INFO 2025-06-26 10:30:35,648 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 10:30:35,648 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Elkhorn Slough plume racetrack Monterey triangle (missing short mission 01) - ctdToUse = ctd1 INFO 2025-06-26 10:30:35,649 process.py process_mission():449 [1] Processing BIOLUME mission 2005.020.02 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:30:35,649 process.py download_process():165 [1] Download and processing steps for 2005.020.02 INFO 2025-06-26 10:30:35,649 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005020/2005.020.02 INFO 2025-06-26 10:30:35,649 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005020/2005.020.02 to /data/auv_data/dorado/missionlogs/2005.020.02 INFO 2025-06-26 10:30:35,828 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.020.02 INFO 2025-06-26 10:30:35,829 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/ctdDriver.log (1311595 bytes) INFO 2025-06-26 10:30:35,932 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/ctdDriver2.log (1315109 bytes) INFO 2025-06-26 10:30:36,051 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/gps.log (18428 bytes) INFO 2025-06-26 10:30:36,066 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/hydroscatlog.log (897734 bytes) INFO 2025-06-26 10:30:36,237 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/navigation.log (4394210 bytes) INFO 2025-06-26 10:30:36,633 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/isuslog.log (15445 bytes) INFO 2025-06-26 10:30:36,639 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/parosci.log (886022 bytes) INFO 2025-06-26 10:30:36,717 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/tailCone.log (898315 bytes) INFO 2025-06-26 10:30:36,834 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.02/biolume.log (1020956 bytes) INFO 2025-06-26 10:30:36,940 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:30:37,000 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.17 seconds WARNING 2025-06-26 10:30:37,000 process.py download_process():196 [1] No lopc.bin file for 2005.020.02 INFO 2025-06-26 10:30:37,000 process.py calibrate():227 [1] Calibration steps for 2005.020.02 INFO 2025-06-26 10:30:37,082 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 10:30:37,084 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:30:37,679 calibrate.py _nudge_pos():1806 [1] 79: 0.010 -0.0004994 0.0002914 3750 12.50 -5.930 4.321 2005-01-20T16:56:06.727199360 INFO 2025-06-26 10:30:38,165 calibrate.py _nudge_pos():1806 [1] 131: 0.020 -0.0042359 0.0002253 8625 28.75 -21.859 1.452 2005-01-20T17:25:42.725535104 INFO 2025-06-26 10:30:38,604 calibrate.py _nudge_pos():1806 [1] 178: 0.010 -0.0008929 -0.0008511 5140 17.13 -7.734 -9.207 2005-01-20T17:43:36.731960576 INFO 2025-06-26 10:30:39,219 calibrate.py _nudge_pos():1862 [1] 223: - - - 1 0.00 - - INFO 2025-06-26 10:30:39,219 calibrate.py _nudge_pos():1868 [1] Points in final series = 18611 WARNING 2025-06-26 10:30:39,237 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:30:39,465 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:39,642 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:39,757 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:39,758 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.020.02/ctd1.nc INFO 2025-06-26 10:30:39,760 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 10:30:39,760 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 10:30:39,760 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:30:39,903 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 8 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:40,022 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 8 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:40,024 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.020.02/ctd2.nc INFO 2025-06-26 10:30:40,026 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:30:40,026 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 10:30:40,026 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:30:40,036 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:30:40,201 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [222600] INFO 2025-06-26 10:30:40,237 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: 0 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:30:40,242 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 10:30:40,243 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.020.02 ERROR 2025-06-26 10:30:40,243 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.020.02 INFO 2025-06-26 10:30:40,261 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_cal.nc INFO 2025-06-26 10:30:40,313 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 10:30:40,317 process.py align():251 [1] Alignment steps for 2005.020.02 INFO 2025-06-26 10:30:40,340 align.py process_cal():139 [1] Processing dorado_2005.020.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.020.02 INFO 2025-06-26 10:30:40,349 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:40,351 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:40,373 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:40,375 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:40,396 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:40,398 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:40,410 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:30:40,410 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:30:40,419 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:40,422 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:40,442 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:40,445 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,464 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:40,467 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,486 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:40,488 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,507 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,509 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,528 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,531 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,550 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,552 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,571 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,573 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,591 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,594 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,613 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,615 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,634 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,637 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,656 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,659 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,693 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,695 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,715 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,717 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,737 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,739 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,760 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,763 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,784 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,787 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,809 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,812 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,831 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,833 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,853 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,855 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,874 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:40,876 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:40,899 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:40,916 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:40,933 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:40,951 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:30:40,973 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:40,991 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_align.nc INFO 2025-06-26 10:30:41,043 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 10:30:41,045 process.py resample():273 [1] Resampling steps for 2005.020.02 INFO 2025-06-26 10:30:41,045 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:30:41,067 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_align.nc mission netCDF file INFO 2025-06-26 10:30:41,072 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_align.nc mission netCDF file INFO 2025-06-26 10:30:41,074 resample.py get_mission_start_end():1145 [1] navigation: 2005-01-20T16:42:39.942467968 to 2005-01-20T17:44:41.927494528 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:30:41,075 resample.py get_mission_start_end():1145 [1] hs2 : 2005-01-20T16:42:23.813572864 to 2005-01-20T17:44:41.867498624 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:30:41,077 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-01-20T16:42:37.712620672 to 2005-01-20T17:44:41.847499904 (0 days 00:00:00.079994624 before mission_end) INFO 2025-06-26 10:30:41,078 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-01-20T16:42:27.543317376 to 2005-01-20T17:44:41.747506816 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 10:30:41,079 resample.py get_mission_start_end():1145 [1] isus : 2005-01-20T16:43:43.508113408 to 2005-01-20T17:44:40.587586176 (0 days 00:00:01.339908352 before mission_end) INFO 2025-06-26 10:30:41,081 resample.py get_mission_start_end():1145 [1] biolume : 2005-01-20T16:42:19.043865216 to 2005-01-20T17:44:40.717543168 (0 days 00:00:01.209951360 before mission_end) INFO 2025-06-26 10:30:41,082 resample.py get_mission_start_end():1145 [1] tailcone : 2005-01-20T16:42:20.203820032 to 2005-01-20T17:44:41.827501312 (0 days 00:00:00.099993216 before mission_end) INFO 2025-06-26 10:30:41,082 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_align.nc mission netCDF file INFO 2025-06-26 10:30:41,083 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,146 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,160 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,173 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,186 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,198 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,211 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,223 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,235 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,246 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,257 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,268 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,279 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,290 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,301 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,313 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,324 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,338 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,351 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,364 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,376 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,388 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,401 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,410 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,420 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,429 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,439 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,453 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:41,578 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_1S.nc INFO 2025-06-26 10:30:42,591 create_products.py gulper_odv():401 [1] No gulper times found for 2005.020.02 INFO 2025-06-26 10:30:42,591 process.py archive():337 [1] Archiving steps for 2005.020.02 INFO 2025-06-26 10:30:42,591 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02, BASE_PATH = /data/auv_data INFO 2025-06-26 10:30:42,591 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:30:42,593 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.02_1S.nc INFO 2025-06-26 10:30:42,603 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:42,603 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.02_cal.nc INFO 2025-06-26 10:30:42,625 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:42,626 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.02_align.nc INFO 2025-06-26 10:30:42,647 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:42,656 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,664 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,668 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,675 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,693 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,699 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,707 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,715 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,731 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.02 done. INFO 2025-06-26 10:30:42,731 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:30:42,731 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.02/dorado_2005.020.02_processing.log /Volumes/AUVCTD/surveys/2005/netcdf