INFO 2025-06-26 05:45:48,053 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 05:45:48,053 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/12/05 - ctdToUse = ctd1 INFO 2025-06-26 05:45:48,054 process.py process_mission():449 [1] Processing BIOLUME mission 2003.340.02 by user docker_user on host 671049448ece INFO 2025-06-26 05:45:48,054 process.py download_process():165 [1] Download and processing steps for 2003.340.02 INFO 2025-06-26 05:45:48,054 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003340/2003.340.02 INFO 2025-06-26 05:45:48,054 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003340/2003.340.02 to /data/auv_data/dorado/missionlogs/2003.340.02 INFO 2025-06-26 05:45:49,830 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.340.02 INFO 2025-06-26 05:45:49,830 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/ctdDriver.log (5132555 bytes) INFO 2025-06-26 05:45:50,319 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/ctdDriver2.log (5132549 bytes) INFO 2025-06-26 05:45:50,703 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/gps.log (28646 bytes) INFO 2025-06-26 05:45:50,714 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/hydroscatlog.log (3502214 bytes) INFO 2025-06-26 05:45:51,139 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/navigation.log (14287135 bytes) INFO 2025-06-26 05:45:52,147 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/isuslog.log (281013 bytes) INFO 2025-06-26 05:45:52,183 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/parosci.log (3503846 bytes) INFO 2025-06-26 05:45:52,522 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/tailCone.log (3503899 bytes) INFO 2025-06-26 05:45:52,956 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.340.02/biolume.log (3974332 bytes) INFO 2025-06-26 05:45:53,368 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:45:53,580 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.75 seconds WARNING 2025-06-26 05:45:53,581 process.py download_process():196 [1] No lopc.bin file for 2003.340.02 INFO 2025-06-26 05:45:53,581 process.py calibrate():227 [1] Calibration steps for 2003.340.02 INFO 2025-06-26 05:45:53,755 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.340.02 INFO 2025-06-26 05:45:53,774 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 05:45:53,776 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:45:55,474 calibrate.py _nudge_pos():1806 [1] 178: 0.090 -0.0020336 -0.0000636 12155 40.51 -7.438 -0.291 2003-12-06T06:01:54.795703168 INFO 2025-06-26 05:45:56,005 calibrate.py _nudge_pos():1806 [1] 230: 0.100 -0.0015136 -0.0011188 13035 43.45 -5.165 -4.772 2003-12-06T06:46:12.793617792 INFO 2025-06-26 05:45:56,516 calibrate.py _nudge_pos():1806 [1] 285: 0.100 -0.0020420 -0.0000495 13260 44.20 -6.852 -0.208 2003-12-06T07:31:18.798243712 INFO 2025-06-26 05:45:56,908 calibrate.py _nudge_pos():1806 [1] 327: 0.110 -0.0000139 -0.0000119 15 0.05 -44.150 -47.173 2003-12-06T07:32:02.795229824 INFO 2025-06-26 05:45:56,918 calibrate.py _nudge_pos():1806 [1] 328: 0.110 0.0000388 0.0000173 40 0.13 44.267 24.662 2003-12-06T07:32:10.794681728 INFO 2025-06-26 05:45:56,956 calibrate.py _nudge_pos():1806 [1] 332: 0.100 0.0000047 -0.0000286 35 0.11 6.095 -46.811 2003-12-06T07:32:20.793996800 INFO 2025-06-26 05:45:57,050 calibrate.py _nudge_pos():1806 [1] 342: 0.110 -0.0004877 -0.0004131 13115 43.71 -1.655 -1.751 2003-12-06T08:16:12.793692416 INFO 2025-06-26 05:45:57,442 calibrate.py _nudge_pos():1806 [1] 384: 0.100 -0.0001976 0.0000842 70 0.23 -127.503 67.876 2003-12-06T08:17:07.799924224 INFO 2025-06-26 05:45:57,471 calibrate.py _nudge_pos():1806 [1] 387: 0.110 0.0002260 -0.0015095 13480 44.93 0.747 -6.225 2003-12-06T09:02:06.795030528 INFO 2025-06-26 05:45:57,955 calibrate.py _nudge_pos():1806 [1] 438: 0.110 -0.0005720 -0.0003705 5510 18.36 -4.624 -3.738 2003-12-06T09:21:18.796112896 INFO 2025-06-26 05:45:58,213 calibrate.py _nudge_pos():1862 [1] 444: - - - 3 0.01 - - INFO 2025-06-26 05:45:58,213 calibrate.py _nudge_pos():1868 [1] Points in final series = 72885 WARNING 2025-06-26 05:45:58,273 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:45:58,377 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 1 of 58355 INFO 2025-06-26 05:45:58,812 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:45:59,343 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:45:59,767 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:45:59,769 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.340.02/ctd1.nc INFO 2025-06-26 05:45:59,770 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:45:59,770 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 05:45:59,771 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:46:00,280 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:46:00,707 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:46:00,709 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.340.02/ctd2.nc INFO 2025-06-26 05:46:00,710 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:46:00,711 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 05:46:00,711 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:46:00,736 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:46:01,426 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [408060 408061 408062 408063 408064 408065 408066 408067 408068 408069 408070 408071 408072 408073 408074 408075 408076 408077 408078 408079 408080 408081 408082 408083 408084 408085 408086 408087 408088 408089] INFO 2025-06-26 05:46:01,554 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:46:01,560 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 05:46:01,560 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.340.02 ERROR 2025-06-26 05:46:01,560 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.340.02 INFO 2025-06-26 05:46:01,620 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_cal.nc INFO 2025-06-26 05:46:01,694 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 05:46:01,698 process.py align():251 [1] Alignment steps for 2003.340.02 INFO 2025-06-26 05:46:01,726 align.py process_cal():139 [1] Processing dorado_2003.340.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.340.02 INFO 2025-06-26 05:46:01,749 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:46:01,752 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:46:01,809 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:46:01,813 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:46:01,867 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:46:01,870 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:46:01,903 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:46:01,903 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:46:01,924 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:46:01,928 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:46:01,981 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:46:01,984 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,033 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:46:02,036 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,084 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:46:02,087 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,135 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,138 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,187 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,191 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,239 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,242 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,291 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,294 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,341 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,345 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,394 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,398 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,446 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,449 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,498 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,502 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,550 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,554 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,604 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,607 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,655 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,659 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,708 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,711 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,759 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,763 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,811 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,815 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,862 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,866 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,914 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,918 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:02,966 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.340.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:46:02,969 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:46:03,023 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:46:03,058 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:46:03,094 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:46:03,133 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:46:03,171 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:46:03,212 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_align.nc INFO 2025-06-26 05:46:03,281 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 05:46:03,283 process.py resample():273 [1] Resampling steps for 2003.340.02 INFO 2025-06-26 05:46:03,284 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:46:03,308 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_align.nc mission netCDF file INFO 2025-06-26 05:46:03,313 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_align.nc mission netCDF file INFO 2025-06-26 05:46:03,314 resample.py get_mission_start_end():1145 [1] navigation: 2003-12-06T05:18:48.602869504 to 2003-12-06T09:21:45.394290816 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:46:03,316 resample.py get_mission_start_end():1145 [1] hs2 : 2003-12-06T05:18:30.684096896 to 2003-12-06T09:21:45.154307200 (0 days 00:00:00.239983616 before mission_end) INFO 2025-06-26 05:46:03,317 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-12-06T05:18:46.513012608 to 2003-12-06T09:21:45.314296320 (0 days 00:00:00.079994496 before mission_end) INFO 2025-06-26 05:46:03,319 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-12-06T05:18:46.503013376 to 2003-12-06T09:21:45.174305920 (0 days 00:00:00.219984896 before mission_end) INFO 2025-06-26 05:46:03,320 resample.py get_mission_start_end():1145 [1] isus : 2003-12-06T05:19:42.789157504 to 2003-12-06T09:21:44.794331904 (0 days 00:00:00.599958912 before mission_end) INFO 2025-06-26 05:46:03,322 resample.py get_mission_start_end():1145 [1] biolume : 2003-12-06T05:18:25.864392832 to 2003-12-06T09:21:44.624309248 (0 days 00:00:00.769981568 before mission_end) INFO 2025-06-26 05:46:03,323 resample.py get_mission_start_end():1145 [1] tailcone : 2003-12-06T05:18:26.814362112 to 2003-12-06T09:21:45.304296960 (0 days 00:00:00.089993856 before mission_end) INFO 2025-06-26 05:46:03,324 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_align.nc mission netCDF file INFO 2025-06-26 05:46:03,324 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,492 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,522 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,552 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,582 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,609 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,658 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,683 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,709 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,733 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,757 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,782 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,806 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,830 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,853 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,876 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,899 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,925 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,950 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:03,976 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,001 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,027 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,052 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,065 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,077 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,089 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,102 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,131 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 05:46:04,307 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_1S.nc INFO 2025-06-26 05:46:05,416 create_products.py gulper_odv():401 [1] No gulper times found for 2003.340.02 INFO 2025-06-26 05:46:05,416 process.py archive():337 [1] Archiving steps for 2003.340.02 INFO 2025-06-26 05:46:05,416 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02, BASE_PATH = /data/auv_data INFO 2025-06-26 05:46:05,417 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:46:05,418 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.340.02_1S.nc INFO 2025-06-26 05:46:05,434 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:46:05,435 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.340.02_cal.nc INFO 2025-06-26 05:46:05,504 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:46:05,505 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.340.02_align.nc INFO 2025-06-26 05:46:05,569 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:46:05,591 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,611 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,615 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,630 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,680 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,687 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,703 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,724 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,773 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003340/2003.340.02 done. INFO 2025-06-26 05:46:05,774 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:46:05,774 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.340.02/dorado_2003.340.02_processing.log /Volumes/AUVCTD/surveys/2003/netcdf