] Resampling steps for 2005.103.02 INFO 2025-06-26 10:34:25,123 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:34:25,151 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_align.nc mission netCDF file INFO 2025-06-26 10:34:25,157 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_align.nc mission netCDF file INFO 2025-06-26 10:34:25,159 resample.py get_mission_start_end():1145 [1] navigation: 2005-04-13T05:58:26.131181440 to 2005-04-13T15:18:13.710274688 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:34:25,161 resample.py get_mission_start_end():1145 [1] hs2 : 2005-04-13T05:58:10.702238592 to 2005-04-13T15:18:13.660278144 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 10:34:25,162 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-04-13T05:58:33.550673280 to 2005-04-13T15:18:13.480290432 (0 days 00:00:00.229984256 before mission_end) INFO 2025-06-26 10:34:25,164 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-04-13T05:58:23.991328256 to 2005-04-13T15:18:13.470291200 (0 days 00:00:00.239983488 before mission_end) INFO 2025-06-26 10:34:25,166 resample.py get_mission_start_end():1145 [1] isus : 2005-04-13T05:59:21.087416832 to 2005-04-13T15:18:12.590351616 (0 days 00:00:01.119923072 before mission_end) INFO 2025-06-26 10:34:25,167 resample.py get_mission_start_end():1145 [1] biolume : 2005-04-13T05:58:05.042592000 to 2005-04-13T15:18:13.140279552 (0 days 00:00:00.569995136 before mission_end) INFO 2025-06-26 10:34:25,169 resample.py get_mission_start_end():1145 [1] tailcone : 2005-04-13T05:58:05.662583808 to 2005-04-13T15:18:13.650278784 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:34:25,170 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_align.nc mission netCDF file INFO 2025-06-26 10:34:25,170 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,524 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,581 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,639 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,695 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,744 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,795 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,844 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,893 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,939 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:25,988 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,034 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,079 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,124 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,169 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,214 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,259 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,308 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,358 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,406 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,455 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,505 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,553 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,574 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,591 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,607 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,627 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,680 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:34:26,968 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_1S.nc INFO 2025-06-26 10:34:28,199 create_products.py gulper_odv():401 [1] No gulper times found for 2005.103.02 INFO 2025-06-26 10:34:28,199 process.py archive():337 [1] Archiving steps for 2005.103.02 INFO 2025-06-26 10:34:28,200 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02, BASE_PATH = /data/auv_data INFO 2025-06-26 10:34:28,200 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:34:28,202 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.02_1S.nc INFO 2025-06-26 10:34:28,231 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:34:28,231 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.02_cal.nc INFO 2025-06-26 10:34:28,379 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:34:28,380 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.02_align.nc INFO 2025-06-26 10:34:28,530 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:34:28,568 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,606 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,611 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,637 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,762 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,770 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,798 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,833 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,932 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.02 done. INFO 2025-06-26 10:34:28,932 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:34:28,932 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.02/dorado_2005.103.02_processing.log /Volumes/AUVCTD/surveys/2005/netcdf