INFO 2025-06-26 12:36:15,544 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 12:36:15,544 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Volume survey around M0 for Scholin - ctdToUse = ctd1 INFO 2025-06-26 12:36:15,544 process.py process_mission():449 [1] Processing AUVCTD mission 2007.123.05 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:36:15,544 process.py download_process():165 [1] Download and processing steps for 2007.123.05 INFO 2025-06-26 12:36:15,544 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007123/2007.123.05 INFO 2025-06-26 12:36:15,544 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007123/2007.123.05 to /data/auv_data/dorado/missionlogs/2007.123.05 INFO 2025-06-26 12:36:17,655 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.123.05 INFO 2025-06-26 12:36:17,655 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/ctdDriver.log (2613819 bytes) INFO 2025-06-26 12:36:17,842 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.05/ctdDriver.log: [ 12 23 159 324 401 438 460 531 660 685 736 1010 1037 1182 1305 1444 1571 1675 1814 2102 2161 2507 3417 3744 4169 4874 5007 5241 5362 5920 6412 6717 7222 7369 7646 8340 10238 10809 11091 12527 13762 15437 16188 16242 16326 16491 16655 17147 18911 21054 23920 24098 24251 24789 25880 27549 29622] INFO 2025-06-26 12:36:17,849 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/ctdDriver2.log (2614253 bytes) INFO 2025-06-26 12:36:18,036 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.05/ctdDriver2.log: [ 4 12 23 159 226 324 401 437 460 531 659 685 736 1009 1037 1305 1416 1443 1488 1571 1599 1814 2101 2161 2761 3193 3343 3418 4170 4384 4873 5241 5535 6411 6717 7225 7372 7650 8348 9621 9669 10813 10969 11071 11095 11910 13764 15440 16189 16243 16656 16876 17148 18912 20043 23921 24099 24252 24260 24556 24790 25884 28424 29627] INFO 2025-06-26 12:36:18,046 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/gps.log (49748 bytes) INFO 2025-06-26 12:36:18,059 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/hydroscatlog.log (1788614 bytes) INFO 2025-06-26 12:36:18,288 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.123.05/hydroscatlog.log: [ 3 4 5 6 30 89 98 109 320 410 524 637 734 744 769 820 835 1052 1096 1097 1098 1099 1268 1391 1530 1612 1685 1900 2102 2155 2247 2318 2372 2902 3213 3280 3504 4256 4323 4917 4919 5199 5646 6369 7316 7742 8443 9715 10906 11063 11165 12010 12050 12628 12667 14086 14555 16342 16426 16975 20142 24020 24655 25095 25981 27776 29722] INFO 2025-06-26 12:36:18,293 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/navigation.log (8738970 bytes) INFO 2025-06-26 12:36:18,930 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/isuslog.log (166933 bytes) INFO 2025-06-26 12:36:18,950 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/parosci.log (3125990 bytes) INFO 2025-06-26 12:36:19,214 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.123.05/tailCone.log (367771 bytes) INFO 2025-06-26 12:36:19,267 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.61 seconds WARNING 2025-06-26 12:36:19,268 process.py download_process():196 [1] No lopc.bin file for 2007.123.05 INFO 2025-06-26 12:36:19,268 process.py calibrate():227 [1] Calibration steps for 2007.123.05 INFO 2025-06-26 12:36:19,359 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 12:36:19,361 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:36:20,038 calibrate.py _nudge_pos():1806 [1] 96: 0.060 0.0004306 0.0008669 1806 6.10 10.476 26.350 2007-05-03T15:50:12.110440448 INFO 2025-06-26 12:36:20,678 calibrate.py _nudge_pos():1806 [1] 164: 0.050 0.0008505 0.0021464 5930 19.88 6.345 20.007 2007-05-03T16:11:12.114124288 INFO 2025-06-26 12:36:21,402 calibrate.py _nudge_pos():1806 [1] 242: 0.050 0.0005538 0.0000801 957 3.21 25.563 4.622 2007-05-03T16:15:42.115627776 INFO 2025-06-26 12:36:21,940 calibrate.py _nudge_pos():1806 [1] 300: 0.050 -0.0000219 0.0029514 4415 14.75 -0.221 37.086 2007-05-03T16:31:24.111096832 INFO 2025-06-26 12:36:22,470 calibrate.py _nudge_pos():1806 [1] 357: 0.050 0.0000376 0.0002020 1246 4.16 1.341 8.990 2007-05-03T16:36:30.110134272 INFO 2025-06-26 12:36:23,121 calibrate.py _nudge_pos():1806 [1] 428: 0.050 0.0004431 0.0014699 3035 10.13 6.487 26.888 2007-05-03T16:47:48.113688064 INFO 2025-06-26 12:36:23,454 calibrate.py _nudge_pos():1806 [1] 464: 0.050 0.0001456 0.0009781 2995 10.01 2.157 18.099 2007-05-03T16:58:24.110119424 INFO 2025-06-26 12:36:23,957 calibrate.py _nudge_pos():1806 [1] 518: 0.040 0.0005937 0.0000792 2014 6.71 13.115 2.187 2007-05-03T17:06:00.118880512 INFO 2025-06-26 12:36:24,389 calibrate.py _nudge_pos():1806 [1] 564: 0.050 0.0002030 0.0028299 4303 14.35 2.098 36.550 2007-05-03T17:21:06.116815360 INFO 2025-06-26 12:36:24,694 calibrate.py _nudge_pos():1806 [1] 597: 0.050 -0.0000256 0.0000077 15 0.05 -81.373 30.425 2007-05-03T17:21:41.114417664 INFO 2025-06-26 12:36:24,704 calibrate.py _nudge_pos():1806 [1] 598: 0.040 0.0003455 0.0002014 1319 4.41 11.610 8.454 2007-05-03T17:26:06.116264192 INFO 2025-06-26 12:36:25,215 calibrate.py _nudge_pos():1806 [1] 653: 0.050 0.0011217 0.0024509 5816 19.40 8.576 23.414 2007-05-03T17:46:24.112825600 INFO 2025-06-26 12:36:25,452 calibrate.py _nudge_pos():1862 [1] 649: - - - 2 0.00 - - INFO 2025-06-26 12:36:25,453 calibrate.py _nudge_pos():1868 [1] Points in final series = 37021 INFO 2025-06-26 12:36:25,507 calibrate.py _depth_process():2162 [1] Removing depths outside of valid_depth_range=Range(min=-0.5, max=32) for self.args.mission=2007.123.05 INFO 2025-06-26 12:36:25,509 calibrate.py _depth_process():2175 [1] Setting 0 depths values to NaN WARNING 2025-06-26 12:36:25,511 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 9.09 Hz INFO 2025-06-26 12:36:29,480 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:36:31,676 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:31,898 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:31,900 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.123.05/ctd1.nc INFO 2025-06-26 12:36:31,901 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 12:36:31,901 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 12:36:31,901 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:36:33,660 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:33,894 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 24 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:36:33,896 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.123.05/ctd2.nc INFO 2025-06-26 12:36:33,897 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 12:36:33,898 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 12:36:33,898 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 12:36:33,908 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.05 ERROR 2025-06-26 12:36:33,908 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.05 ERROR 2025-06-26 12:36:33,908 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.123.05 INFO 2025-06-26 12:36:33,917 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_cal.nc INFO 2025-06-26 12:36:36,349 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 12:36:36,352 process.py align():251 [1] Alignment steps for 2007.123.05 INFO 2025-06-26 12:36:36,375 align.py process_cal():139 [1] Processing dorado_2007.123.05_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.123.05 INFO 2025-06-26 12:36:36,389 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:36,391 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:36,422 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:36,425 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:36,456 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:36,458 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:36,477 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:36:36,477 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:36:36,489 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:36:36,492 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 12:36:36,521 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,524 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,552 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,555 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,583 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,586 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,614 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,616 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,644 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,647 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,674 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,677 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,705 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,707 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,735 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,737 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,765 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,768 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,795 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,798 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,826 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,829 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,856 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,859 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,887 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,889 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,917 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,919 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,947 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,950 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:36,978 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:36,981 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:37,010 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:37,013 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:37,041 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:37,044 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:37,072 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:37,075 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:37,102 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.123.05_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 12:36:37,105 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 12:36:37,139 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.71 INFO 2025-06-26 12:36:37,164 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.71 INFO 2025-06-26 12:36:37,189 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.71 INFO 2025-06-26 12:36:37,215 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.03 INFO 2025-06-26 12:36:37,229 