INFO 2025-06-26 11:04:00,336 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 11:04:00,336 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled by DMO 11/28/05 - ctdToUse = ctd1 INFO 2025-06-26 11:04:00,336 process.py process_mission():449 [1] Processing AUVCTD mission 2005.334.03 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:04:00,336 process.py download_process():165 [1] Download and processing steps for 2005.334.03 INFO 2025-06-26 11:04:00,336 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005334/2005.334.03 INFO 2025-06-26 11:04:00,336 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005334/2005.334.03 to /data/auv_data/dorado/missionlogs/2005.334.03 INFO 2025-06-26 11:04:03,090 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.334.03 INFO 2025-06-26 11:04:03,090 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/ctdDriver.log (7133763 bytes) INFO 2025-06-26 11:04:03,619 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/ctdDriver2.log (7133581 bytes) INFO 2025-06-26 11:04:04,138 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/gps.log (58820 bytes) INFO 2025-06-26 11:04:04,152 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/hydroscatlog.log (4876514 bytes) INFO 2025-06-26 11:04:04,729 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/navigation.log (23961206 bytes) INFO 2025-06-26 11:04:06,418 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/isuslog.log (410549 bytes) INFO 2025-06-26 11:04:06,463 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/parosci.log (10454630 bytes) INFO 2025-06-26 11:04:07,312 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.334.03/parosci.log: [ 9232 9233 9234 113680 113681 113682 113683 201062 201063 201064 201065 201066] INFO 2025-06-26 11:04:07,339 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/tailCone.log (4878283 bytes) INFO 2025-06-26 11:04:07,931 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.334.03/biolume.log (5532892 bytes) INFO 2025-06-26 11:04:08,463 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:04:08,744 logs2netcdfs.py download_process_logs():807 [1] Time to process: 5.65 seconds WARNING 2025-06-26 11:04:08,744 process.py download_process():196 [1] No lopc.bin file for 2005.334.03 INFO 2025-06-26 11:04:08,744 process.py calibrate():227 [1] Calibration steps for 2005.334.03 INFO 2025-06-26 11:04:08,923 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 11:04:08,925 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:04:10,854 calibrate.py _nudge_pos():1806 [1] 217: 0.020 0.0016655 0.0007488 3820 12.73 19.432 10.899 2005-11-30T17:59:13.146138880 INFO 2025-06-26 11:04:11,806 calibrate.py _nudge_pos():1806 [1] 317: 0.040 0.0003770 0.0028227 12792 42.65 1.313 12.265 2005-11-30T18:43:31.144053504 INFO 2025-06-26 11:04:12,469 calibrate.py _nudge_pos():1806 [1] 387: 0.020 0.0008850 0.0024930 12554 41.85 3.141 11.039 2005-11-30T19:26:31.147311232 INFO 2025-06-26 11:04:13,150 calibrate.py _nudge_pos():1806 [1] 458: 0.030 0.0016151 0.0018513 12536 41.80 5.738 8.207 2005-11-30T20:09:29.150705792 INFO 2025-06-26 11:04:13,570 calibrate.py _nudge_pos():1806 [1] 502: 0.040 -0.0000186 -0.0000930 45 0.15 -18.874 -117.492 2005-11-30T20:10:21.147143808 INFO 2025-06-26 11:04:13,728 calibrate.py _nudge_pos():1806 [1] 518: 0.040 0.0023537 0.0011028 12605 42.01 8.318 4.864 2005-11-30T20:52:37.143416192 INFO 2025-06-26 11:04:14,427 calibrate.py _nudge_pos():1806 [1] 589: 0.050 0.0020079 0.0018281 12635 42.11 7.078 8.044 2005-11-30T21:35:54.145509504 INFO 2025-06-26 11:04:15,106 calibrate.py _nudge_pos():1806 [1] 658: 0.050 0.0031416 0.0007723 12835 42.78 10.902 3.345 2005-11-30T22:19:49.144999552 INFO 2025-06-26 11:04:15,794 calibrate.py _nudge_pos():1806 [1] 729: 0.060 0.0039418 -0.0015662 10627 35.43 16.515 -8.191 2005-11-30T22:56:25.144563200 INFO 2025-06-26 11:04:16,381 calibrate.py _nudge_pos():1806 [1] 788: 0.060 0.0026029 -0.0003821 7210 24.03 16.078 -2.947 2005-11-30T23:21:25.141806336 INFO 2025-06-26 11:04:16,545 calibrate.py _nudge_pos():1862 [1] 783: - - - 2 0.00 - - INFO 2025-06-26 11:04:16,545 calibrate.py _nudge_pos():1868 [1] Points in final series = 101521 WARNING 2025-06-26 11:04:20,216 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:04:20,987 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:04:21,804 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 59 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:04:22,416 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 59 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:04:22,418 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.334.03/ctd1.nc INFO 2025-06-26 11:04:22,419 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:04:22,419 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 11:04:22,420 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:04:23,145 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 59 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:04:23,753 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 59 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:04:23,755 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.334.03/ctd2.nc INFO 2025-06-26 11:04:23,756 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 11:04:23,757 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 11:04:23,757 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:04:23,789 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:04:24,729 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [193500 193501 193502 193503 193504 193505 193506 193507 193508 193509 193510 193511 193512 193513 193514 193515 193516 193517 193518 193519 193520 193521 193522 193523 193524 193525 193526 193527 980940 980941 980942 980943 980944 980945 980946 980947 980948 980949 980950 980951 980952 980953 980954 980955 980956 980957 980958 980959 980960 980961 980962 980963 980964 980965 980966 980967 980968 980969 980970] INFO 2025-06-26 11:04:24,913 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:04:24,918 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 11:04:24,919 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.334.03 ERROR 2025-06-26 11:04:24,919 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.334.03 INFO 2025-06-26 11:04:25,000 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_cal.nc INFO 2025-06-26 11:04:25,095 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 11:04:25,100 process.py align():251 [1] Alignment steps for 2005.334.03 INFO 2025-06-26 11:04:25,128 align.py process_cal():139 [1] Processing dorado_2005.334.