INFO 2025-06-26 06:10:06,452 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 06:10:06,452 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 8/22/05 - ctdToUse = ctd1 INFO 2025-06-26 06:10:06,452 process.py process_mission():449 [1] Processing OCCO mission 2004.345.00 by user docker_user on host 671049448ece INFO 2025-06-26 06:10:06,452 process.py download_process():165 [1] Download and processing steps for 2004.345.00 INFO 2025-06-26 06:10:06,453 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004345/2004.345.00 INFO 2025-06-26 06:10:06,453 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004345/2004.345.00 to /data/auv_data/dorado/missionlogs/2004.345.00 INFO 2025-06-26 06:10:07,221 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.345.00 INFO 2025-06-26 06:10:07,222 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/ctdDriver.log (59267 bytes) INFO 2025-06-26 06:10:07,233 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/ctdDriver2.log (62077 bytes) INFO 2025-06-26 06:10:07,244 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/gps.log (15044 bytes) INFO 2025-06-26 06:10:07,252 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/hydroscatlog.log (46574 bytes) INFO 2025-06-26 06:10:07,264 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2004.345.00/hydroscatlog.log: [3 4 5 6 7] INFO 2025-06-26 06:10:07,264 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/navigation.log (138847 bytes) INFO 2025-06-26 06:10:07,283 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/isuslog.log (2709 bytes) INFO 2025-06-26 06:10:07,287 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/parosci.log (46982 bytes) INFO 2025-06-26 06:10:07,295 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.345.00/tailCone.log (47563 bytes) INFO 2025-06-26 06:10:07,306 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.08 seconds WARNING 2025-06-26 06:10:07,307 process.py download_process():196 [1] No lopc.bin file for 2004.345.00 INFO 2025-06-26 06:10:07,307 process.py calibrate():227 [1] Calibration steps for 2004.345.00 WARNING 2025-06-26 06:10:07,351 calibrate.py _navigation_process():1588 [1] No positive depths found in 2004.345.00/navigation.nc INFO 2025-06-26 06:10:07,351 calibrate.py _navigation_process():1637 [1] Removing points outside of Monterey Bay for 2004.345.00/navigation.nc INFO 2025-06-26 06:10:07,353 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('navigation_latitude', Range(min=36, max=37)), ('navigation_longitude', Range(min=-122.1, max=-121.7))] INFO 2025-06-26 06:10:07,353 calibrate.py _range_qc_combined_nc():916 [1] navigation_time: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,355 calibrate.py _range_qc_combined_nc():916 [1] navigation_roll: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,356 calibrate.py _range_qc_combined_nc():916 [1] navigation_pitch: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,357 calibrate.py _range_qc_combined_nc():916 [1] navigation_yaw: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,359 calibrate.py _range_qc_combined_nc():916 [1] navigation_posx: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,360 calibrate.py _range_qc_combined_nc():916 [1] navigation_posy: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,361 calibrate.py _range_qc_combined_nc():916 [1] navigation_depth: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,363 calibrate.py _range_qc_combined_nc():916 [1] navigation_mWaterSpeed: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,364 calibrate.py _range_qc_combined_nc():916 [1] navigation_latitude: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,365 calibrate.py _range_qc_combined_nc():916 [1] navigation_longitude: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,372 calibrate.py _range_qc_combined_nc():936 [1] Done range checking navigation INFO 2025-06-26 06:10:07,375 calibrate.py _gps_process():2069 [1] Removing points outside of Monterey Bay for 2004.345.00/gps.nc INFO 2025-06-26 06:10:07,377 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('gps_latitude', Range(min=36, max=37)), ('gps_longitude', Range(min=-122.1, max=-121.7))] INFO 2025-06-26 06:10:07,377 calibrate.py _range_qc_combined_nc():916 [1] gps_time: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,379 calibrate.py _range_qc_combined_nc():916 [1] gps_latitude: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,380 calibrate.py _range_qc_combined_nc():916 [1] gps_longitude: deleting 0 values found outside of above ranges: [] INFO 2025-06-26 06:10:07,384 calibrate.py _range_qc_combined_nc():936 [1] Done range checking gps INFO 2025-06-26 06:10:07,384 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 06:10:07,385 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 06:10:09,070 calibrate.py _nudge_pos():1862 [1] 177: - - - 4 0.01 - - INFO 2025-06-26 06:10:09,070 calibrate.py _nudge_pos():1868 [1] Points in final series = 868 WARNING 2025-06-26 06:10:09,075 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 06:10:09,194 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:10:09,222 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:10:09,229 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:10:09,230 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.345.00/ctd1.nc WARNING 2025-06-26 06:10:09,231 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (666) ctd1_salinity values found outside of range. This may indicate a problem with the ctd1 data. INFO 2025-06-26 06:10:09,231 calibrate.py _range_qc_combined_nc():898 [1] Setting 666 ctd1_salinity values to NaN INFO 2025-06-26 06:10:09,231 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 06:10:09,231 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 06:10:09,252 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:10:09,260 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 06:10:09,261 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.345.00/ctd2.nc WARNING 2025-06-26 06:10:09,262 calibrate.py _range_qc_combined_nc():890 [1] More than 500 (698) ctd2_salinity values found outside of range. This may indicate a problem with the ctd2 data. INFO 2025-06-26 06:10:09,262 calibrate.py _range_qc_combined_nc():898 [1] Setting 698 ctd2_salinity values to NaN INFO 2025-06-26 06:10:09,262 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 06:10:09,262 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 06:10:09,268 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.345.00 ERROR 2025-06-26 06:10:09,268 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.345.00 ERROR 2025-06-26 06:10:09,269 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.345.00 INFO 2025-06-26 06:10:09,272 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_cal.nc INFO 2025-06-26 06:10:09,309 calibrate.py write_netcdf():3512 [1] Data variables written: 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 06:10:09,312 process.py align():251 [1] Alignment steps for 2004.345.00 INFO 2025-06-26 06:10:09,331 align.py process_cal():139 [1] Processing dorado_2004.345.