INFO 2025-06-26 05:44:41,057 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 05:44:41,057 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/12/05 - ctdToUse = ctd1 INFO 2025-06-26 05:44:41,057 process.py process_mission():449 [1] Processing BIOLUME mission 2003.338.16 by user docker_user on host 671049448ece INFO 2025-06-26 05:44:41,057 process.py download_process():165 [1] Download and processing steps for 2003.338.16 INFO 2025-06-26 05:44:41,057 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003338/2003.338.16 INFO 2025-06-26 05:44:41,057 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003338/2003.338.16 to /data/auv_data/dorado/missionlogs/2003.338.16 INFO 2025-06-26 05:44:42,053 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.338.16 INFO 2025-06-26 05:44:42,053 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/ctdDriver.log (1013011 bytes) INFO 2025-06-26 05:44:42,134 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/ctdDriver2.log (1013093 bytes) INFO 2025-06-26 05:44:42,214 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/gps.log (11546 bytes) INFO 2025-06-26 05:44:42,222 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/hydroscatlog.log (692594 bytes) INFO 2025-06-26 05:44:42,311 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/navigation.log (2809767 bytes) INFO 2025-06-26 05:44:42,526 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/isuslog.log (54709 bytes) INFO 2025-06-26 05:44:42,536 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/parosci.log (693062 bytes) INFO 2025-06-26 05:44:42,599 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/tailCone.log (693259 bytes) INFO 2025-06-26 05:44:42,695 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.338.16/biolume.log (788396 bytes) INFO 2025-06-26 05:44:42,775 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:44:42,821 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.77 seconds WARNING 2025-06-26 05:44:42,822 process.py download_process():196 [1] No lopc.bin file for 2003.338.16 INFO 2025-06-26 05:44:42,822 process.py calibrate():227 [1] Calibration steps for 2003.338.16 INFO 2025-06-26 05:44:42,890 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.338.16 INFO 2025-06-26 05:44:42,897 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 05:44:42,899 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:44:44,229 calibrate.py _nudge_pos():1806 [1] 160: 0.090 0.0000033 0.0000722 60 0.20 2.469 67.965 2003-12-04T06:51:44.727358720 INFO 2025-06-26 05:44:44,298 calibrate.py _nudge_pos():1806 [1] 167: 0.100 0.0186677 0.0151264 13490 44.96 61.781 62.338 2003-12-04T07:36:48.722122368 INFO 2025-06-26 05:44:44,413 calibrate.py _nudge_pos():1862 [1] 159: - - - 0 0.00 - - INFO 2025-06-26 05:44:44,413 calibrate.py _nudge_pos():1868 [1] Points in final series = 14327 WARNING 2025-06-26 05:44:44,428 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:44:44,550 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:44:44,675 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:44:44,767 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:44:44,768 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.338.16/ctd1.nc INFO 2025-06-26 05:44:44,769 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:44:44,770 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 05:44:44,770 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:44:44,887 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:44:44,979 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 10 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:44:44,981 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.338.16/ctd2.nc INFO 2025-06-26 05:44:44,982 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:44:44,983 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 05:44:44,983 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:44:44,993 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:44:45,119 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [45240 45241 45242 45243 45244 45245 45246 45247 45248 45249 45250 45251 45252 45253 45254 45255 45256 45257 45258 45259 45260 45261 45262 45263 45264 45265 45266 45267 45268 45269] INFO 2025-06-26 05:44:45,145 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:44:45,150 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 05:44:45,151 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.338.16 ERROR 2025-06-26 05:44:45,151 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.338.16 INFO 2025-06-26 05:44:45,165 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_cal.nc INFO 2025-06-26 05:44:45,213 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 05:44:45,217 process.py align():251 [1] Alignment steps for 2003.338.16 INFO 2025-06-26 05:44:45,240 align.py process_cal():139 [1] Processing dorado_2003.338.16_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.338.16 INFO 2025-06-26 05:44:45,248 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:44:45,249 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:44:45,268 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:44:45,269 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:44:45,286 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:44:45,288 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:44:45,298 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:44:45,298 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:44:45,304 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:44:45,306 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:44:45,323 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:44:45,325 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,341 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:44:45,343 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,358 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:44:45,360 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,376 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,378 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,395 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,397 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,413 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,415 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,430 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,432 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,448 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,450 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,467 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,469 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,484 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,486 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,502 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,505 