INFO 2025-06-26 13:04:00,811 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 13:04:00,811 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Internal wave study near Monterey - ctdToUse = ctd1 INFO 2025-06-26 13:04:00,811 process.py process_mission():449 [1] Processing AUVCTD mission 2007.239.03 by user docker_user on host eae60d30a712 INFO 2025-06-26 13:04:00,811 process.py download_process():165 [1] Download and processing steps for 2007.239.03 INFO 2025-06-26 13:04:00,812 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2007/2007239/2007.239.03 INFO 2025-06-26 13:04:00,812 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2007/2007239/2007.239.03 to /data/auv_data/dorado/missionlogs/2007.239.03 INFO 2025-06-26 13:04:03,220 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2007.239.03 INFO 2025-06-26 13:04:03,220 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/ctdDriver.log (2538403 bytes) INFO 2025-06-26 13:04:03,400 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.239.03/ctdDriver.log: [ 3 231 398 445 745 811 812 826 861 976 1197 1285 1450 1454 1573 1834 1979 2092 2170 2320 2355 2400 2461 3014 3179 3240 3285 3358 3867 4839 4842 5244 5363 5411 5528 5535 6319 6747 7268 7372 7521 8052 8347 8374 8786 9645 10124 10432 10827 11129 11313 12662 13075 15193 16211 16213 16899 17666 18092 18896 19600 20729 22257 22520 23902 25989 26418 28385] INFO 2025-06-26 13:04:03,408 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/ctdDriver2.log (2538397 bytes) INFO 2025-06-26 13:04:03,602 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.239.03/ctdDriver2.log: [ 230 351 396 442 640 745 812 826 860 974 1196 1284 1449 1452 1830 1975 2088 2167 2235 2318 2459 3010 3175 3279 4573 4831 4834 5132 5237 5357 5405 5522 5529 6314 6742 7263 7366 8342 8369 8781 9640 10120 10428 10429 10824 11203 11309 11489 11553 13743 15194 16214 17365 17667 18093 18897 19601 20730 20731 22258 22521 23904 25608 25992 26034 26421] INFO 2025-06-26 13:04:03,611 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/gps.log (20732 bytes) INFO 2025-06-26 13:04:03,622 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/hydroscatlog.log (1738934 bytes) INFO 2025-06-26 13:04:03,829 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2007.239.03/hydroscatlog.log: [ 1 6 33 46 89 106 109 239 476 484 531 608 650 729 747 834 841 903 918 1096 1379 1380 1642 1668 1930 2075 2188 2266 2419 2420 2562 2830 3073 3114 3280 3344 3440 4586 4919 4945 4966 5041 5128 5349 5640 6852 7342 7376 8162 8456 8457 8896 9755 10544 10939 10942 11242 11390 11609 11673 12056 12190 12684 12783 13196 13862 14750 16332 16335 17022 17023 17411 17489 17791 18217 19725 20854 22380 22643 23752 24028 24456 25468 26547 26548 26713 26714 27777] INFO 2025-06-26 13:04:03,834 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/navigation.log (8481258 bytes) INFO 2025-06-26 13:04:04,448 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/isuslog.log (171509 bytes) INFO 2025-06-26 13:04:04,470 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/parosci.log (3031574 bytes) INFO 2025-06-26 13:04:04,737 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/tailCone.log (350539 bytes) INFO 2025-06-26 13:04:04,788 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2007.239.03/biolume.log (1975948 bytes) INFO 2025-06-26 13:04:04,989 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 13:04:05,099 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.88 seconds WARNING 2025-06-26 13:04:05,099 process.py download_process():196 [1] No lopc.bin file for 2007.239.03 INFO 2025-06-26 13:04:05,099 process.py calibrate():227 [1] Calibration steps for 2007.239.03 INFO 2025-06-26 13:04:05,200 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 13:04:05,201 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 13:04:06,119 calibrate.py _nudge_pos():1806 [1] 120: 0.150 0.0030716 0.0019085 10275 34.58 13.211 10.227 2007-08-27T16:47:53.310540800 INFO 2025-06-26 13:04:06,800 calibrate.py _nudge_pos():1806 [1] 193: 0.140 0.0000635 -0.0001203 9387 31.40 0.301 -0.710 2007-08-27T17:20:29.316545280 INFO 2025-06-26 13:04:07,467 calibrate.py _nudge_pos():1806 [1] 264: 0.150 0.0001406 -0.0001342 15074 50.33 0.415 -0.494 2007-08-27T18:11:59.314866176 INFO 2025-06-26 13:04:07,576 calibrate.py _nudge_pos():1862 [1] 245: - - - 1 0.00 - - INFO 2025-06-26 13:04:07,576 calibrate.py _nudge_pos():1868 [1] Points in final series = 35928 WARNING 2025-06-26 13:04:07,629 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 9.09 Hz INFO 2025-06-26 13:04:11,448 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 1 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:04:13,506 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:04:13,726 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:04:13,728 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2007.239.03/ctd1.nc INFO 2025-06-26 13:04:13,729 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 13:04:13,729 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 13:04:13,730 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 13:04:15,346 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:04:15,569 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 22 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 13:04:15,571 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2007.239.03/ctd2.nc INFO 2025-06-26 13:04:15,572 calibrate.py _range_qc_combined_nc():898 [1] Setting 165 ctd2_salinity values to NaN INFO 2025-06-26 13:04:15,572 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 13:04:15,572 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 13:04:15,589 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 13:04:15,916 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 417438 417439 417440] INFO 2025-06-26 13:04:15,986 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -6 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 13:04:15,991 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 13:04:15,992 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.239.03 ERROR 2025-06-26 13:04:15,992 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2007.239.03 INFO 2025-06-26 13:04:16,001 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_cal.nc INFO 2025-06-26 13:04:18,279 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 13:04:18,283 process.py align():251 [1] Alignment steps for 2007.239.03 INFO 2025-06-26 13:04:18,308 align.py process_cal():139 [1] Processing dorado_2007.239.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2007.239.03 INFO 2025-06-26 13:04:18,322 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:04:18,324 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:04:18,355 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:04:18,358 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:04:18,389 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:04:18,392 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:04:18,409 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 13:04:18,410 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 13:04:18,421 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 13:04:18,424 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 13:04:18,456 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,459 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:04:18,487 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,490 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:04:18,516 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,519 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 13:04:18,547 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,550 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,578 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,581 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,608 