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.345.00 INFO 2025-06-26 06:10:09,335 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:10:09,336 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:10:09,346 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:10:09,347 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:10:09,355 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:10:09,356 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:10:09,361 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 06:10:09,361 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 06:10:09,364 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:10:09,366 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:10:09,373 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:10:09,375 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 06:10:09,383 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:10:09,385 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 06:10:09,393 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:10:09,394 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 3.97 INFO 2025-06-26 06:10:09,403 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,404 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,412 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,414 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,422 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,424 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,432 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,434 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,442 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,444 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,452 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,454 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,462 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,464 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,472 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,474 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,482 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,484 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,492 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,494 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 3.98 INFO 2025-06-26 06:10:09,502 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,504 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,513 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,515 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,523 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,525 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,534 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,536 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,544 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,546 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,555 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,557 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,565 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.345.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:10:09,567 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:10:09,578 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 06:10:09,590 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 06:10:09,601 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.64 INFO 2025-06-26 06:10:09,613 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 06:10:09,623 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_align.nc INFO 2025-06-26 06:10:09,661 align.py write_netcdf():342 [1] Data variables written: 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 06:10:09,663 process.py resample():273 [1] Resampling steps for 2004.345.00 INFO 2025-06-26 06:10:09,663 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 06:10:09,681 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_align.nc mission netCDF file INFO 2025-06-26 06:10:09,685 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_align.nc mission netCDF file INFO 2025-06-26 06:10:09,686 resample.py get_mission_start_end():1145 [1] navigation: 2004-12-10T01:45:38.973694976 to 2004-12-10T01:48:35.161625344 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 06:10:09,687 resample.py get_mission_start_end():1145 [1] hs2 : 2004-12-10T01:45:25.044649344 to 2004-12-10T01:48:35.071631616 (0 days 00:00:00.129991168 before mission_end) INFO 2025-06-26 06:10:09,689 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-12-10T01:45:48.083070976 to 2004-12-10T01:48:35.071631616 (0 days 00:00:00.129991168 before mission_end) INFO 2025-06-26 06:10:09,690 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-12-10T01:45:40.933560832 to 2004-12-10T01:48:35.201622784 (0 days 00:00:00 before mission_end) INFO 2025-06-26 06:10:09,691 resample.py get_mission_start_end():1145 [1] isus : 2004-12-10T01:46:36.189775488 to 2004-12-10T01:48:34.491671296 (0 days 00:00:00.709951488 before mission_end) INFO 2025-06-26 06:10:09,692 resample.py get_mission_start_end():1145 [1] tailcone : 2004-12-10T01:45:18.815076096 to 2004-12-10T01:48:35.191623424 (0 days 00:00:00.009999360 before mission_end) INFO 2025-06-26 06:10:09,693 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_align.nc mission netCDF file INFO 2025-06-26 06:10:09,693 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,723 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,732 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,740 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,748 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,757 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,765 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,773 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,781 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,788 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,797 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,804 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,811 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,819 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,826 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,833 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,840 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,848 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,857 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,867 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,875 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,883 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,891 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,900 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,908 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,916 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:09,926 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 06:10:10,021 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_1S.nc INFO 2025-06-26 06:10:11,296 create_products.py gulper_odv():401 [1] No gulper times found for 2004.345.00 INFO 2025-06-26 06:10:11,296 process.py archive():337 [1] Archiving steps for 2004.345.00 INFO 2025-06-26 06:10:11,296 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00, BASE_PATH = /data/auv_data INFO 2025-06-26 06:10:11,296 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 06:10:11,298 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.345.00_1S.nc INFO 2025-06-26 06:10:11,307 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:10:11,307 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.345.00_cal.nc INFO 2025-06-26 06:10:11,317 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:10:11,318 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.345.00_align.nc INFO 2025-06-26 06:10:11,326 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:10:11,334 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,341 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,348 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,354 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,362 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,368 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,372 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,379 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004345/2004.345.00 done. INFO 2025-06-26 06:10:11,380 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 06:10:11,380 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.345.00/dorado_2004.345.00_processing.log /Volumes/AUVCTD/surveys/2004/netcdf