INFO 2025-06-26 05:47:51,752 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 05:47:51,752 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 8/10/05 - ctdToUse = ctd1 INFO 2025-06-26 05:47:51,752 process.py process_mission():449 [1] Processing BIOLUME mission 2004.096.03 by user docker_user on host 671049448ece INFO 2025-06-26 05:47:51,752 process.py download_process():165 [1] Download and processing steps for 2004.096.03 INFO 2025-06-26 05:47:51,753 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004096/2004.096.03 INFO 2025-06-26 05:47:51,753 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004096/2004.096.03 to /data/auv_data/dorado/missionlogs/2004.096.03 INFO 2025-06-26 05:47:52,898 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.096.03 INFO 2025-06-26 05:47:52,899 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/ctdDriver.log (925451 bytes) INFO 2025-06-26 05:47:52,971 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/ctdDriver2.log (925357 bytes) INFO 2025-06-26 05:47:53,045 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/gps.log (32108 bytes) INFO 2025-06-26 05:47:53,057 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/hydroscatlog.log (634814 bytes) INFO 2025-06-26 05:47:53,144 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/navigation.log (1838525 bytes) INFO 2025-06-26 05:47:53,287 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/isuslog.log (50261 bytes) INFO 2025-06-26 05:47:53,296 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/parosci.log (635414 bytes) INFO 2025-06-26 05:47:53,354 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/tailCone.log (635467 bytes) INFO 2025-06-26 05:47:53,437 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.096.03/biolume.log (723116 bytes) INFO 2025-06-26 05:47:53,511 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:47:53,554 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.65 seconds WARNING 2025-06-26 05:47:53,554 process.py download_process():196 [1] No lopc.bin file for 2004.096.03 INFO 2025-06-26 05:47:53,554 process.py calibrate():227 [1] Calibration steps for 2004.096.03 INFO 2025-06-26 05:47:53,619 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2004.096.03 INFO 2025-06-26 05:47:53,628 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 05:47:53,629 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:47:54,516 calibrate.py _nudge_pos():1806 [1] 115: 0.040 -0.0000664 -0.0000288 40 0.13 -76.041 -40.987 2004-04-05T04:59:17.566285312 INFO 2025-06-26 05:47:54,890 calibrate.py _nudge_pos():1806 [1] 156: 0.030 0.0000191 0.0000318 35 0.11 25.000 51.885 2004-04-05T05:00:04.573065344 INFO 2025-06-26 05:47:54,991 calibrate.py _nudge_pos():1806 [1] 167: 0.040 -0.0033766 0.0047863 10960 36.53 -13.755 24.279 2004-04-05T05:36:47.572149504 INFO 2025-06-26 05:47:55,077 calibrate.py _nudge_pos():1806 [1] 176: 0.040 0.0000402 -0.0000418 35 0.11 52.835 -68.334 2004-04-05T05:37:03.571053568 INFO 2025-06-26 05:47:55,164 calibrate.py _nudge_pos():1806 [1] 185: 0.040 -0.0000104 0.0000035 15 0.05 -33.239 14.002 2004-04-05T05:37:14.570300160 INFO 2025-06-26 05:47:57,459 calibrate.py _nudge_pos():1862 [1] 412: - - - 0 0.00 - - INFO 2025-06-26 05:47:57,460 calibrate.py _nudge_pos():1868 [1] Points in final series = 13124 WARNING 2025-06-26 05:47:57,473 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:47:57,503 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 1 of 10565 INFO 2025-06-26 05:47:57,585 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:47:57,699 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:47:57,780 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:47:57,782 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.096.03/ctd1.nc INFO 2025-06-26 05:47:57,783 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 05:47:57,783 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 05:47:57,784 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:47:57,887 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:47:57,966 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:47:57,968 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.096.03/ctd2.nc INFO 2025-06-26 05:47:57,969 calibrate.py _range_qc_combined_nc():898 [1] Setting 2 ctd2_salinity values to NaN INFO 2025-06-26 05:47:57,969 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 05:47:57,970 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:47:57,979 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:47:58,119 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:47:58,124 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 05:47:58,125 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.096.03 ERROR 2025-06-26 05:47:58,125 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.096.03 INFO 2025-06-26 05:47:58,138 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_cal.nc INFO 2025-06-26 05:47:58,185 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 05:47:58,189 process.py align():251 [1] Alignment steps for 2004.096.03 INFO 2025-06-26 05:47:58,212 align.py process_cal():139 [1] Processing dorado_2004.096.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.096.03 INFO 2025-06-26 05:47:58,220 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:47:58,222 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:47:58,247 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:47:58,254 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:47:58,274 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:47:58,276 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:47:58,285 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:47:58,285 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:47:58,292 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:47:58,294 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:47:58,310 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:47:58,312 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,328 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:47:58,330 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,344 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:47:58,346 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,361 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,363 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,379 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,381 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,397 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,399 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,414 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,416 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,432 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,434 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,449 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,451 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,467 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,469 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,484 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,487 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,502 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,504 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,519 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,521 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,537 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,539 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,555 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,558 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,574 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,576 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,593 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,596 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,613 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,616 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,633 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,635 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,653 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.096.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:47:58,655 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:47:58,675 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:47:58,692 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:47:58,710 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:47:58,728 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:47:58,745 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:47:58,760 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_align.nc INFO 2025-06-26 05:47:58,805 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 05:47:58,807 process.py resample():273 [1] Resampling steps for 2004.096.03 INFO 2025-06-26 05:47:58,807 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:47:58,830 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_align.nc mission netCDF file INFO 2025-06-26 05:47:58,835 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_align.nc mission netCDF file INFO 2025-06-26 05:47:58,836 resample.py get_mission_start_end():1145 [1] navigation: 2004-04-05T04:57:37.973108096 to 2004-04-05T05:41:22.563311360 (0 days 00:00:00.089993728 before mission_end) INFO 2025-06-26 05:47:58,837 resample.py get_mission_start_end():1145 [1] hs2 : 2004-04-05T04:57:19.904345728 to 2004-04-05T05:41:22.453318784 (0 days 00:00:00.199986304 before mission_end) INFO 2025-06-26 05:47:58,838 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-04-05T04:57:35.583271680 to 2004-04-05T05:41:22.533313280 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 05:47:58,840 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-04-05T04:57:35.813256064 to 2004-04-05T05:41:22.533313280 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 05:47:58,841 resample.py get_mission_start_end():1145 [1] isus : 2004-04-05T04:58:31.879415296 to 2004-04-05T05:41:22.623307264 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 05:47:58,842 resample.py get_mission_start_end():1145 [1] biolume : 2004-04-05T04:57:15.084641664 to 2004-04-05T05:41:21.853325568 (0 days 00:00:00.799979520 before mission_end) INFO 2025-06-26 05:47:58,843 resample.py get_mission_start_end():1145 [1] tailcone : 2004-04-05T04:57:17.234528768 to 2004-04-05T05:41:22.653305088 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:47:58,844 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_align.nc mission netCDF file INFO 2025-06-26 05:47:58,844 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,897 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,909 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,921 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,933 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,944 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,955 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,966 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,977 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,987 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:58,997 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,007 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,017 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,027 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,036 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,046 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,056 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,067 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,078 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,089 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,100 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,110 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,122 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,131 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,140 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,149 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,159 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,171 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 05:47:59,278 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_1S.nc INFO 2025-06-26 05:48:00,020 create_products.py gulper_odv():401 [1] No gulper times found for 2004.096.03 INFO 2025-06-26 05:48:00,021 process.py archive():337 [1] Archiving steps for 2004.096.03 INFO 2025-06-26 05:48:00,021 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03, BASE_PATH = /data/auv_data INFO 2025-06-26 05:48:00,021 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 05:48:00,022 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.096.03_1S.nc INFO 2025-06-26 05:48:00,030 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:48:00,031 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.096.03_cal.nc INFO 2025-06-26 05:48:00,047 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:48:00,048 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.096.03_align.nc INFO 2025-06-26 05:48:00,065 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 05:48:00,076 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,084 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,089 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,096 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,107 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,111 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,117 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,124 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,136 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004096/2004.096.03 done. INFO 2025-06-26 05:48:00,136 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:48:00,136 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.096.03/dorado_2004.096.03_processing.log /Volumes/AUVCTD/surveys/2004/netcdf