INFO 2025-06-26 05:45:24,467 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 05:45:24,467 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/12/05 - ctdToUse = ctd1 INFO 2025-06-26 05:45:24,468 process.py process_mission():449 [1] Processing BIOLUME mission 2003.339.04 by user docker_user on host 671049448ece INFO 2025-06-26 05:45:24,468 process.py download_process():165 [1] Download and processing steps for 2003.339.04 INFO 2025-06-26 05:45:24,468 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003339/2003.339.04 INFO 2025-06-26 05:45:24,468 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003339/2003.339.04 to /data/auv_data/dorado/missionlogs/2003.339.04 INFO 2025-06-26 05:45:26,522 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.339.04 INFO 2025-06-26 05:45:26,523 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/ctdDriver.log (4656123 bytes) INFO 2025-06-26 05:45:26,864 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/ctdDriver2.log (4655941 bytes) INFO 2025-06-26 05:45:27,209 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/gps.log (29126 bytes) INFO 2025-06-26 05:45:27,219 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/hydroscatlog.log (3177314 bytes) INFO 2025-06-26 05:45:27,591 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2003.339.04/hydroscatlog.log: [26245] INFO 2025-06-26 05:45:27,599 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/navigation.log (12960215 bytes) INFO 2025-06-26 05:45:28,526 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/isuslog.log (255189 bytes) INFO 2025-06-26 05:45:28,555 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/parosci.log (3178934 bytes) INFO 2025-06-26 05:45:28,840 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/tailCone.log (3178939 bytes) INFO 2025-06-26 05:45:29,231 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.339.04/biolume.log (3606044 bytes) INFO 2025-06-26 05:45:29,588 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:45:29,786 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.26 seconds WARNING 2025-06-26 05:45:29,786 process.py download_process():196 [1] No lopc.bin file for 2003.339.04 INFO 2025-06-26 05:45:29,786 process.py calibrate():227 [1] Calibration steps for 2003.339.04 INFO 2025-06-26 05:45:29,921 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.339.04 INFO 2025-06-26 05:45:29,937 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 05:45:29,939 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:45:31,473 calibrate.py _nudge_pos():1806 [1] 181: 0.050 -0.0024013 -0.0017603 14035 46.78 -7.631 -6.973 2003-12-05T06:06:48.723937024 INFO 2025-06-26 05:45:32,122 calibrate.py _nudge_pos():1806 [1] 250: 0.040 -0.0028610 -0.0019623 13310 44.36 -9.584 -8.196 2003-12-05T06:52:18.726918912 INFO 2025-06-26 05:45:32,551 calibrate.py _nudge_pos():1806 [1] 296: 0.050 -0.0000339 -0.0000351 45 0.15 -34.386 -44.404 2003-12-05T06:53:12.723219968 INFO 2025-06-26 05:45:32,718 calibrate.py _nudge_pos():1806 [1] 313: 0.050 -0.0000458 -0.0000515 180 0.60 -11.404 -15.987 2003-12-05T06:54:04.719657984 INFO 2025-06-26 05:45:32,766 calibrate.py _nudge_pos():1806 [1] 318: 0.050 -0.0029540 -0.0019284 14270 47.56 -9.226 -7.513 2003-12-05T07:41:42.723871232 INFO 2025-06-26 05:45:33,432 calibrate.py _nudge_pos():1806 [1] 388: 0.060 -0.0039095 -0.0013231 13815 46.05 -12.609 -5.324 2003-12-05T08:28:54.719866240 INFO 2025-06-26 05:45:34,077 calibrate.py _nudge_pos():1806 [1] 456: 0.060 -0.0016764 0.0002559 8245 27.48 -9.058 1.726 2003-12-05T08:57:30.722312064 INFO 2025-06-26 05:45:34,235 calibrate.py _nudge_pos():1862 [1] 451: - - - 1 0.00 - - INFO 2025-06-26 05:45:34,235 calibrate.py _nudge_pos():1868 [1] Points in final series = 66115 WARNING 2025-06-26 05:45:34,292 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:45:41,475 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:41,973 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:42,365 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:42,367 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.339.04/ctd1.nc INFO 2025-06-26 05:45:42,369 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 05:45:42,369 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 05:45:42,369 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:45:42,844 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:43,240 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:43,243 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.339.04/ctd2.nc INFO 2025-06-26 05:45:43,244 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:45:43,244 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 05:45:43,244 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:45:43,267 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:45:44,016 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:45:44,022 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 05:45:44,023 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.339.04 ERROR 2025-06-26 05:45:44,023 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.339.04 INFO 2025-06-26 05:45:44,082 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_cal.nc INFO 2025-06-26 05:45:44,161 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 05:45:44,166 process.py align():251 [1] Alignment steps for 2003.339.04 INFO 2025-06-26 05:45:44,195 align.py process_cal():139 [1] Processing dorado_2003.339.04_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.339.04 INFO 2025-06-26 05:45:44,217 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:45:44,220 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:45:44,273 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:45:44,277 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:45:44,329 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:45:44,333 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:45:44,363 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:45:44,363 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:45:44,383 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:45:44,387 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:45:44,436 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:45:44,439 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,483 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:45:44,486 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,530 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:45:44,533 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,578 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,581 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,626 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,629 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,673 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,676 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,721 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,724 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,771 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,776 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,830 