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_align.nc INFO 2025-06-26 12:36:37,280 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 12:36:37,282 process.py resample():273 [1] Resampling steps for 2007.123.05 INFO 2025-06-26 12:36:37,283 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:36:37,305 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_align.nc mission netCDF file INFO 2025-06-26 12:36:37,310 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_align.nc mission netCDF file INFO 2025-06-26 12:36:37,311 resample.py get_mission_start_end():1145 [1] navigation: 2007-05-03T15:43:02.079899648 to 2007-05-03T17:46:49.511085824 (0 days 00:00:00.069995008 before mission_end) INFO 2025-06-26 12:36:37,312 resample.py get_mission_start_end():1145 [1] hs2 : 2007-05-03T15:42:37.421588736 to 2007-05-03T17:46:49.581080832 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:36:37,314 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-05-03T15:42:58.370153728 to 2007-05-03T17:46:49.471088384 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 12:36:37,315 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-05-03T15:42:58.690131712 to 2007-05-03T17:46:49.491086848 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 12:36:37,316 resample.py get_mission_start_end():1145 [1] isus : 2007-05-03T15:43:45.686912256 to 2007-05-03T17:46:49.371095296 (0 days 00:00:00.209985536 before mission_end) INFO 2025-06-26 12:36:37,318 resample.py get_mission_start_end():1145 [1] tailcone : 2007-05-03T15:42:35.551716864 to 2007-05-03T17:46:48.961123328 (0 days 00:00:00.619957504 before mission_end) INFO 2025-06-26 12:36:37,318 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_align.nc mission netCDF file INFO 2025-06-26 12:36:37,319 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,418 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,438 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,456 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,475 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,492 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,509 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,525 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,541 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,556 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,571 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,586 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,601 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,616 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,631 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,647 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,663 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,680 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,697 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,714 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,730 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,746 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,763 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,774 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,784 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,793 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,804 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:36:37,937 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_1S.nc INFO 2025-06-26 12:36:40,035 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 12:36:46,377 create_products.py gulper_odv():522 [1] Wrote 6 Gulper data lines to /data/auv_data/dorado/missionodvs/2007.123.05/dorado_2007.123.05_1S_Gulper.txt INFO 2025-06-26 12:36:46,377 process.py archive():337 [1] Archiving steps for 2007.123.05 INFO 2025-06-26 12:36:46,377 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05, BASE_PATH = /data/auv_data INFO 2025-06-26 12:36:46,377 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 12:36:46,378 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.05_1S.nc INFO 2025-06-26 12:36:46,390 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:46,391 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.05_cal.nc INFO 2025-06-26 12:36:46,423 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:46,425 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.123.05_align.nc INFO 2025-06-26 12:36:46,456 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 12:36:46,471 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,484 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,488 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,498 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,523 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,529 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,542 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,548 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007123/2007.123.05 done. INFO 2025-06-26 12:36:46,549 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:36:46,550 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2007/odv/dorado_2007.123.05_1S_Gulper.txt INFO 2025-06-26 12:36:46,554 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2007.123.05/dorado_2007.123.05_1S_Gulper.txt /Volumes/AUVCTD/surveys/2007/odv done. INFO 2025-06-26 12:36:46,554 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.123.05/dorado_2007.123.05_processing.log /Volumes/AUVCTD/surveys/2007/netcdf