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,521 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,523 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,540 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,541 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,558 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,560 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,578 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,580 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,596 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,599 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,615 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,618 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,634 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,636 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,653 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,655 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,672 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.338.16_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:44:45,673 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:44:45,693 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:44:45,709 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:44:45,726 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:44:45,743 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:44:45,761 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:44:45,776 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_align.nc INFO 2025-06-26 05:44:45,825 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 05:44:45,827 process.py resample():273 [1] Resampling steps for 2003.338.16 INFO 2025-06-26 05:44:45,828 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:44:45,852 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_align.nc mission netCDF file INFO 2025-06-26 05:44:45,857 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_align.nc mission netCDF file INFO 2025-06-26 05:44:45,858 resample.py get_mission_start_end():1145 [1] navigation: 2003-12-04T06:49:15.527579648 to 2003-12-04T07:37:00.721300352 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 05:44:45,860 resample.py get_mission_start_end():1145 [1] hs2 : 2003-12-04T06:48:58.018779008 to 2003-12-04T07:37:00.851291520 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 05:44:45,861 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-12-04T06:49:05.188288000 to 2003-12-04T07:37:00.871290112 (0 days 00:00:00.019998592 before mission_end) INFO 2025-06-26 05:44:45,862 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-12-04T06:49:04.958303744 to 2003-12-04T07:37:00.891288704 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:44:45,864 resample.py get_mission_start_end():1145 [1] isus : 2003-12-04T06:50:09.813860736 to 2003-12-04T07:37:00.581310080 (0 days 00:00:00.309978624 before mission_end) INFO 2025-06-26 05:44:45,865 resample.py get_mission_start_end():1145 [1] biolume : 2003-12-04T06:48:53.089082496 to 2003-12-04T07:36:59.841326464 (0 days 00:00:01.049962240 before mission_end) INFO 2025-06-26 05:44:45,867 resample.py get_mission_start_end():1145 [1] tailcone : 2003-12-04T06:48:54.619011968 to 2003-12-04T07:37:00.791295616 (0 days 00:00:00.099993088 before mission_end) INFO 2025-06-26 05:44:45,867 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_align.nc mission netCDF file INFO 2025-06-26 05:44:45,868 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,923 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,935 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,948 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,960 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,973 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,985 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:45,997 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,008 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,018 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,028 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,038 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,048 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,058 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,068 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,078 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,087 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,099 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,110 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,120 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,131 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,141 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,152 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,161 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,170 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,179 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,188 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,201 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 05:44:46,309 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_1S.nc INFO 2025-06-26 05:44:47,046 create_products.py gulper_odv():401 [1] No gulper times found for 2003.338.16 INFO 2025-06-26 05:44:47,046 process.py archive():337 [1] Archiving steps for 2003.338.16 INFO 2025-06-26 05:44:47,047 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16, BASE_PATH = /data/auv_data INFO 2025-06-26 05:44:47,047 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:44:47,048 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.338.16_1S.nc INFO 2025-06-26 05:44:47,057 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:44:47,058 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.338.16_cal.nc INFO 2025-06-26 05:44:47,081 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:44:47,081 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.338.16_align.nc INFO 2025-06-26 05:44:47,099 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:44:47,109 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,117 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,121 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,129 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,143 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,147 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,157 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,165 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,178 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003338/2003.338.16 done. INFO 2025-06-26 05:44:47,178 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:44:47,178 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.338.16/dorado_2003.338.16_processing.log /Volumes/AUVCTD/surveys/2003/netcdf