INFO 2025-06-26 05:36:50,941 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 05:36:50,942 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 7/7/05 - ctdToUse = ctd1 INFO 2025-06-26 05:36:50,942 process.py process_mission():449 [1] Processing BIOLUME mission 2003.226.02 by user docker_user on host 671049448ece INFO 2025-06-26 05:36:50,942 process.py download_process():165 [1] Download and processing steps for 2003.226.02 INFO 2025-06-26 05:36:50,942 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003226/2003.226.02 INFO 2025-06-26 05:36:50,942 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003226/2003.226.02 to /data/auv_data/dorado/missionlogs/2003.226.02 INFO 2025-06-26 05:36:52,872 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.226.02 INFO 2025-06-26 05:36:52,872 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/ctdDriver.log (5076587 bytes) INFO 2025-06-26 05:36:53,265 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/ctdDriver2.log (5076757 bytes) INFO 2025-06-26 05:36:53,658 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/gps.log (29726 bytes) INFO 2025-06-26 05:36:53,668 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/hydroscatlog.log (3463994 bytes) INFO 2025-06-26 05:36:54,092 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/navigation.log (14131762 bytes) INFO 2025-06-26 05:36:55,094 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/isuslog.log (278197 bytes) INFO 2025-06-26 05:36:55,125 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/parosci.log (3466022 bytes) INFO 2025-06-26 05:36:55,420 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/tailCone.log (3465787 bytes) WARNING 2025-06-26 05:36:55,420 logs2netcdfs.py download_process_logs():795 [1] Failed to parse long_name & units from header in file /data/auv_data/dorado/missionlogs/2003.226.02/tailCone.log INFO 2025-06-26 05:36:55,421 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.226.02/biolume.log (3930784 bytes) INFO 2025-06-26 05:36:55,794 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:36:56,000 logs2netcdfs.py download_process_logs():807 [1] Time to process: 3.13 seconds WARNING 2025-06-26 05:36:56,001 process.py download_process():196 [1] No lopc.bin file for 2003.226.02 INFO 2025-06-26 05:36:56,001 process.py calibrate():227 [1] Calibration steps for 2003.226.02 INFO 2025-06-26 05:36:56,199 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.226.02 INFO 2025-06-26 05:36:56,218 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 05:36:56,220 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:36:57,668 calibrate.py _nudge_pos():1806 [1] 172: 0.160 0.0010722 0.0003036 12490 41.63 3.822 1.351 2003-08-14T06:46:20.569239424 INFO 2025-06-26 05:36:58,141 calibrate.py _nudge_pos():1806 [1] 222: 0.170 -0.0000070 -0.0000167 25 0.08 -13.004 -38.713 2003-08-14T06:47:14.565540480 INFO 2025-06-26 05:36:58,190 calibrate.py _nudge_pos():1806 [1] 227: 0.140 0.0008931 -0.0007796 13810 46.03 2.879 -3.138 2003-08-14T07:33:20.766042752 INFO 2025-06-26 05:36:58,669 calibrate.py _nudge_pos():1806 [1] 276: 0.130 -0.0005132 -0.0015427 13590 45.30 -1.682 -6.310 2003-08-14T08:19:26.966545024 INFO 2025-06-26 05:36:59,183 calibrate.py _nudge_pos():1806 [1] 330: 0.130 -0.0000054 -0.0000012 15 0.05 -17.305 -4.676 2003-08-14T08:20:22.962708992 INFO 2025-06-26 05:36:59,250 calibrate.py _nudge_pos():1806 [1] 337: 0.100 0.0002621 -0.0005395 13521 45.07 0.864 -2.218 2003-08-14T09:05:33.167047296 INFO 2025-06-26 05:36:59,945 calibrate.py _nudge_pos():1806 [1] 408: 0.070 -0.0002821 -0.0025352 13481 44.93 -0.932 -10.455 2003-08-14T09:51:39.367549568 INFO 2025-06-26 05:37:00,442 calibrate.py _nudge_pos():1806 [1] 456: 0.080 -0.0000348 -0.0000066 15 0.05 -110.843 -26.033 2003-08-14T09:52:29.364124544 INFO 2025-06-26 05:37:00,531 calibrate.py _nudge_pos():1806 [1] 465: 0.120 -0.0000447 -0.0008955 2890 9.63 -0.689 -17.231 2003-08-14T10:02:15.363980800 INFO 2025-06-26 05:37:00,699 calibrate.py _nudge_pos():1862 [1] 461: - - - 3 0.01 - - INFO 2025-06-26 05:37:00,699 calibrate.py _nudge_pos():1868 [1] Points in final series = 72046 WARNING 2025-06-26 05:37:00,758 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:37:01,306 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:37:01,847 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:37:02,270 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:37:02,272 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.226.02/ctd1.nc INFO 2025-06-26 05:37:02,273 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:37:02,273 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 05:37:02,273 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:37:02,778 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:37:03,199 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 05:37:03,201 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.226.02/ctd2.nc INFO 2025-06-26 05:37:03,202 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:37:03,203 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 05:37:03,203 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:37:03,227 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:37:03,836 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 1140 106500 134040 163200 182640 185580 187440 213840 216060 251640 261060 292320 327240 343920 346860 357840 547980 564060 569040 572580 583080 616920 616921 616922 616923 616924 616925 616926 616927 616928 616929 616930 616931 616932 616933 616934 616935 616936 616937 616938 616939 616940 616941 616942 616943 616944 616945 616946 616947 616948 616949 616950 642780 658560 658920 709380 720000 742920 748920 751320 758160 863520 865380] INFO 2025-06-26 05:37:03,959 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:37:03,965 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 05:37:03,965 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.226.02 ERROR 2025-06-26 05:37:03,965 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.226.02 ERROR 2025-06-26 05:37:03,965 calibrate.py process_logs():3542 [1] Error processing tailcone: tailcone has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.226.02 INFO 2025-06-26 05:37:03,966 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_cal.nc INFO 2025-06-26 05:37:04,038 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 05:37:04,042 process.py align():251 [1] Alignment steps for 2003.226.02 INFO 2025-06-26 05:37:04,070 align.py process_cal():139 [1] Processing dorado_2003.226.