INFO 2025-06-26 10:44:42,991 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 10:44:42,991 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled 7/26/05 - ctdToUse = ctd1 INFO 2025-06-26 10:44:42,991 process.py process_mission():449 [1] Processing BIOLUME mission 2005.217.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:44:42,991 process.py download_process():165 [1] Download and processing steps for 2005.217.00 INFO 2025-06-26 10:44:42,991 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005217/2005.217.00 INFO 2025-06-26 10:44:42,991 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005217/2005.217.00 to /data/auv_data/dorado/missionlogs/2005.217.00 INFO 2025-06-26 10:44:43,741 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.217.00 INFO 2025-06-26 10:44:43,741 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/ctdDriver.log (9135851 bytes) INFO 2025-06-26 10:44:44,421 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/ctdDriver2.log (9135757 bytes) INFO 2025-06-26 10:44:45,107 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/gps.log (88484 bytes) INFO 2025-06-26 10:44:45,125 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/hydroscatlog.log (6231914 bytes) INFO 2025-06-26 10:44:45,868 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/navigation.log (30631274 bytes) INFO 2025-06-26 10:44:48,088 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/isuslog.log (559637 bytes) INFO 2025-06-26 10:44:48,146 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.217.00/isuslog.log: [1 2 3 5 6 7 8] INFO 2025-06-26 10:44:48,148 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/parosci.log (13338326 bytes) INFO 2025-06-26 10:44:49,330 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/tailCone.log (6235195 bytes) INFO 2025-06-26 10:44:50,137 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.217.00/biolume.log (7069964 bytes) INFO 2025-06-26 10:44:50,855 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:44:51,224 logs2netcdfs.py download_process_logs():807 [1] Time to process: 7.48 seconds WARNING 2025-06-26 10:44:51,224 process.py download_process():196 [1] No lopc.bin file for 2005.217.00 INFO 2025-06-26 10:44:51,224 process.py calibrate():227 [1] Calibration steps for 2005.217.00 INFO 2025-06-26 10:44:51,443 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 10:44:51,445 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:44:53,080 calibrate.py _nudge_pos():1806 [1] 184: 0.050 -0.0000540 -0.0001041 1340 4.46 -1.792 -4.321 2005-08-05T03:31:37.060128512 INFO 2025-06-26 10:44:53,090 calibrate.py _nudge_pos():1806 [1] 185: 0.040 0.0000369 0.0000040 40 0.13 42.060 5.764 2005-08-05T03:31:45.059580544 INFO 2025-06-26 10:44:54,109 calibrate.py _nudge_pos():1806 [1] 290: 0.050 -0.0009720 0.0004471 9640 32.13 -4.483 2.579 2005-08-05T04:05:37.060378752 INFO 2025-06-26 10:44:54,755 calibrate.py _nudge_pos():1806 [1] 356: 0.050 -0.0011703 0.0004235 10235 34.11 -5.085 2.300 2005-08-05T04:40:49.065696768 INFO 2025-06-26 10:44:55,309 calibrate.py _nudge_pos():1806 [1] 412: 0.050 -0.0016203 0.0004628 10255 34.18 -7.029 2.509 2005-08-05T05:15:55.061425920 INFO 2025-06-26 10:44:55,928 calibrate.py _nudge_pos():1806 [1] 475: 0.060 -0.0064278 0.0000839 11150 37.16 -25.657 0.419 2005-08-05T05:54:07.064413056 INFO 2025-06-26 10:44:56,859 calibrate.py _nudge_pos():1806 [1] 568: 0.040 -0.0061559 0.0007192 9560 31.86 -28.669 4.183 2005-08-05T06:27:31.067129344 INFO 2025-06-26 10:44:57,824 calibrate.py _nudge_pos():1806 [1] 661: 0.050 -0.0052792 0.0012387 9830 32.76 -23.919 7.006 2005-08-05T07:01:49.066146816 INFO 2025-06-26 10:44:58,442 calibrate.py _nudge_pos():1806 [1] 720: 0.050 -0.0014855 0.0005930 4660 15.53 -14.201 7.075 2005-08-05T07:18:19.068327168 INFO 2025-06-26 10:44:59,196 calibrate.py _nudge_pos():1806 [1] 793: 0.050 0.0004894 0.0015684 10950 36.50 1.991 7.963 2005-08-05T07:56:01.063369728 INFO 2025-06-26 10:44:59,889 calibrate.py _nudge_pos():1806 [1] 859: 0.050 0.0007492 0.0010779 10805 36.01 3.091 5.546 2005-08-05T08:33:07.060878464 INFO 2025-06-26 10:45:00,667 calibrate.py _nudge_pos():1806 [1] 931: 0.050 0.0000829 -0.0001005 10565 35.21 0.350 -0.529 2005-08-05T09:09:31.061264256 INFO 2025-06-26 10:45:01,321 calibrate.py _nudge_pos():1806 [1] 994: 0.050 0.0000133 -0.0001987 9800 32.66 0.060 -1.127 2005-08-05T09:43:13.062747776 INFO 2025-06-26 10:45:01,913 calibrate.py _nudge_pos():1806 [1] 1051: 0.060 -0.0002035 -0.0001584 9830 32.76 -0.924 -0.896 2005-08-05T10:16:55.064231168 INFO 2025-06-26 10:45:02,597 calibrate.py _nudge_pos():1806 [1] 1116: 0.060 -0.0000204 -0.0000370 2410 8.03 -0.378 -0.853 2005-08-05T10:26:01.066827264 INFO 2025-06-26 10:45:03,294 calibrate.py _nudge_pos():1806 [1] 1183: 0.060 0.0003160 0.0001100 2820 9.40 5.001 2.168 2005-08-05T10:36:31.063669632 INFO 2025-06-26 10:45:03,659 calibrate.py _nudge_pos():1862 [1] 1195: - - - 5 0.01 - - INFO 2025-06-26 10:45:03,659 calibrate.py _nudge_pos():1868 [1] Points in final series = 129784 WARNING 2025-06-26 10:45:03,878 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:45:04,074 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 2 of 103850 INFO 2025-06-26 10:45:04,904 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:45:05,921 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:45:06,711 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:45:06,713 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.217.00/ctd1.nc INFO 2025-06-26 10:45:06,715 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:45:06,715 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 10:45:06,715 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:45:07,663 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:45:08,473 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:45:08,476 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.217.00/ctd2.nc INFO 2025-06-26 10:45:08,477 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:45:08,477 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 10:45:08,477 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:45:09,334 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:45:10,614 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [339540 448740] INFO 2025-06-26 10:45:10,858 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:45:10,864 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 10:45:10,865 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.217.00 ERROR 2025-06-26 10:45:10,865 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.217.00 INFO 2025-06-26 10:45:10,971 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_cal.nc INFO 2025-06-26 10:45:11,084 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 10:45:11,089 process.py align():251 [1] Alignment steps for 2005.217.00 INFO 2025-06-26 10:45:11,121 align.py process_cal():139 [1] Processing dorado_2005.217.