INFO 2025-06-26 10:30:18,338 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 10:30:18,338 process.py process_mission():434 [1] dorado_info[mission]["comment"] = BIOLUME night missions, touched bottom on mission .00 - ctdToUse = ctd1 INFO 2025-06-26 10:30:18,338 process.py process_mission():449 [1] Processing BIOLUME mission 2005.014.04 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:30:18,338 process.py download_process():165 [1] Download and processing steps for 2005.014.04 INFO 2025-06-26 10:30:18,338 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005014/2005.014.04 INFO 2025-06-26 10:30:18,339 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005014/2005.014.04 to /data/auv_data/dorado/missionlogs/2005.014.04 INFO 2025-06-26 10:30:18,523 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.014.04 INFO 2025-06-26 10:30:18,524 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/ctdDriver.log (1456795 bytes) INFO 2025-06-26 10:30:18,638 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/ctdDriver2.log (1460397 bytes) INFO 2025-06-26 10:30:18,748 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/gps.log (23252 bytes) INFO 2025-06-26 10:30:18,758 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/hydroscatlog.log (996734 bytes) INFO 2025-06-26 10:30:18,880 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/navigation.log (4880606 bytes) INFO 2025-06-26 10:30:19,235 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/isuslog.log (17109 bytes) INFO 2025-06-26 10:30:19,241 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/parosci.log (976454 bytes) INFO 2025-06-26 10:30:19,327 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/tailCone.log (997579 bytes) INFO 2025-06-26 10:30:19,455 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.014.04/biolume.log (1133564 bytes) INFO 2025-06-26 10:30:19,571 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:30:19,634 logs2netcdfs.py download_process_logs():807 [1] Time to process: 1.11 seconds WARNING 2025-06-26 10:30:19,634 process.py download_process():196 [1] No lopc.bin file for 2005.014.04 INFO 2025-06-26 10:30:19,634 process.py calibrate():227 [1] Calibration steps for 2005.014.04 INFO 2025-06-26 10:30:19,718 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 10:30:19,720 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:30:20,395 calibrate.py _nudge_pos():1806 [1] 88: 0.130 -0.0001627 0.0000118 2135 7.11 -3.399 0.309 2005-01-14T10:11:18.926357504 INFO 2025-06-26 10:30:20,964 calibrate.py _nudge_pos():1806 [1] 149: 0.130 -0.0019319 -0.0021195 10886 36.30 -7.914 -10.820 2005-01-14T10:48:36.923044224 INFO 2025-06-26 10:30:21,498 calibrate.py _nudge_pos():1806 [1] 207: 0.130 -0.0002529 -0.0005420 3135 10.45 -3.600 -9.614 2005-01-14T11:00:00.926186752 INFO 2025-06-26 10:30:21,995 calibrate.py _nudge_pos():1806 [1] 261: 0.130 -0.0004630 -0.0006613 3095 10.31 -6.677 -11.882 2005-01-14T11:11:12.920151936 INFO 2025-06-26 10:30:22,459 calibrate.py _nudge_pos():1862 [1] 289: - - - 1 0.00 - - INFO 2025-06-26 10:30:22,459 calibrate.py _nudge_pos():1868 [1] Points in final series = 20672 WARNING 2025-06-26 10:30:22,479 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:30:22,647 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:22,817 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:22,943 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:30:22,944 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.014.04/ctd1.nc INFO 2025-06-26 10:30:22,945 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:30:22,946 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 10:30:22,946 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:30:23,104 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 8 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:23,233 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 8 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:30:23,235 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.014.04/ctd2.nc INFO 2025-06-26 10:30:23,236 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:30:23,236 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 10:30:23,236 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:30:23,246 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:30:23,467 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:30:23,473 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 10:30:23,473 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.014.04 ERROR 2025-06-26 10:30:23,473 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.014.04 INFO 2025-06-26 10:30:23,492 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_cal.nc INFO 2025-06-26 10:30:23,542 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 10:30:23,546 process.py align():251 [1] Alignment steps for 2005.014.04 INFO 2025-06-26 10:30:23,569 align.py process_cal():139 [1] Processing dorado_2005.014.04_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.014.04 INFO 2025-06-26 10:30:23,578 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:23,580 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:23,602 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:23,604 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:23,625 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:23,627 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:23,639 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:30:23,639 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:30:23,648 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:30:23,650 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:23,670 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:23,672 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,692 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:23,694 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,713 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:30:23,715 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,735 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,737 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,757 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,759 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,779 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,781 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,802 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,804 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,824 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,826 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,847 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,849 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,868 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,871 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,890 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,893 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,912 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,914 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,934 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,936 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,956 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,958 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:23,978 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:23,981 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,001 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:24,004 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,024 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:24,027 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,047 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:24,049 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,071 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:24,074 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,094 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.014.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:30:24,096 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:30:24,119 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:24,138 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:24,155 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.13 INFO 2025-06-26 10:30:24,174 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:30:24,195 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:30:24,213 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_align.nc INFO 2025-06-26 10:30:24,261 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 10:30:24,263 process.py resample():273 [1] Resampling steps for 2005.014.04 INFO 2025-06-26 10:30:24,263 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:30:24,287 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_align.nc mission netCDF file INFO 2025-06-26 10:30:24,292 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_align.nc mission netCDF file INFO 2025-06-26 10:30:24,293 resample.py get_mission_start_end():1145 [1] navigation: 2005-01-14T10:03:07.140047104 to 2005-01-14T11:12:02.126781184 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:30:24,294 resample.py get_mission_start_end():1145 [1] hs2 : 2005-01-14T10:02:51.181140480 to 2005-01-14T11:12:01.986790656 (0 days 00:00:00.139990528 before mission_end) INFO 2025-06-26 10:30:24,296 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-01-14T10:03:05.680147200 to 2005-01-14T11:12:02.086783872 (0 days 00:00:00.039997312 before mission_end) INFO 2025-06-26 10:30:24,297 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-01-14T10:02:55.330856064 to 2005-01-14T11:12:01.976791424 (0 days 00:00:00.149989760 before mission_end) INFO 2025-06-26 10:30:24,299 resample.py get_mission_start_end():1145 [1] isus : 2005-01-14T10:04:10.525704832 to 2005-01-14T11:12:02.126781184 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:30:24,300 resample.py get_mission_start_end():1145 [1] biolume : 2005-01-14T10:02:45.881469312 to 2005-01-14T11:12:01.516788736 (0 days 00:00:00.609992448 before mission_end) INFO 2025-06-26 10:30:24,301 resample.py get_mission_start_end():1145 [1] tailcone : 2005-01-14T10:02:47.361401984 to 2005-01-14T11:12:01.936793984 (0 days 00:00:00.189987200 before mission_end) INFO 2025-06-26 10:30:24,302 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_align.nc mission netCDF file INFO 2025-06-26 10:30:24,302 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,377 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,393 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,407 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,422 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,436 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,450 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,464 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,477 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,488 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,499 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,511 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,522 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,533 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,544 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,555 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,567 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,580 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,592 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,605 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,617 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,630 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,642 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,651 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,659 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,668 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,677 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,691 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:30:24,807 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_1S.nc INFO 2025-06-26 10:30:26,323 create_products.py gulper_odv():401 [1] No gulper times found for 2005.014.04 INFO 2025-06-26 10:30:26,323 process.py archive():337 [1] Archiving steps for 2005.014.04 INFO 2025-06-26 10:30:26,323 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04, BASE_PATH = /data/auv_data INFO 2025-06-26 10:30:26,324 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:30:26,325 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.014.04_1S.nc INFO 2025-06-26 10:30:26,335 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:26,336 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.014.04_cal.nc INFO 2025-06-26 10:30:26,358 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:26,359 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.014.04_align.nc INFO 2025-06-26 10:30:26,381 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:30:26,390 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,399 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,403 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,410 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,429 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,434 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,441 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,450 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,466 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005014/2005.014.04 done. INFO 2025-06-26 10:30:26,466 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:30:26,466 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.014.04/dorado_2005.014.04_processing.log /Volumes/AUVCTD/surveys/2005/netcdf