INFO 2025-06-26 10:59:27,425 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 10:59:27,425 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled by DMO 9/14/05 - ctdToUse = ctd1 INFO 2025-06-26 10:59:27,425 process.py process_mission():449 [1] Processing AUVCTD mission 2005.257.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:59:27,425 process.py download_process():165 [1] Download and processing steps for 2005.257.00 INFO 2025-06-26 10:59:27,425 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005257/2005.257.00 INFO 2025-06-26 10:59:27,425 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005257/2005.257.00 to /data/auv_data/dorado/missionlogs/2005.257.00 INFO 2025-06-26 10:59:30,420 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.257.00 INFO 2025-06-26 10:59:30,421 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/ctdDriver.log (5995219 bytes) INFO 2025-06-26 10:59:30,851 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/ctdDriver2.log (5995213 bytes) INFO 2025-06-26 10:59:31,313 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/gps.log (55076 bytes) INFO 2025-06-26 10:59:31,327 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/hydroscatlog.log (4091534 bytes) INFO 2025-06-26 10:59:31,807 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/navigation.log (20103314 bytes) INFO 2025-06-26 10:59:33,228 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/isuslog.log (343605 bytes) INFO 2025-06-26 10:59:33,265 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.257.00/isuslog.log: [1 2 3 4 5 6 7] INFO 2025-06-26 10:59:33,267 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/parosci.log (8773526 bytes) INFO 2025-06-26 10:59:33,999 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/tailCone.log (4093867 bytes) INFO 2025-06-26 10:59:34,497 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.257.00/biolume.log (4642908 bytes) INFO 2025-06-26 10:59:34,944 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:59:35,179 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.76 seconds WARNING 2025-06-26 10:59:35,179 process.py download_process():196 [1] No lopc.bin file for 2005.257.00 INFO 2025-06-26 10:59:35,179 process.py calibrate():227 [1] Calibration steps for 2005.257.00 INFO 2025-06-26 10:59:35,338 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 10:59:35,340 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:59:36,921 calibrate.py _nudge_pos():1806 [1] 185: 0.090 0.0017600 -0.0010507 2710 9.03 28.950 -21.561 2005-09-14T16:27:06.456092416 INFO 2025-06-26 10:59:37,769 calibrate.py _nudge_pos():1806 [1] 274: 0.080 0.0063998 -0.0039392 10480 34.93 27.212 -20.897 2005-09-14T17:03:30.456478080 INFO 2025-06-26 10:59:38,359 calibrate.py _nudge_pos():1806 [1] 336: 0.100 0.0053439 -0.0037805 10555 35.18 22.559 -19.913 2005-09-14T17:39:42.457685888 INFO 2025-06-26 10:59:39,024 calibrate.py _nudge_pos():1806 [1] 406: 0.100 0.0045464 -0.0040223 10545 35.15 19.208 -21.206 2005-09-14T18:16:00.458482560 INFO 2025-06-26 10:59:39,611 calibrate.py _nudge_pos():1806 [1] 467: 0.110 0.0038160 -0.0029828 10500 35.00 16.190 -15.793 2005-09-14T18:52:00.460512384 INFO 2025-06-26 10:59:40,125 calibrate.py _nudge_pos():1806 [1] 520: 0.090 0.0047426 -0.0025743 10750 35.83 19.651 -13.313 2005-09-14T19:28:42.459665024 INFO 2025-06-26 10:59:40,724 calibrate.py _nudge_pos():1806 [1] 582: 0.090 0.0049092 -0.0007632 10435 34.78 20.953 -4.066 2005-09-14T20:04:30.462516736 INFO 2025-06-26 10:59:41,335 calibrate.py _nudge_pos():1806 [1] 645: 0.100 0.0043164 0.0001776 11270 37.56 17.056 0.876 2005-09-14T20:43:06.463859840 INFO 2025-06-26 10:59:41,984 calibrate.py _nudge_pos():1806 [1] 711: 0.100 0.0014881 0.0003290 4325 14.41 15.324 4.230 2005-09-14T20:58:36.460150656 INFO 2025-06-26 10:59:42,387 calibrate.py _nudge_pos():1862 [1] 731: - - - 2 0.00 - - INFO 2025-06-26 10:59:42,387 calibrate.py _nudge_pos():1868 [1] Points in final series = 85175 WARNING 2025-06-26 10:59:42,529 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:59:42,651 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 3 of 68177 INFO 2025-06-26 10:59:43,177 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:59:43,837 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:59:44,355 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:59:44,357 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.257.00/ctd1.nc INFO 2025-06-26 10:59:44,358 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:59:44,358 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 10:59:44,359 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:59:44,988 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:59:45,510 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:59:45,512 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.257.00/ctd2.nc INFO 2025-06-26 10:59:45,514 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:59:45,514 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 10:59:45,514 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:59:46,049 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:59:46,858 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 10800 855780] INFO 2025-06-26 10:59:47,014 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:59:47,019 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 10:59:47,020 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.257.00 ERROR 2025-06-26 10:59:47,020 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.257.00 INFO 2025-06-26 10:59:47,088 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_cal.nc INFO 2025-06-26 10:59:47,174 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 10:59:47,178 process.py align():251 [1] Alignment steps for 2005.257.00 INFO 2025-06-26 10:59:47,206 align.py process_cal():139 [1] Processing dorado_2005.257.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.257.00 INFO 2025-06-26 10:59:47,234 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:59:47,237 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:59:47,301 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:59:47,305 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:59:47,367 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:59:47,372 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:59:47,411 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:59:47,411 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:59:47,437 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:59:47,441 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:59:47,505 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:59:47,509 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,565 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:59:47,570 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,626 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:59:47,629 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,685 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,689 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,745 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,749 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,805 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,809 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,865 