INFO 2025-06-26 10:30:26,478 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 10:30:26,478 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 10:30:26,479 process.py process_mission():449 [1] Processing BIOLUME mission 2005.020.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:30:26,479 process.py download_process():165 [1] Download and processing steps for 2005.020.00 INFO 2025-06-26 10:30:26,479 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005020/2005.020.00 INFO 2025-06-26 10:30:26,479 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005020/2005.020.00 to /data/auv_data/dorado/missionlogs/2005.020.00 INFO 2025-06-26 10:30:26,617 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.020.00 INFO 2025-06-26 10:30:26,618 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/ctdDriver.log (702723 bytes) INFO 2025-06-26 10:30:26,676 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/ctdDriver2.log (706325 bytes) INFO 2025-06-26 10:30:26,746 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/gps.log (46940 bytes) INFO 2025-06-26 10:30:26,758 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/hydroscatlog.log (484694 bytes) INFO 2025-06-26 10:30:26,823 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/navigation.log (2360362 bytes) INFO 2025-06-26 10:30:27,008 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/isuslog.log (8341 bytes) INFO 2025-06-26 10:30:27,013 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.020.00/isuslog.log: [1] INFO 2025-06-26 10:30:27,014 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/parosci.log (468998 bytes) INFO 2025-06-26 10:30:27,058 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/tailCone.log (485515 bytes) INFO 2025-06-26 10:30:27,126 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.020.00/biolume.log (552844 bytes) INFO 2025-06-26 10:30:27,181 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:30:27,214 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.60 seconds WARNING 2025-06-26 10:30:27,214 process.py download_process():196 [1] No lopc.bin file for 2005.020.00 INFO 2025-06-26 10:30:27,214 process.py calibrate():227 [1] Calibration steps for 2005.020.00 INFO 2025-06-26 10:30:27,284 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 10:30:27,285 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:30:28,174 calibrate.py _nudge_pos():1806 [1] 114: 0.100 -0.0002327 -0.0000155 995 3.31 -10.420 -0.866 2005-01-20T16:11:54.638879744 INFO 2025-06-26 10:30:28,955 calibrate.py _nudge_pos():1806 [1] 199: 0.110 -0.0011685 -0.0008527 5400 18.00 -9.634 -8.780 2005-01-20T16:31:18.639140352 INFO 2025-06-26 10:30:29,377 calibrate.py _nudge_pos():1806 [1] 244: 0.100 -0.0001002 -0.0000329 530 1.76 -8.431 -3.462 2005-01-20T16:33:48.638864768 INFO 2025-06-26 10:30:33,051 calibrate.py _nudge_pos():1862 [1] 617: - - - 3 0.01 - - INFO 2025-06-26 10:30:33,051 calibrate.py _nudge_pos():1868 [1] Points in final series = 9991 WARNING 2025-06-26 10:30:33,063 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 4.76 Hz INFO 2025-06-26 10:30:33,152 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:33,245 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:33,306 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:33,308 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.020.00/ctd1.nc INFO 2025-06-26 10:30:33,309 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:30:33,309 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 10:30:33,309 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:30:33,396 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 15 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:33,459 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 15 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:33,460 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.020.00/ctd2.nc INFO 2025-06-26 10:30:33,461 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:30:33,462 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 10:30:33,462 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:30:33,482 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:30:33,587 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: 0 seconds ERROR 2025-06-26 10:30:33,592 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 10:30:33,592 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.020.00 ERROR 2025-06-26 10:30:33,592 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.020.00 INFO 2025-06-26 10:30:33,604 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_cal.nc INFO 2025-06-26 10:30:33,648 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 10:30:33,652 process.py align():251 [1] Alignment steps for 2005.020.00 INFO 2025-06-26 10:30:33,674 align.py process_cal():139 [1] Processing dorado_2005.020.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.020.00 INFO 2025-06-26 10:30:33,681 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:33,683 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:33,698 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:33,700 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:33,714 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:33,716 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:33,724 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:30:33,724 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:30:33,730 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:33,731 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:33,746 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:33,747 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,761 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:33,763 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,777 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:33,778 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,792 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,794 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,808 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,810 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,823 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,825 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,839 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,841 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,855 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,857 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,870 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,873 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,886 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,889 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,902 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,904 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,918 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,920 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,934 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,935 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,949 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,951 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,966 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,968 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,983 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:33,985 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:33,999 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:34,002 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:34,017 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:34,019 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:34,034 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:34,036 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:34,050 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.020.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:34,052 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:34,069 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:34,084 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:34,098 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:34,113 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:30:34,129 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:34,143 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_align.nc INFO 2025-06-26 10:30:34,187 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 10:30:34,190 process.py resample():273 [1] Resampling steps for 2005.020.00 INFO 2025-06-26 10:30:34,190 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:30:34,211 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_align.nc mission netCDF file INFO 2025-06-26 10:30:34,216 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_align.nc mission netCDF file INFO 2025-06-26 10:30:34,218 resample.py get_mission_start_end():1145 [1] navigation: 2005-01-20T16:07:05.848663296 to 2005-01-20T16:40:24.241764096 (0 days 00:00:00.299979392 before mission_end) INFO 2025-06-26 10:30:34,221 resample.py get_mission_start_end():1145 [1] hs2 : 2005-01-20T16:06:47.959888640 to 2005-01-20T16:40:24.481747584 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 10:30:34,223 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-01-20T16:07:10.358354304 to 2005-01-20T16:40:24.541743488 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:30:34,224 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-01-20T16:06:59.989064704 to 2005-01-20T16:40:24.431751040 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 10:30:34,226 resample.py get_mission_start_end():1145 [1] isus : 2005-01-20T16:08:03.754696320 to 2005-01-20T16:40:21.101979008 (0 days 00:00:03.439764480 before mission_end) INFO 2025-06-26 10:30:34,227 resample.py get_mission_start_end():1145 [1] biolume : 2005-01-20T16:06:43.200180480 to 2005-01-20T16:40:24.031744256 (0 days 00:00:00.509999232 before mission_end) INFO 2025-06-26 10:30:34,228 resample.py get_mission_start_end():1145 [1] tailcone : 2005-01-20T16:06:43.430199168 to 2005-01-20T16:40:24.401752960 (0 days 00:00:00.139990528 before mission_end) INFO 2025-06-26 10:30:34,229 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_align.nc mission netCDF file INFO 2025-06-26 10:30:34,229 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,277 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,289 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,300 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,311 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,322 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,332 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,342 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,353 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,362 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,372 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,382 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,391 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,400 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,409 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,418 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,427 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,438 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,449 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,459 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,470 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,481 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,491 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,500 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,508 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,515 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,524 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,536 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:34,637 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_1S.nc INFO 2025-06-26 10:30:35,531 create_products.py gulper_odv():401 [1] No gulper times found for 2005.020.00 INFO 2025-06-26 10:30:35,531 process.py archive():337 [1] Archiving steps for 2005.020.00 INFO 2025-06-26 10:30:35,531 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:30:35,531 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:30:35,532 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.00_1S.nc INFO 2025-06-26 10:30:35,541 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:35,542 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.00_cal.nc INFO 2025-06-26 10:30:35,556 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:35,557 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.020.00_align.nc INFO 2025-06-26 10:30:35,571 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:35,580 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,587 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,591 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,597 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,608 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,613 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,619 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,626 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,637 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005020/2005.020.00 done. INFO 2025-06-26 10:30:35,638 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:30:35,638 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.020.00/dorado_2005.020.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf