INFO 2025-06-26 05:36:03,779 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 05:36:03,779 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 7/1/05: 2 separate surveys close to the beach - ctdToUse = ctd1 INFO 2025-06-26 05:36:03,779 process.py process_mission():449 [1] Processing AUVCTD mission 2003.224.08 by user docker_user on host 671049448ece INFO 2025-06-26 05:36:03,779 process.py download_process():165 [1] Download and processing steps for 2003.224.08 INFO 2025-06-26 05:36:03,779 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003224/2003.224.08 INFO 2025-06-26 05:36:03,779 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003224/2003.224.08 to /data/auv_data/dorado/missionlogs/2003.224.08 INFO 2025-06-26 05:36:05,820 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.224.08 INFO 2025-06-26 05:36:05,821 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/ctdDriver.log (5784635 bytes) INFO 2025-06-26 05:36:06,218 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2003.224.08/ctdDriver.log: [8127] INFO 2025-06-26 05:36:06,234 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/ctdDriver2.log (5783397 bytes) INFO 2025-06-26 05:36:06,632 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2003.224.08/ctdDriver2.log: [4435] INFO 2025-06-26 05:36:06,650 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/gps.log (33146 bytes) INFO 2025-06-26 05:36:06,661 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/hydroscatlog.log (3948734 bytes) INFO 2025-06-26 05:36:07,123 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/navigation.log (16111950 bytes) INFO 2025-06-26 05:36:08,252 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/isuslog.log (317717 bytes) INFO 2025-06-26 05:36:08,290 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/parosci.log (3950870 bytes) INFO 2025-06-26 05:36:08,625 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/tailCone.log (3950107 bytes) WARNING 2025-06-26 05:36:08,625 logs2netcdfs.py download_process_logs():795 [1] Failed to parse long_name & units from header in file /data/auv_data/dorado/missionlogs/2003.224.08/tailCone.log INFO 2025-06-26 05:36:08,625 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.224.08/biolume.log (4480496 bytes) INFO 2025-06-26 05:36:09,038 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:36:09,270 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.45 seconds WARNING 2025-06-26 05:36:09,271 process.py download_process():196 [1] No lopc.bin file for 2003.224.08 INFO 2025-06-26 05:36:09,271 process.py calibrate():227 [1] Calibration steps for 2003.224.08 INFO 2025-06-26 05:36:09,415 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.224.08 INFO 2025-06-26 05:36:09,435 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 05:36:09,436 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:36:10,049 calibrate.py _nudge_pos():1806 [1] 83: 0.160 0.0000113 0.0000072 20 0.06 26.518 21.144 2003-08-12T14:29:59.007828608 INFO 2025-06-26 05:36:10,710 calibrate.py _nudge_pos():1806 [1] 153: 0.170 0.0000565 -0.0000223 20 0.06 132.524 -65.115 2003-08-12T14:31:12.002828160 INFO 2025-06-26 05:36:10,767 calibrate.py _nudge_pos():1806 [1] 159: 0.170 0.0000010 -0.0000142 15 0.05 3.154 -56.303 2003-08-12T14:31:20.002280064 INFO 2025-06-26 05:36:10,870 calibrate.py _nudge_pos():1806 [1] 170: 0.110 0.0058501 -0.0053745 11406 38.02 22.856 -26.196 2003-08-12T15:09:31.205321984 INFO 2025-06-26 05:36:11,357 calibrate.py _nudge_pos():1806 [1] 222: 0.060 0.0061059 -0.0060568 11416 38.05 23.833 -29.496 2003-08-12T15:48:25.405418240 INFO 2025-06-26 05:36:11,933 calibrate.py _nudge_pos():1806 [1] 283: 0.010 0.0050615 -0.0049296 11551 38.50 19.523 -23.726 2003-08-12T16:27:55.603048704 INFO 2025-06-26 05:36:12,438 calibrate.py _nudge_pos():1806 [1] 336: 0.160 0.0023818 -0.0046922 11410 38.03 9.300 -22.863 2003-08-12T17:06:49.603158656 INFO 2025-06-26 05:36:12,986 calibrate.py _nudge_pos():1806 [1] 395: 0.100 0.0011900 -0.0040793 11591 38.63 4.573 -19.566 2003-08-12T17:46:25.810377344 INFO 2025-06-26 05:36:13,483 calibrate.py _nudge_pos():1806 [1] 448: 0.060 0.0013365 -0.0029633 11321 37.73 5.258 -14.552 2003-08-12T18:25:02.011706752 INFO 2025-06-26 05:36:14,130 calibrate.py _nudge_pos():1806 [1] 517: 0.200 0.0014591 -0.0026548 10910 36.36 5.956 -13.528 2003-08-12T19:02:32.007571456 INFO 2025-06-26 05:36:14,345 calibrate.py _nudge_pos():1862 [1] 518: - - - 1 0.00 - - INFO 2025-06-26 05:36:14,345 calibrate.py _nudge_pos():1868 [1] Points in final series = 82183 WARNING 2025-06-26 05:36:14,414 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:36:15,081 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:19,749 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:20,244 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:20,246 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.224.08/ctd1.nc INFO 2025-06-26 05:36:20,247 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:36:20,247 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 05:36:20,248 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:36:23,868 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:24,354 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:24,356 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.224.08/ctd2.nc INFO 2025-06-26 05:36:24,357 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:36:24,358 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 05:36:24,358 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:36:24,384 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:36:25,091 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 14340 30060 41220 51660 59040 72360 82920 123240 137640 143460 201660 218940 225840 249900 302760 341100 348240 356700 383100 387960 388200 394680 395880 397620 398220 398400 398880 399300 399480 403560 579780 589620 601380 619980 693060 706320 706980 718380 734520 737040 747420 749160 795060 815880 822360] INFO 2025-06-26 05:36:25,235 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: 0 seconds ERROR 2025-06-26 05:36:25,241 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 05:36:25,242 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.224.08 ERROR 2025-06-26 05:36:25,242 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.224.08 ERROR 2025-06-26 05:36:25,242 calibrate.py process_logs():3542 [1] Error processing tailcone: tailcone has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.224.08 INFO 2025-06-26 05:36:25,243 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_cal.nc INFO 2025-06-26 05:36:30,416 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, time INFO 2025-06-26 05:36:30,420 process.py align():251 [1] Alignment steps for 2003.224.08 INFO 2025-06-26 05:36:30,445 align.py process_cal():139 [1] Processing dorado_2003.224.08_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.224.08 INFO 2025-06-26 05:36:30,470 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:30,474 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:30,535 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:30,540 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:30,601 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:30,605 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:30,642 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:36:30,642 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:36:30,666 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:30,670 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:30,728 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:30,732 