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,834 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,877 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,882 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,927 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,930 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:44,974 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:44,978 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,023 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,026 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,070 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,073 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,118 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,121 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,166 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,170 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,214 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,217 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,261 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,265 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,309 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,312 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,356 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.339.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:45:45,359 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:45:45,409 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:45:45,442 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:45:45,475 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:45:45,511 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:45:45,547 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:45:45,583 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_align.nc INFO 2025-06-26 05:45:45,652 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 05:45:45,654 process.py resample():273 [1] Resampling steps for 2003.339.04 INFO 2025-06-26 05:45:45,655 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:45:45,679 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_align.nc mission netCDF file INFO 2025-06-26 05:45:45,684 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_align.nc mission netCDF file INFO 2025-06-26 05:45:45,685 resample.py get_mission_start_end():1145 [1] navigation: 2003-12-05T05:17:24.127025792 to 2003-12-05T08:57:47.001196800 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 05:45:45,687 resample.py get_mission_start_end():1145 [1] hs2 : 2003-12-05T05:17:06.228251904 to 2003-12-05T08:57:47.011196160 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 05:45:45,688 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-12-05T05:17:21.817184000 to 2003-12-05T08:57:47.031194752 (0 days 00:00:00.029997952 before mission_end) INFO 2025-06-26 05:45:45,689 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-12-05T05:17:22.367146368 to 2003-12-05T08:57:47.061192704 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:45:45,691 resample.py get_mission_start_end():1145 [1] isus : 2003-12-05T05:18:18.793280896 to 2003-12-05T08:57:47.041194112 (0 days 00:00:00.019998592 before mission_end) INFO 2025-06-26 05:45:45,692 resample.py get_mission_start_end():1145 [1] biolume : 2003-12-05T05:17:01.398548608 to 2003-12-05T08:57:46.261213312 (0 days 00:00:00.799979392 before mission_end) INFO 2025-06-26 05:45:45,694 resample.py get_mission_start_end():1145 [1] tailcone : 2003-12-05T05:17:02.648497280 to 2003-12-05T08:57:46.821209216 (0 days 00:00:00.239983488 before mission_end) INFO 2025-06-26 05:45:45,694 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_align.nc mission netCDF file INFO 2025-06-26 05:45:45,695 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,850 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,877 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,904 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,931 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,957 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:45,981 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,006 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,030 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,052 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,074 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,096 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,117 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,139 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,161 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,182 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,204 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,228 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,251 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,274 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,297 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,320 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,343 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,355 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,367 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,378 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,391 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,419 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 05:45:46,587 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_1S.nc INFO 2025-06-26 05:45:47,707 create_products.py gulper_odv():401 [1] No gulper times found for 2003.339.04 INFO 2025-06-26 05:45:47,708 process.py archive():337 [1] Archiving steps for 2003.339.04 INFO 2025-06-26 05:45:47,708 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04, BASE_PATH = /data/auv_data INFO 2025-06-26 05:45:47,709 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:45:47,710 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.339.04_1S.nc INFO 2025-06-26 05:45:47,725 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:45:47,726 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.339.04_cal.nc INFO 2025-06-26 05:45:47,785 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:45:47,787 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.339.04_align.nc INFO 2025-06-26 05:45:47,846 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:45:47,868 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,887 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,892 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,906 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,951 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,957 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,971 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:47,988 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:48,029 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003339/2003.339.04 done. INFO 2025-06-26 05:45:48,029 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:45:48,029 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.339.04/dorado_2003.339.04_processing.log /Volumes/AUVCTD/surveys/2003/netcdf