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,611 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,639 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,642 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,669 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,672 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,700 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,703 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,730 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,732 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,760 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,763 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,791 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,794 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,823 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,825 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,853 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,856 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,884 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,887 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,914 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,917 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,945 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,948 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:18,977 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:18,980 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:19,009 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:19,012 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:19,040 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2007.239.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 13:04:19,043 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 13:04:19,076 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 13:04:19,103 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 13:04:19,130 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 13:04:19,157 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 13:04:19,184 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 1.01 INFO 2025-06-26 13:04:19,199 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_align.nc INFO 2025-06-26 13:04:19,252 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 13:04:19,254 process.py resample():273 [1] Resampling steps for 2007.239.03 INFO 2025-06-26 13:04:19,254 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 13:04:19,277 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_align.nc mission netCDF file INFO 2025-06-26 13:04:19,282 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_align.nc mission netCDF file INFO 2025-06-26 13:04:19,283 resample.py get_mission_start_end():1145 [1] navigation: 2007-08-27T16:11:51.908606976 to 2007-08-27T18:12:10.514098688 (0 days 00:00:00 before mission_end) INFO 2025-06-26 13:04:19,284 resample.py get_mission_start_end():1145 [1] hs2 : 2007-08-27T16:11:25.290430464 to 2007-08-27T18:12:10.304113152 (0 days 00:00:00.209985536 before mission_end) INFO 2025-06-26 13:04:19,286 resample.py get_mission_start_end():1145 [1] ctd1 : 2007-08-27T16:11:46.528975616 to 2007-08-27T18:12:10.394106880 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 13:04:19,287 resample.py get_mission_start_end():1145 [1] ctd2 : 2007-08-27T16:11:46.488978432 to 2007-08-27T18:12:10.314112512 (0 days 00:00:00.199986176 before mission_end) INFO 2025-06-26 13:04:19,288 resample.py get_mission_start_end():1145 [1] isus : 2007-08-27T16:12:52.634447104 to 2007-08-27T18:12:10.214119168 (0 days 00:00:00.299979520 before mission_end) INFO 2025-06-26 13:04:19,290 resample.py get_mission_start_end():1145 [1] biolume : 2007-08-27T16:11:17.640920320 to 2007-08-27T18:12:09.184155648 (0 days 00:00:01.329943040 before mission_end) INFO 2025-06-26 13:04:19,291 resample.py get_mission_start_end():1145 [1] tailcone : 2007-08-27T16:11:24.880458496 to 2007-08-27T18:12:10.054130432 (0 days 00:00:00.459968256 before mission_end) INFO 2025-06-26 13:04:19,292 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_align.nc mission netCDF file INFO 2025-06-26 13:04:19,292 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,391 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,411 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,430 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,448 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,466 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,484 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,501 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,518 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,533 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,548 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,564 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,579 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,594 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,609 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,626 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,641 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,659 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,677 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,695 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,712 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,730 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,746 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,758 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,769 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,779 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,790 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,801 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 13:04:19,937 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_1S.nc INFO 2025-06-26 13:04:21,134 create_products.py gulper_odv():401 [1] No gulper times found for 2007.239.03 INFO 2025-06-26 13:04:21,135 process.py archive():337 [1] Archiving steps for 2007.239.03 INFO 2025-06-26 13:04:21,135 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03, BASE_PATH = /data/auv_data INFO 2025-06-26 13:04:21,135 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03 files to /Volumes/AUVCTD/surveys/2007/netcdf INFO 2025-06-26 13:04:21,137 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.239.03_1S.nc INFO 2025-06-26 13:04:21,150 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_1S.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:04:21,151 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.239.03_cal.nc INFO 2025-06-26 13:04:21,186 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_cal.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:04:21,187 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2007/netcdf/dorado_2007.239.03_align.nc INFO 2025-06-26 13:04:21,219 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_align.nc /Volumes/AUVCTD/surveys/2007/netcdf done. INFO 2025-06-26 13:04:21,232 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,245 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,249 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,259 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,286 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,292 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,304 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,311 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,335 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2007/2007239/2007.239.03 done. INFO 2025-06-26 13:04:21,335 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 13:04:21,336 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2007.239.03/dorado_2007.239.03_processing.log /Volumes/AUVCTD/surveys/2007/netcdf