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:30,785 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:30,789 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:30,842 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:30,845 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:30,897 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:30,901 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:30,954 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:30,958 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,011 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,015 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,068 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,071 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,123 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,127 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,180 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,184 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,236 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,240 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,294 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,298 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,352 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,356 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,409 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,413 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,466 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,470 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,524 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,528 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,580 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,585 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,639 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,643 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,697 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,701 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,756 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,760 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,813 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.224.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:31,817 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:31,876 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:31,915 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:31,954 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:31,995 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:36:32,012 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_align.nc INFO 2025-06-26 05:36:32,079 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 INFO 2025-06-26 05:36:32,081 process.py resample():273 [1] Resampling steps for 2003.224.08 INFO 2025-06-26 05:36:32,082 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:36:32,104 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_align.nc mission netCDF file INFO 2025-06-26 05:36:32,109 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_align.nc mission netCDF file INFO 2025-06-26 05:36:32,110 resample.py get_mission_start_end():1145 [1] navigation: 2003-08-12T14:28:55.012212608 to 2003-08-12T19:02:54.406036992 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 05:36:32,111 resample.py get_mission_start_end():1145 [1] hs2 : 2003-08-12T14:28:36.923451776 to 2003-08-12T19:02:54.446034304 (0 days 00:00:00.069995136 before mission_end) INFO 2025-06-26 05:36:32,113 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-08-12T14:28:53.062346240 to 2003-08-12T19:02:54.476032256 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 05:36:32,115 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-08-12T14:28:52.872359296 to 2003-08-12T19:02:54.516029440 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:36:32,116 resample.py get_mission_start_end():1145 [1] isus : 2003-08-12T14:29:49.538477312 to 2003-08-12T19:02:53.616091136 (0 days 00:00:00.899938304 before mission_end) INFO 2025-06-26 05:36:32,117 resample.py get_mission_start_end():1145 [1] biolume : 2003-08-12T14:28:32.183742336 to 2003-08-12T19:02:53.936034944 (0 days 00:00:00.579994496 before mission_end) INFO 2025-06-26 05:36:32,118 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_align.nc mission netCDF file INFO 2025-06-26 05:36:32,118 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,302 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,335 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,366 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,398 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,426 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,455 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,483 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,510 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,536 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,561 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,587 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,612 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,637 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,661 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,686 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,711 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,739 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,768 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,796 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,825 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,852 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,880 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,894 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,906 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,918 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:32,931 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:33,115 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_1S.nc INFO 2025-06-26 05:36:34,558 create_products.py gulper_odv():401 [1] No gulper times found for 2003.224.08 INFO 2025-06-26 05:36:34,558 process.py archive():337 [1] Archiving steps for 2003.224.08 INFO 2025-06-26 05:36:34,558 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08, BASE_PATH = /data/auv_data INFO 2025-06-26 05:36:34,559 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:36:34,560 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.224.08_1S.nc INFO 2025-06-26 05:36:34,577 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:34,578 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.224.08_cal.nc INFO 2025-06-26 05:36:34,646 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:34,647 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.224.08_align.nc INFO 2025-06-26 05:36:34,711 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:34,734 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,755 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,759 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,777 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,829 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,835 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,851 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,903 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003224/2003.224.08 done. INFO 2025-06-26 05:36:34,903 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:36:34,903 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.224.08/dorado_2003.224.08_processing.log /Volumes/AUVCTD/surveys/2003/netcdf