INFO 2025-06-26 05:35:10,756 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 05:35:10,756 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 7/1/05, added oxygen coefficients to ctdDriver2.cfg on 11 March 2015 - no change in oxygen values - ctdToUse = ctd1 INFO 2025-06-26 05:35:10,756 process.py process_mission():449 [1] Processing AUVCTD mission 2003.223.02 by user docker_user on host 671049448ece INFO 2025-06-26 05:35:10,757 process.py download_process():165 [1] Download and processing steps for 2003.223.02 INFO 2025-06-26 05:35:10,757 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003223/2003.223.02 INFO 2025-06-26 05:35:10,757 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003223/2003.223.02 to /data/auv_data/dorado/missionlogs/2003.223.02 INFO 2025-06-26 05:35:13,902 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.223.02 INFO 2025-06-26 05:35:13,903 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/ctdDriver.log (5385907 bytes) INFO 2025-06-26 05:35:14,324 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/ctdDriver2.log (5385725 bytes) INFO 2025-06-26 05:35:14,713 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/gps.log (31106 bytes) INFO 2025-06-26 05:35:14,723 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/hydroscatlog.log (3675254 bytes) INFO 2025-06-26 05:35:15,145 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/navigation.log (14995142 bytes) INFO 2025-06-26 05:35:16,181 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/isuslog.log (295701 bytes) INFO 2025-06-26 05:35:16,213 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/parosci.log (3677270 bytes) INFO 2025-06-26 05:35:16,519 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/tailCone.log (3677035 bytes) WARNING 2025-06-26 05:35:16,520 logs2netcdfs.py download_process_logs():795 [1] Failed to parse long_name & units from header in file /data/auv_data/dorado/missionlogs/2003.223.02/tailCone.log INFO 2025-06-26 05:35:16,520 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.223.02/biolume.log (4170416 bytes) INFO 2025-06-26 05:35:16,917 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:35:17,172 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.27 seconds WARNING 2025-06-26 05:35:17,173 process.py download_process():196 [1] No lopc.bin file for 2003.223.02 INFO 2025-06-26 05:35:17,173 process.py calibrate():227 [1] Calibration steps for 2003.223.02 INFO 2025-06-26 05:35:17,346 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.223.02 INFO 2025-06-26 05:35:17,365 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 05:35:17,367 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:35:18,478 calibrate.py _nudge_pos():1806 [1] 129: 0.110 -0.0000333 0.0000308 15 0.05 -105.536 122.315 2003-08-11T05:47:49.595457280 INFO 2025-06-26 05:35:18,986 calibrate.py _nudge_pos():1806 [1] 183: 0.060 0.0004537 -0.0001134 12576 41.92 1.603 -0.501 2003-08-11T06:30:37.799523200 INFO 2025-06-26 05:35:19,412 calibrate.py _nudge_pos():1806 [1] 228: 0.070 -0.0000668 -0.0000937 30 0.10 -102.323 -179.719 2003-08-11T06:31:27.796098176 INFO 2025-06-26 05:35:19,451 calibrate.py _nudge_pos():1806 [1] 232: 0.040 0.0001591 -0.0002479 13206 44.02 0.536 -1.043 2003-08-11T07:15:31.994958336 INFO 2025-06-26 05:35:20,010 calibrate.py _nudge_pos():1806 [1] 290: 0.020 -0.0015408 -0.0018045 13696 45.65 -5.003 -7.325 2003-08-11T08:02:08.193405568 INFO 2025-06-26 05:35:20,601 calibrate.py _nudge_pos():1806 [1] 350: 0.190 -0.0042028 -0.0007259 13775 45.91 -13.574 -2.929 2003-08-11T08:49:02.200632832 INFO 2025-06-26 05:35:21,270 calibrate.py _nudge_pos():1806 [1] 417: 0.170 -0.0049588 0.0014624 13645 45.48 -16.175 5.958 2003-08-11T09:35:38.399080192 INFO 2025-06-26 05:35:21,802 calibrate.py _nudge_pos():1806 [1] 472: 0.190 -0.0000038 0.0000080 55 0.18 -3.148 8.197 2003-08-11T09:36:43.394627584 INFO 2025-06-26 05:35:21,861 calibrate.py _nudge_pos():1806 [1] 478: 0.050 -0.0012899 0.0007826 5381 17.93 -10.672 8.086 2003-08-11T09:54:44.600560000 INFO 2025-06-26 05:35:21,920 calibrate.py _nudge_pos():1806 [1] 484: 0.070 -0.0006904 0.0002927 1745 5.81 -17.621 9.331 2003-08-11T10:00:38.596309504 INFO 2025-06-26 05:35:22,127 calibrate.py _nudge_pos():1862 [1] 485: - - - 3 0.01 - - INFO 2025-06-26 05:35:22,127 calibrate.py _nudge_pos():1868 [1] Points in final series = 76450 WARNING 2025-06-26 05:35:22,191 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:35:22,746 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:35:23,301 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:35:23,748 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:35:23,750 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.223.02/ctd1.nc INFO 2025-06-26 05:35:23,751 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:35:23,752 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 05:35:23,752 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:35:24,311 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:35:24,758 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:35:24,760 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.223.02/ctd2.nc INFO 2025-06-26 05:35:24,761 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:35:24,761 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 05:35:24,761 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:35:24,787 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:35:25,513 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [114840 118740 119820 119821 119822 119823 119824 119825 119826 119827 119828 119829 119830 119831 119832 119833 119834 119835 119836 119837 119838 119839 119840 119841 119842 119843 119844 119845 119846 119847 119848 119849 228000 247860 257100 258180 266880 270480 271920 278640 286440 292800 309480 327600 330000 413880 415440 609180 611460 651420 745380 770520 841860 864120] INFO 2025-06-26 05:35:25,646 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:35:25,651 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 05:35:25,652 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.223.02 ERROR 2025-06-26 05:35:25,652 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.223.02 ERROR 2025-06-26 05:35:25,652 calibrate.py process_logs():3542 [1] Error processing tailcone: tailcone has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.223.02 INFO 2025-06-26 05:35:25,653 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_cal.nc INFO 2025-06-26 05:35:25,729 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 05:35:25,733 process.py align():251 [1] Alignment steps for 2003.223.02 INFO 2025-06-26 05:35:25,760 align.py process_cal():139 [1] Processing dorado_2003.223.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.223.02 INFO 2025-06-26 05:35:25,784 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:35:25,787 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:35:25,846 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:35:25,850 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:35:25,905 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:35:25,909 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:35:25,943 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:35:25,943 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:35:25,965 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:35:25,969 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:35:26,025 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:35:26,029 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,080 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:35:26,083 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,133 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:35:26,136 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,186 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,189 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,240 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,244 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,294 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,297 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,347 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,351 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,400 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,404 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,454 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,457 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,507 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,510 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,560 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,564 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,614 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,617 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,667 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,670 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,720 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,723 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,776 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,779 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,831 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,835 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,886 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,890 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,941 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,944 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:26,994 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:26,998 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:27,048 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.223.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:35:27,052 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:35:27,106 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:35:27,143 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:35:27,179 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:35:27,218 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:35:27,234 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_align.nc INFO 2025-06-26 05:35:27,297 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 05:35:27,299 process.py resample():273 [1] Resampling steps for 2003.223.02 INFO 2025-06-26 05:35:27,299 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:35:27,322 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_align.nc mission netCDF file INFO 2025-06-26 05:35:27,326 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_align.nc mission netCDF file INFO 2025-06-26 05:35:27,328 resample.py get_mission_start_end():1145 [1] navigation: 2003-08-11T05:46:00.402937472 to 2003-08-11T10:01:00.234827264 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 05:35:27,329 resample.py get_mission_start_end():1145 [1] hs2 : 2003-08-11T05:45:42.344174592 to 2003-08-11T10:01:00.274824448 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:35:27,331 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-08-11T05:45:58.163090944 to 2003-08-11T10:01:00.274824448 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:35:27,333 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-08-11T05:45:58.523066240 to 2003-08-11T10:01:00.234827264 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 05:35:27,334 resample.py get_mission_start_end():1145 [1] isus : 2003-08-11T05:46:54.409237888 to 2003-08-11T10:00:58.934916224 (0 days 00:00:01.339908224 before mission_end) INFO 2025-06-26 05:35:27,335 resample.py get_mission_start_end():1145 [1] biolume : 2003-08-11T05:45:37.604465024 to 2003-08-11T10:00:59.294857344 (0 days 00:00:00.979967104 before mission_end) INFO 2025-06-26 05:35:27,336 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_align.nc mission netCDF file INFO 2025-06-26 05:35:27,336 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,510 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,544 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,575 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,606 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,634 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,660 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,687 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,713 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,738 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,763 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,787 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,811 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,835 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,860 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,884 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,908 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,935 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,964 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:27,991 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,017 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,044 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,070 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,084 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,096 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,108 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,122 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:35:28,296 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_1S.nc INFO 2025-06-26 05:35:29,512 create_products.py gulper_odv():401 [1] No gulper times found for 2003.223.02 INFO 2025-06-26 05:35:29,512 process.py archive():337 [1] Archiving steps for 2003.223.02 INFO 2025-06-26 05:35:29,512 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02, BASE_PATH = /data/auv_data INFO 2025-06-26 05:35:29,512 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:35:29,514 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.223.02_1S.nc INFO 2025-06-26 05:35:29,531 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:35:29,532 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.223.02_cal.nc INFO 2025-06-26 05:35:29,601 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:35:29,602 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.223.02_align.nc INFO 2025-06-26 05:35:29,665 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:35:29,688 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,711 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,716 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,733 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,786 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,792 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,809 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,860 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003223/2003.223.02 done. INFO 2025-06-26 05:35:29,860 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:35:29,860 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.223.02/dorado_2003.223.02_processing.log /Volumes/AUVCTD/surveys/2003/netcdf