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.226.02 INFO 2025-06-26 05:37:04,093 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:37:04,097 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:37:04,155 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:37:04,159 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:37:04,214 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:37:04,218 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:37:04,250 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:37:04,251 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:37:04,272 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:37:04,277 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:37:04,330 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:37:04,333 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,382 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:37:04,386 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,434 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:37:04,438 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,487 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,491 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,539 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,542 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,591 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,595 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,643 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,647 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,695 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,699 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,748 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,752 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,800 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,804 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,853 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,857 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,906 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,910 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:04,959 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:04,962 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,012 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,016 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,067 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,071 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,120 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,124 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,173 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,177 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,227 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,231 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,282 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,286 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,335 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.226.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:37:05,339 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:37:05,393 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:37:05,428 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:37:05,464 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.60 INFO 2025-06-26 05:37:05,501 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:37:05,517 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_align.nc INFO 2025-06-26 05:37:05,578 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 05:37:05,581 process.py resample():273 [1] Resampling steps for 2003.226.02 INFO 2025-06-26 05:37:05,581 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:37:05,603 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_align.nc mission netCDF file INFO 2025-06-26 05:37:05,608 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_align.nc mission netCDF file INFO 2025-06-26 05:37:05,609 resample.py get_mission_start_end():1145 [1] navigation: 2003-08-14T06:02:13.770557568 to 2003-08-14T10:02:32.962775168 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:37:05,611 resample.py get_mission_start_end():1145 [1] hs2 : 2003-08-14T06:01:55.691796096 to 2003-08-14T10:02:32.852782720 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 05:37:05,612 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-08-14T06:02:11.830690432 to 2003-08-14T10:02:32.912778624 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 05:37:05,614 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-08-14T06:02:11.620704768 to 2003-08-14T10:02:32.932777344 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 05:37:05,615 resample.py get_mission_start_end():1145 [1] isus : 2003-08-14T06:03:08.276823680 to 2003-08-14T10:02:31.732859520 (0 days 00:00:01.229915648 before mission_end) INFO 2025-06-26 05:37:05,616 resample.py get_mission_start_end():1145 [1] biolume : 2003-08-14T06:01:50.942087168 to 2003-08-14T10:02:31.622832768 (0 days 00:00:01.339942400 before mission_end) INFO 2025-06-26 05:37:05,617 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_align.nc mission netCDF file INFO 2025-06-26 05:37:05,617 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,785 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,815 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,843 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,872 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,898 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,924 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,950 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,975 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:05,999 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,024 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,047 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,070 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,093 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,116 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,139 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,161 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,187 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,212 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,238 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,262 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,285 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,309 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,322 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,334 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,346 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,359 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:37:06,528 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_1S.nc INFO 2025-06-26 05:37:07,787 create_products.py gulper_odv():401 [1] No gulper times found for 2003.226.02 INFO 2025-06-26 05:37:07,788 process.py archive():337 [1] Archiving steps for 2003.226.02 INFO 2025-06-26 05:37:07,788 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02, BASE_PATH = /data/auv_data INFO 2025-06-26 05:37:07,789 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:37:07,790 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.226.02_1S.nc INFO 2025-06-26 05:37:07,807 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:37:07,807 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.226.02_cal.nc INFO 2025-06-26 05:37:07,870 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:37:07,870 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.226.02_align.nc INFO 2025-06-26 05:37:07,925 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:37:07,948 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:07,968 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:07,972 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:07,986 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:08,028 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:08,035 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:08,051 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:08,098 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003226/2003.226.02 done. INFO 2025-06-26 05:37:08,098 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:37:08,098 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.226.02/dorado_2003.226.02_processing.log /Volumes/AUVCTD/surveys/2003/netcdf