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,869 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,927 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,931 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:47,990 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:47,995 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,052 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,057 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,115 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,119 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,175 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,179 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,234 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,238 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,294 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,299 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,356 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,361 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,416 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,421 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,477 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,482 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,538 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,542 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,598 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,602 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,656 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.257.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:59:48,660 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:59:48,730 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:59:48,780 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:59:48,831 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:59:48,889 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:59:48,947 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:59:48,992 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_align.nc INFO 2025-06-26 10:59:49,067 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 10:59:49,069 process.py resample():273 [1] Resampling steps for 2005.257.00 INFO 2025-06-26 10:59:49,070 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:59:49,095 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_align.nc mission netCDF file INFO 2025-06-26 10:59:49,101 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_align.nc mission netCDF file INFO 2025-06-26 10:59:49,102 resample.py get_mission_start_end():1145 [1] navigation: 2005-09-14T16:15:23.074277376 to 2005-09-14T20:59:17.857314816 (0 days 00:00:00.159989120 before mission_end) INFO 2025-06-26 10:59:49,104 resample.py get_mission_start_end():1145 [1] hs2 : 2005-09-14T16:15:06.065442560 to 2005-09-14T20:59:17.807318272 (0 days 00:00:00.209985664 before mission_end) INFO 2025-06-26 10:59:49,105 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-09-14T16:15:28.543902592 to 2005-09-14T20:59:17.857314816 (0 days 00:00:00.159989120 before mission_end) INFO 2025-06-26 10:59:49,107 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-09-14T16:15:28.553901952 to 2005-09-14T20:59:17.867314048 (0 days 00:00:00.149989888 before mission_end) INFO 2025-06-26 10:59:49,108 resample.py get_mission_start_end():1145 [1] isus : 2005-09-14T16:16:03.301521536 to 2005-09-14T20:59:17.907311488 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 10:59:49,110 resample.py get_mission_start_end():1145 [1] biolume : 2005-09-14T16:15:01.165744128 to 2005-09-14T20:59:17.257321600 (0 days 00:00:00.759982336 before mission_end) INFO 2025-06-26 10:59:49,112 resample.py get_mission_start_end():1145 [1] tailcone : 2005-09-14T16:15:01.245772800 to 2005-09-14T20:59:18.017303936 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:59:49,112 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_align.nc mission netCDF file INFO 2025-06-26 10:59:49,113 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,310 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,345 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,379 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,412 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,442 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,471 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,501 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,530 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,558 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,586 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,614 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,641 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,669 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,696 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,725 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,753 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,784 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,813 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,842 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,871 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,899 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,938 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,953 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,967 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,979 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:49,994 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:50,027 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:59:50,229 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_1S.nc INFO 2025-06-26 10:59:51,396 create_products.py gulper_odv():401 [1] No gulper times found for 2005.257.00 INFO 2025-06-26 10:59:51,396 process.py archive():337 [1] Archiving steps for 2005.257.00 INFO 2025-06-26 10:59:51,396 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:59:51,396 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:59:51,398 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.257.00_1S.nc INFO 2025-06-26 10:59:51,415 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:59:51,416 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.257.00_cal.nc INFO 2025-06-26 10:59:51,491 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:59:51,492 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.257.00_align.nc INFO 2025-06-26 10:59:51,558 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:59:51,581 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,600 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,605 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,619 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,675 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,680 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,705 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,723 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,778 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005257/2005.257.00 done. INFO 2025-06-26 10:59:51,779 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:59:51,779 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.257.00/dorado_2005.257.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf