INFO 2025-06-26 10:32:45,940 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 10:32:45,940 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Depth abort problems - lots of missions for this biolume survey - ctdToUse = ctd1 INFO 2025-06-26 10:32:45,940 process.py process_mission():449 [1] Processing BIOLUME mission 2005.027.11 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:32:45,940 process.py download_process():165 [1] Download and processing steps for 2005.027.11 INFO 2025-06-26 10:32:45,940 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005027/2005.027.11 INFO 2025-06-26 10:32:45,941 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005027/2005.027.11 to /data/auv_data/dorado/missionlogs/2005.027.11 INFO 2025-06-26 10:32:46,065 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.027.11 INFO 2025-06-26 10:32:46,065 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/ctdDriver.log (513083 bytes) INFO 2025-06-26 10:32:46,109 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/ctdDriver2.log (516685 bytes) INFO 2025-06-26 10:32:46,152 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/gps.log (16124 bytes) INFO 2025-06-26 10:32:46,162 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/hydroscatlog.log (353594 bytes) INFO 2025-06-26 10:32:46,211 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/navigation.log (1715846 bytes) INFO 2025-06-26 10:32:46,344 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/isuslog.log (6005 bytes) INFO 2025-06-26 10:32:46,349 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/parosci.log (350294 bytes) INFO 2025-06-26 10:32:46,381 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/tailCone.log (354187 bytes) INFO 2025-06-26 10:32:46,431 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.027.11/biolume.log (404060 bytes) INFO 2025-06-26 10:32:46,474 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:32:46,498 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.43 seconds WARNING 2025-06-26 10:32:46,498 process.py download_process():196 [1] No lopc.bin file for 2005.027.11 INFO 2025-06-26 10:32:46,498 process.py calibrate():227 [1] Calibration steps for 2005.027.11 INFO 2025-06-26 10:32:46,562 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 10:32:46,563 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:32:46,958 calibrate.py _nudge_pos():1806 [1] 61: 0.170 -0.0000164 -0.0000104 30 0.10 -25.185 -19.993 2005-01-27T05:46:06.306793984 INFO 2025-06-26 10:32:47,071 calibrate.py _nudge_pos():1806 [1] 73: 0.170 -0.0000151 0.0000408 30 0.10 -23.205 78.130 2005-01-27T05:46:24.305560832 INFO 2025-06-26 10:32:47,109 calibrate.py _nudge_pos():1806 [1] 77: 0.170 -0.0038229 -0.0002479 6165 20.55 -27.600 -2.236 2005-01-27T06:07:00.300889472 INFO 2025-06-26 10:32:47,532 calibrate.py _nudge_pos():1806 [1] 122: 0.170 -0.0000881 0.0000220 105 0.35 -37.680 11.741 2005-01-27T06:08:05.306436352 INFO 2025-06-26 10:32:48,380 calibrate.py _nudge_pos():1862 [1] 190: - - - 3 0.01 - - INFO 2025-06-26 10:32:48,380 calibrate.py _nudge_pos():1868 [1] Points in final series = 7262 WARNING 2025-06-26 10:32:48,390 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:32:48,459 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:32:48,533 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:32:48,579 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 18 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:32:48,580 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.027.11/ctd1.nc INFO 2025-06-26 10:32:48,581 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:32:48,582 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 10:32:48,582 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:32:48,648 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 7 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:32:48,695 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 7 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:32:48,697 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.027.11/ctd2.nc INFO 2025-06-26 10:32:48,698 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:32:48,698 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 10:32:48,698 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:32:48,706 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:32:48,784 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:32:48,789 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 10:32:48,789 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.027.11 ERROR 2025-06-26 10:32:48,789 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.027.11 INFO 2025-06-26 10:32:48,798 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_cal.nc INFO 2025-06-26 10:32:48,841 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 10:32:48,845 process.py align():251 [1] Alignment steps for 2005.027.11 INFO 2025-06-26 10:32:48,866 align.py process_cal():139 [1] Processing dorado_2005.027.11_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.027.11 INFO 2025-06-26 10:32:48,872 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:32:48,874 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:32:48,887 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:32:48,889 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:32:48,901 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:32:48,903 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:32:48,910 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:32:48,910 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:32:48,915 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:32:48,916 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:32:48,929 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:32:48,930 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:48,943 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:32:48,944 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:48,956 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:32:48,958 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:48,970 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:48,972 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:48,985 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:48,987 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:48,999 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,001 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,014 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,016 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,029 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,031 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,043 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,045 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,058 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,060 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,072 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,074 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,086 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,088 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,100 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,102 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,114 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,116 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,129 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,131 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,143 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,145 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,158 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,160 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,172 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,174 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,188 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,190 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,203 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.027.11_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:32:49,205 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:32:49,220 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:32:49,234 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:32:49,248 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:32:49,262 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:32:49,277 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:32:49,290 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_align.nc INFO 2025-06-26 10:32:49,335 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 10:32:49,337 process.py resample():273 [1] Resampling steps for 2005.027.11 INFO 2025-06-26 10:32:49,338 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:32:49,359 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_align.nc mission netCDF file INFO 2025-06-26 10:32:49,364 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_align.nc mission netCDF file INFO 2025-06-26 10:32:49,365 resample.py get_mission_start_end():1145 [1] navigation: 2005-01-27T05:45:22.719779712 to 2005-01-27T06:09:34.900298624 (0 days 00:00:00.149989760 before mission_end) INFO 2025-06-26 10:32:49,367 resample.py get_mission_start_end():1145 [1] hs2 : 2005-01-27T05:45:05.010993024 to 2005-01-27T06:09:35.030289664 (0 days 00:00:00.019998720 before mission_end) INFO 2025-06-26 10:32:49,369 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-01-27T05:45:19.589994240 to 2005-01-27T06:09:35.050288384 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:32:49,370 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-01-27T05:45:09.150709376 to 2005-01-27T06:09:34.880300032 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 10:32:49,371 resample.py get_mission_start_end():1145 [1] isus : 2005-01-27T05:46:25.385486848 to 2005-01-27T06:09:31.630522752 (0 days 00:00:03.419765632 before mission_end) INFO 2025-06-26 10:32:49,373 resample.py get_mission_start_end():1145 [1] biolume : 2005-01-27T05:45:00.261284096 to 2005-01-27T06:09:34.120317952 (0 days 00:00:00.929970432 before mission_end) INFO 2025-06-26 10:32:49,374 resample.py get_mission_start_end():1145 [1] tailcone : 2005-01-27T05:45:01.351243776 to 2005-01-27T06:09:34.990292608 (0 days 00:00:00.059995776 before mission_end) INFO 2025-06-26 10:32:49,375 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_align.nc mission netCDF file INFO 2025-06-26 10:32:49,375 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,418 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,428 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,439 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,449 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,459 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,469 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,479 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,488 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,497 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,505 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,514 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,522 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,530 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,539 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,547 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,555 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,565 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,576 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,586 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,595 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,605 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,615 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,624 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,632 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,640 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,649 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,663 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:32:49,775 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_1S.nc INFO 2025-06-26 10:32:50,407 create_products.py gulper_odv():401 [1] No gulper times found for 2005.027.11 INFO 2025-06-26 10:32:50,407 process.py archive():337 [1] Archiving steps for 2005.027.11 INFO 2025-06-26 10:32:50,407 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11, BASE_PATH = /data/auv_data INFO 2025-06-26 10:32:50,408 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:32:50,408 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.027.11_1S.nc INFO 2025-06-26 10:32:50,416 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:32:50,416 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.027.11_cal.nc INFO 2025-06-26 10:32:50,428 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:32:50,429 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.027.11_align.nc INFO 2025-06-26 10:32:50,440 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:32:50,448 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,455 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,460 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,465 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,475 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,479 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,485 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,491 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,500 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005027/2005.027.11 done. INFO 2025-06-26 10:32:50,500 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:32:50,500 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.027.11/dorado_2005.027.11_processing.log /Volumes/AUVCTD/surveys/2005/netcdf