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.334.03 INFO 2025-06-26 11:04:25,158 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:04:25,161 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:04:25,236 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:04:25,241 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:04:25,325 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:04:25,330 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:04:25,373 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:04:25,374 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:04:25,402 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:04:25,407 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:04:25,477 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:04:25,481 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,543 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:04:25,547 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,609 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:04:25,613 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,677 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:25,681 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,749 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:25,754 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,817 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:25,821 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,884 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:25,888 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:25,951 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:25,955 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,018 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,022 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,085 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,089 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,151 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,155 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,217 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,221 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,284 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,287 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,349 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,354 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,419 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,423 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,486 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,491 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,554 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,558 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,622 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,626 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,689 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,693 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,759 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.334.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:04:26,763 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:04:26,843 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:04:26,897 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:04:26,952 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:04:27,010 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:04:27,070 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:04:27,119 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_align.nc INFO 2025-06-26 11:04:27,197 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 11:04:27,200 process.py resample():273 [1] Resampling steps for 2005.334.03 INFO 2025-06-26 11:04:27,200 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:04:27,226 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_align.nc mission netCDF file INFO 2025-06-26 11:04:27,231 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_align.nc mission netCDF file INFO 2025-06-26 11:04:27,233 resample.py get_mission_start_end():1145 [1] navigation: 2005-11-30T17:43:15.161765376 to 2005-11-30T23:21:41.570680832 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:04:27,235 resample.py get_mission_start_end():1145 [1] hs2 : 2005-11-30T17:42:57.942944768 to 2005-11-30T23:21:41.500685696 (0 days 00:00:00.069995136 before mission_end) INFO 2025-06-26 11:04:27,236 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-11-30T17:43:53.959107456 to 2005-11-30T23:21:41.490686464 (0 days 00:00:00.079994368 before mission_end) INFO 2025-06-26 11:04:27,238 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-11-30T17:43:54.159093888 to 2005-11-30T23:21:41.440689792 (0 days 00:00:00.129991040 before mission_end) INFO 2025-06-26 11:04:27,239 resample.py get_mission_start_end():1145 [1] isus : 2005-11-30T17:44:22.097179904 to 2005-11-30T23:21:41.200706304 (0 days 00:00:00.369974528 before mission_end) INFO 2025-06-26 11:04:27,240 resample.py get_mission_start_end():1145 [1] biolume : 2005-11-30T17:42:52.833260544 to 2005-11-30T23:21:40.680707712 (0 days 00:00:00.889973120 before mission_end) INFO 2025-06-26 11:04:27,242 resample.py get_mission_start_end():1145 [1] tailcone : 2005-11-30T17:42:53.663238016 to 2005-11-30T23:21:41.430690560 (0 days 00:00:00.139990272 before mission_end) INFO 2025-06-26 11:04:27,243 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_align.nc mission netCDF file INFO 2025-06-26 11:04:27,243 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,463 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,502 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,541 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,578 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,613 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,646 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,678 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,710 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,740 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,770 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,801 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,832 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,862 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,892 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,923 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,960 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:27,993 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,026 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,059 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,091 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,123 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,155 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,172 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,186 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,199 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,215 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,251 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:04:28,460 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_1S.nc INFO 2025-06-26 11:04:29,644 create_products.py gulper_odv():401 [1] No gulper times found for 2005.334.03 INFO 2025-06-26 11:04:29,645 process.py archive():337 [1] Archiving steps for 2005.334.03 INFO 2025-06-26 11:04:29,645 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03, BASE_PATH = /data/auv_data INFO 2025-06-26 11:04:29,645 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 11:04:29,646 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.334.03_1S.nc INFO 2025-06-26 11:04:29,668 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:04:29,669 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.334.03_cal.nc INFO 2025-06-26 11:04:29,755 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:04:29,756 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.334.03_align.nc INFO 2025-06-26 11:04:29,842 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:04:29,867 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:29,891 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:29,896 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:29,914 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:29,980 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:29,987 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:30,017 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:30,039 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:30,101 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005334/2005.334.03 done. INFO 2025-06-26 11:04:30,101 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:04:30,101 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.334.03/dorado_2005.334.03_processing.log /Volumes/AUVCTD/surveys/2005/netcdf