INFO 2025-06-26 12:36:46,569 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 12:36:46,570 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Volume survey around M0 for Scholin - ctdToUse = ctd1 INFO 2025-06-26 12:36:46,570 process.py process_mission():449 [1] Processing AUVCTD mission 2007.123.07 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:36:46,570 process.py download_process():165 [1] Download and processing steps for 2007.123.07 INFO 2025-06-26 12:36:46,570 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007123/2007.123.07 INFO 2025-06-26 12:36:46,570 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007123/2007.123.07 to /data/auv_data/dorado/missionlogs/2007.123.07 INFO 2025-06-26 12:36:48,666 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.123.07 INFO 2025-06-26 12:36:48,667 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/ctdDriver.log (2736755 bytes) INFO 2025-06-26 12:36:48,865 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.07/ctdDriver.log: [ 140 325 382 439 463 626 653 744 814 970 1004 1188 1450 1488 1585 1949 2164 2361 2422 2764 2971 3184 3264 3507 3558 4096 4167 4509 4822 5008 5259 5374 5565 6278 6822 6950 7219 7277 7509 8082 8524 8537 9653 10308 10585 11764 11953 12648 13766 14498 15473 16061 16493 16881 17795 19017 19034 19446 19657 22910 23224 24791 25320 29630 30031] INFO 2025-06-26 12:36:48,874 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/ctdDriver2.log (2737101 bytes) INFO 2025-06-26 12:36:49,089 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.07/ctdDriver2.log: [ 139 324 381 439 462 625 653 744 812 969 991 1003 1187 1268 1448 1482 1536 1584 1603 1820 2161 2224 2360 2420 2763 3184 3265 3506 3652 4097 4168 4510 4825 4918 5261 5375 5567 6824 6952 7221 7279 7854 8082 8538 9655 10309 10586 11764 12141 12649 12861 14060 14502 15038 15477 16497 16676 16885 17798 19020 19038 19450 19661 22915 23229 24796 27169 29634] INFO 2025-06-26 12:36:49,098 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/gps.log (55508 bytes) INFO 2025-06-26 12:36:49,113 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/hydroscatlog.log (1871954 bytes) INFO 2025-06-26 12:36:49,335 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.07/hydroscatlog.log: [ 3 34 307 317 415 472 530 553 642 716 779 835 842 1062 1118 1315 1541 1575 1665 1695 1912 2442 2455 2515 2706 2858 3064 3280 3281 3282 3283 3324 3604 3750 3776 4607 5016 5347 5474 5666 6376 7317 7376 8498 9473 9751 10406 10682 10683 10720 10906 11357 11861 12746 13862 14597 15133 15572 16291 16592 19113 19754 21179 23930 24020 25415 26062 29722 30123] INFO 2025-06-26 12:36:49,341 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/navigation.log (9148194 bytes) INFO 2025-06-26 12:36:50,048 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/isuslog.log (174293 bytes) INFO 2025-06-26 12:36:50,069 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/parosci.log (3272678 bytes) INFO 2025-06-26 12:36:50,345 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.07/tailCone.log (387019 bytes) INFO 2025-06-26 12:36:50,398 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.73 seconds WARNING 2025-06-26 12:36:50,399 process.py download_process():196 [1] No lopc.bin file for 2007.123.07 INFO 2025-06-26 12:36:50,399 process.py calibrate():227 [1] Calibration steps for 2007.123.07 INFO 2025-06-26 12:36:50,496 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 12:36:50,498 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:36:51,332 calibrate.py _nudge_pos():1806 [1] 113: 0.190 -0.0001055 -0.0001046 3391 11.43 -1.369 -1.695 2007-05-03T19:28:29.973175296 INFO 2025-06-26 12:36:52,034 calibrate.py _nudge_pos():1806 [1] 187: 0.200 0.0000183 -0.0001464 5225 17.48 0.155 -1.552 2007-05-03T19:47:11.966313728 INFO 2025-06-26 12:36:52,711 calibrate.py _nudge_pos():1806 [1] 258: 0.190 -0.0001133 -0.0000083 1985 6.63 -2.534 -0.231 2007-05-03T19:54:59.974252800 INFO 2025-06-26 12:36:53,433 calibrate.py _nudge_pos():1806 [1] 335: 0.190 0.0000513 0.0001621 5393 18.03 0.422 1.666 2007-05-03T20:14:17.974924288 INFO 2025-06-26 12:36:53,995 calibrate.py _nudge_pos():1806 [1] 395: 0.200 -0.0001285 0.0000247 1832 6.11 -3.119 0.748 2007-05-03T20:21:23.965741824 INFO 2025-06-26 12:36:54,005 calibrate.py _nudge_pos():1806 [1] 396: 0.190 -0.0000410 0.0001307 44 0.14 -42.397 168.963 2007-05-03T20:21:32.975124736 INFO 2025-06-26 12:36:54,508 calibrate.py _nudge_pos():1806 [1] 448: 0.190 0.0000498 -0.0001274 3385 11.30 0.654 -2.089 2007-05-03T20:33:41.975184896 INFO 2025-06-26 12:36:54,838 calibrate.py _nudge_pos():1806 [1] 483: 0.200 0.0000294 -0.0001163 2616 8.73 0.499 -2.468 2007-05-03T20:42:59.966959616 INFO 2025-06-26 12:36:55,274 calibrate.py _nudge_pos():1806 [1] 529: 0.200 -0.0001153 0.0000277 1874 6.25 -2.738 0.821 2007-05-03T20:49:59.968187904 INFO 2025-06-26 12:36:55,304 calibrate.py _nudge_pos():1806 [1] 532: 0.200 0.0000649 -0.0000240 109 0.36 26.720 -12.356 2007-05-03T20:50:23.966543616 INFO 2025-06-26 12:36:55,715 calibrate.py _nudge_pos():1806 [1] 576: 0.190 0.0000009 0.0001208 4515 15.08 0.009 1.484 2007-05-03T21:06:11.971600896 INFO 2025-06-26 12:36:55,997 calibrate.py _nudge_pos():1806 [1] 606: 0.190 -0.0000095 0.0000029 19 0.06 -23.513 8.823 2007-05-03T21:06:44.969340672 INFO 2025-06-26 12:36:56,026 calibrate.py _nudge_pos():1806 [1] 609: 0.190 -0.0001100 -0.0000405 2134 7.11 -2.294 -1.056 2007-05-03T21:13:53.969951744 INFO 2025-06-26 12:36:56,308 calibrate.py _nudge_pos():1806 [1] 639: 0.190 0.0000481 -0.0001540 2672 8.91 0.801 -3.202 2007-05-03T21:23:17.971315200 INFO 2025-06-26 12:36:57,465 calibrate.py _nudge_pos():1862 [1] 727: - - - 5 0.01 - - INFO 2025-06-26 12:36:57,466 calibrate.py _nudge_pos():1868 [1] Points in final series = 38463 WARNING 2025-06-26 12:36:57,524 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 9.09 Hz INFO 2025-06-26 12:37:01,805 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 2 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:37:04,107 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 23 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:37:04,343 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 23 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:37:04,345 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.123.07/ctd1.nc INFO 2025-06-26 12:37:04,346 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 12:37:04,346 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 12:37:04,346 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:37:06,061 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 23 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:37:06,295 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 23 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:37:06,297 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.123.07/ctd2.nc INFO 2025-06-26 12:37:06,298 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 12:37:06,299 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 12:37:06,299 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 12:37:06,310 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.07 ERROR 2025-06-26 12:37:06,311 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.07 ERROR 2025-06-26 12:37:06,311 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.07 INFO 2025-06-26 12:37:06,322 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_cal.nc INFO 2025-06-26 12:37:08,774 calibrate.py write_netcdf():3512 [1] Data variables written: 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 12:37:08,778 process.py align():251 [1] Alignment steps for 2007.123.07 INFO 2025-06-26 12:37:08,802 align.py process_cal():139 [1] Processing dorado_2007.123.07_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.123.07 INFO 2025-06-26 12:37:08,816 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:37:08,819 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:37:08,852 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:37:08,855 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:37:08,887 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:37:08,889 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:37:08,908 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:37:08,908 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:37:08,920 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:37:08,923 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:37:08,953 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:08,956 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:08,985 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:08,987 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,016 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,019 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,047 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,050 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,078 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,080 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,108 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,111 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,139 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,142 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,170 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,173 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,201 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,204 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,232 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,235 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,264 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,267 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,295 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,297 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,326 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,328 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,357 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,360 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,389 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,392 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,420 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,423 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,453 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,456 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,484 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,487 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,517 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,520 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,549 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.07_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:37:09,552 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:37:09,587 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:37:09,614 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:37:09,641 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.70 INFO 2025-06-26 12:37:09,668 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.03 INFO 2025-06-26 12:37:09,682 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_align.nc INFO 2025-06-26 12:37:09,732 align.py write_netcdf():342 [1] Data variables written: 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 12:37:09,734 process.py resample():273 [1] Resampling steps for 2007.123.07 INFO 2025-06-26 12:37:09,735 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:37:09,756 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_align.nc mission netCDF file INFO 2025-06-26 12:37:09,760 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_align.nc mission netCDF file INFO 2025-06-26 12:37:09,761 resample.py get_mission_start_end():1145 [1] navigation: 2007-05-03T19:15:44.575608832 to 2007-05-03T21:25:18.173080576 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:37:09,763 resample.py get_mission_start_end():1145 [1] hs2 : 2007-05-03T19:15:18.627386368 to 2007-05-03T21:25:18.113084672 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 12:37:09,764 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-05-03T19:15:39.785936896 to 2007-05-03T21:25:18.103085568 (0 days 00:00:00.069995008 before mission_end) INFO 2025-06-26 12:37:09,765 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-05-03T19:15:40.115913984 to 2007-05-03T21:25:18.163081472 (0 days 00:00:00.009999104 before mission_end) INFO 2025-06-26 12:37:09,767 resample.py get_mission_start_end():1145 [1] isus : 2007-05-03T19:16:27.572663040 to 2007-05-03T21:25:16.963163648 (0 days 00:00:01.209916928 before mission_end) INFO 2025-06-26 12:37:09,768 resample.py get_mission_start_end():1145 [1] tailcone : 2007-05-03T19:15:17.657452544 to 2007-05-03T21:25:17.953095936 (0 days 00:00:00.219984640 before mission_end) INFO 2025-06-26 12:37:09,768 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_align.nc mission netCDF file INFO 2025-06-26 12:37:09,769 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,871 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,892 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,911 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,929 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,947 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,965 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,982 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:09,999 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,017 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,032 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,048 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,064 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,079 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,094 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,110 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,125 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,141 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,158 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,174 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,190 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,206 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,222 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,233 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,244 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,254 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,266 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:37:10,407 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_1S.nc INFO 2025-06-26 12:37:12,021 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 12:37:19,989 create_products.py gulper_odv():522 [1] Wrote 6 Gulper data lines to /data/auv_data/dorado/missionodvs/2007.123.07/dorado_2007.123.07_1S_Gulper.txt INFO 2025-06-26 12:37:19,989 process.py archive():337 [1] Archiving steps for 2007.123.07 INFO 2025-06-26 12:37:19,989 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07, BASE_PATH = /data/auv_data INFO 2025-06-26 12:37:19,991 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 12:37:19,992 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.07_1S.nc INFO 2025-06-26 12:37:20,004 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:37:20,006 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.07_cal.nc INFO 2025-06-26 12:37:20,045 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:37:20,047 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.07_align.nc INFO 2025-06-26 12:37:20,082 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:37:20,099 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,112 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,117 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,128 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,158 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,163 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,180 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,188 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.07 done. INFO 2025-06-26 12:37:20,188 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:37:20,189 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2007/odv/dorado_2007.123.07_1S_Gulper.txt INFO 2025-06-26 12:37:20,195 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2007.123.07/dorado_2007.123.07_1S_Gulper.txt /Volumes/AUVCTD/surveys/2007/odv done. INFO 2025-06-26 12:37:20,196 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.07/dorado_2007.123.07_processing.log /Volumes/AUVCTD/surveys/2007/netcdf