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.217.00 INFO 2025-06-26 10:45:11,159 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:45:11,163 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:45:11,258 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:45:11,264 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:45:11,354 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:45:11,359 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:45:11,413 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:45:11,413 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:45:11,449 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:45:11,454 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:45:11,543 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:45:11,548 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:11,627 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:45:11,632 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:11,711 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:45:11,716 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:11,795 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:11,800 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:11,880 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:11,885 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:11,964 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:11,969 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,050 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,055 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,135 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,140 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,219 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,224 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,302 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,307 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,387 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,392 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,470 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,475 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,562 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,566 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,647 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,652 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,730 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,735 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,814 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,819 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,899 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,904 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:12,983 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:12,988 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:13,069 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:13,074 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:13,155 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.217.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:45:13,160 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:45:13,258 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:45:13,325 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:45:13,392 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.67 INFO 2025-06-26 10:45:13,463 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:45:13,537 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:45:13,601 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_align.nc INFO 2025-06-26 10:45:13,695 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 10:45:13,697 process.py resample():273 [1] Resampling steps for 2005.217.00 INFO 2025-06-26 10:45:13,698 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:45:13,726 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_align.nc mission netCDF file INFO 2025-06-26 10:45:13,732 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_align.nc mission netCDF file INFO 2025-06-26 10:45:13,734 resample.py get_mission_start_end():1145 [1] navigation: 2005-08-05T03:24:28.279501952 to 2005-08-05T10:37:05.061340544 (0 days 00:00:00.039997312 before mission_end) INFO 2025-06-26 10:45:13,736 resample.py get_mission_start_end():1145 [1] hs2 : 2005-08-05T03:24:11.140675968 to 2005-08-05T10:37:05.051341312 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 10:45:13,738 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-08-05T03:24:33.719129344 to 2005-08-05T10:37:05.091338624 (0 days 00:00:00.009999232 before mission_end) INFO 2025-06-26 10:45:13,740 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-08-05T03:24:33.609136768 to 2005-08-05T10:37:05.001344640 (0 days 00:00:00.099993216 before mission_end) INFO 2025-06-26 10:45:13,742 resample.py get_mission_start_end():1145 [1] isus : 2005-08-05T03:25:09.916649600 to 2005-08-05T10:37:04.481380224 (0 days 00:00:00.619957632 before mission_end) INFO 2025-06-26 10:45:13,743 resample.py get_mission_start_end():1145 [1] biolume : 2005-08-05T03:24:06.280974592 to 2005-08-05T10:37:04.511344000 (0 days 00:00:00.589993856 before mission_end) INFO 2025-06-26 10:45:13,745 resample.py get_mission_start_end():1145 [1] tailcone : 2005-08-05T03:24:06.730978304 to 2005-08-05T10:37:05.101337856 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:45:13,746 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_align.nc mission netCDF file INFO 2025-06-26 10:45:13,747 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,028 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,077 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,125 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,174 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,217 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,258 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,298 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,338 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,375 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,413 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,451 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,489 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,527 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,565 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,602 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,639 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,679 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,719 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,759 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,798 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,838 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,878 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,895 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,912 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,926 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,944 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:14,989 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:45:15,237 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_1S.nc INFO 2025-06-26 10:45:16,345 create_products.py gulper_odv():401 [1] No gulper times found for 2005.217.00 INFO 2025-06-26 10:45:16,345 process.py archive():337 [1] Archiving steps for 2005.217.00 INFO 2025-06-26 10:45:16,345 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:45:16,345 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:45:16,346 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.217.00_1S.nc INFO 2025-06-26 10:45:16,370 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:45:16,371 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.217.00_cal.nc INFO 2025-06-26 10:45:16,484 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:45:16,485 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.217.00_align.nc INFO 2025-06-26 10:45:16,598 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:45:16,628 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,655 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,660 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,680 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,767 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,774 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,811 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,835 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,909 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005217/2005.217.00 done. INFO 2025-06-26 10:45:16,909 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:45:16,910 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.217.00/dorado_2005.217.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf