INFO 2025-06-26 10:38:31,421 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 10:38:31,421 process.py process_mission():434 [1] dorado_info[mission]["comment"] = ctdToUse = ctd1 INFO 2025-06-26 10:38:31,421 process.py process_mission():449 [1] Processing BIOLUME mission 2005.137.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:38:31,421 process.py download_process():165 [1] Download and processing steps for 2005.137.00 INFO 2025-06-26 10:38:31,421 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005137/2005.137.00 INFO 2025-06-26 10:38:31,421 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005137/2005.137.00 to /data/auv_data/dorado/missionlogs/2005.137.00 INFO 2025-06-26 10:38:31,954 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.137.00 INFO 2025-06-26 10:38:31,954 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/ctdDriver.log (6186795 bytes) INFO 2025-06-26 10:38:32,460 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/ctdDriver2.log (6186877 bytes) INFO 2025-06-26 10:38:32,912 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/gps.log (47156 bytes) INFO 2025-06-26 10:38:32,925 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/hydroscatlog.log (4222334 bytes) INFO 2025-06-26 10:38:33,448 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/navigation.log (20743110 bytes) INFO 2025-06-26 10:38:34,930 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/isuslog.log (380245 bytes) INFO 2025-06-26 10:38:34,971 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.137.00/isuslog.log: [1 2 3 5 6 7] INFO 2025-06-26 10:38:34,972 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/parosci.log (9053318 bytes) INFO 2025-06-26 10:38:35,718 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.137.00/parosci.log: [31120] INFO 2025-06-26 10:38:35,743 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/tailCone.log (4224379 bytes) INFO 2025-06-26 10:38:36,263 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.137.00/biolume.log (4791148 bytes) INFO 2025-06-26 10:38:36,716 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:38:36,962 logs2netcdfs.py download_process_logs():807 [1] Time to process: 5.01 seconds WARNING 2025-06-26 10:38:36,962 process.py download_process():196 [1] No lopc.bin file for 2005.137.00 INFO 2025-06-26 10:38:36,962 process.py calibrate():227 [1] Calibration steps for 2005.137.00 INFO 2025-06-26 10:38:37,126 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 10:38:37,128 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:38:38,591 calibrate.py _nudge_pos():1806 [1] 171: 0.060 0.0099056 -0.0049162 12149 40.50 36.330 -22.495 2005-05-17T16:53:18.757360256 INFO 2025-06-26 10:38:39,256 calibrate.py _nudge_pos():1806 [1] 241: 0.060 0.0095495 -0.0034223 12105 40.35 35.151 -15.717 2005-05-17T17:34:48.756783488 INFO 2025-06-26 10:38:39,853 calibrate.py _nudge_pos():1806 [1] 304: 0.060 0.0056994 -0.0021822 11985 39.95 21.187 -10.123 2005-05-17T18:15:48.758261888 INFO 2025-06-26 10:38:40,542 calibrate.py _nudge_pos():1806 [1] 374: 0.060 0.0043602 -0.0001187 12085 40.28 16.072 -0.546 2005-05-17T18:57:14.757959168 INFO 2025-06-26 10:38:41,195 calibrate.py _nudge_pos():1806 [1] 442: 0.060 0.0038502 0.0007423 12195 40.65 14.062 3.384 2005-05-17T19:39:00.756286592 INFO 2025-06-26 10:38:41,883 calibrate.py _nudge_pos():1806 [1] 513: 0.060 0.0037969 0.0007999 12039 40.13 14.045 3.693 2005-05-17T20:20:18.756531968 INFO 2025-06-26 10:38:42,421 calibrate.py _nudge_pos():1806 [1] 567: 0.060 0.0030800 -0.0007876 8555 28.51 16.033 -5.118 2005-05-17T20:49:42.755689600 INFO 2025-06-26 10:38:42,969 calibrate.py _nudge_pos():1806 [1] 623: 0.060 -0.0002754 0.0005041 3712 12.38 -3.302 7.546 2005-05-17T21:03:00.761022592 INFO 2025-06-26 10:38:43,165 calibrate.py _nudge_pos():1862 [1] 620: - - - 1 0.00 - - INFO 2025-06-26 10:38:43,165 calibrate.py _nudge_pos():1868 [1] Points in final series = 87886 WARNING 2025-06-26 10:38:46,328 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:38:47,001 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 10:38:47,676 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:48,204 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:48,206 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.137.00/ctd1.nc INFO 2025-06-26 10:38:48,207 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 10:38:48,207 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 10:38:48,207 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:38:48,843 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:49,373 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:38:49,375 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.137.00/ctd2.nc INFO 2025-06-26 10:38:49,376 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:38:49,376 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 10:38:49,377 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:38:49,959 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:38:50,778 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [678480 678481 678482 678483 678484 678485 678486 678487 678488 678489 678490 678491 678492 678493 678494 678495 678496 678497 678498 678499 678500 678501 678502] INFO 2025-06-26 10:38:50,942 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:38:50,947 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 10:38:50,948 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.137.00 ERROR 2025-06-26 10:38:50,948 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.137.00 INFO 2025-06-26 10:38:51,018 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_cal.nc INFO 2025-06-26 10:38:51,108 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 10:38:51,112 process.py align():251 [1] Alignment steps for 2005.137.00 INFO 2025-06-26 10:38:51,140 align.py process_cal():139 [1] Processing dorado_2005.137.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.137.00 INFO 2025-06-26 10:38:51,168 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:51,172 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:51,240 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:51,245 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:51,309 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:51,314 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:51,354 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:38:51,354 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:38:51,380 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:38:51,385 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:51,450 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:51,454 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,512 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:51,516 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,573 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:38:51,577 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,635 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,639 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,698 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,702 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,758 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,763 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,821 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,825 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,883 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,887 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:51,944 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:51,949 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,008 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,013 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,074 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,078 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,136 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,140 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,198 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,202 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,260 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,265 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,323 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,328 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,386 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,390 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,448 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,453 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,512 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,517 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,575 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,580 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,638 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.137.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:38:52,642 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:38:52,716 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 10:38:52,768 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 10:38:52,821 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 10:38:52,876 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:38:52,934 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:38:52,980 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_align.nc INFO 2025-06-26 10:38:53,058 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 10:38:53,060 process.py resample():273 [1] Resampling steps for 2005.137.00 INFO 2025-06-26 10:38:53,061 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:38:53,086 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_align.nc mission netCDF file INFO 2025-06-26 10:38:53,092 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_align.nc mission netCDF file INFO 2025-06-26 10:38:53,093 resample.py get_mission_start_end():1145 [1] navigation: 2005-05-17T16:10:20.973950336 to 2005-05-17T21:03:19.959707520 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 10:38:53,095 resample.py get_mission_start_end():1145 [1] hs2 : 2005-05-17T16:10:02.745199232 to 2005-05-17T21:03:19.989705344 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:38:53,096 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-05-17T16:10:25.503640192 to 2005-05-17T21:03:19.799718400 (0 days 00:00:00.189986944 before mission_end) INFO 2025-06-26 10:38:53,098 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-05-17T16:10:25.513639424 to 2005-05-17T21:03:19.809717632 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 10:38:53,099 resample.py get_mission_start_end():1145 [1] isus : 2005-05-17T16:11:00.421248256 to 2005-05-17T21:03:18.869782016 (0 days 00:00:01.119923328 before mission_end) INFO 2025-06-26 10:38:53,101 resample.py get_mission_start_end():1145 [1] biolume : 2005-05-17T16:09:57.895497088 to 2005-05-17T21:03:18.999738880 (0 days 00:00:00.989966464 before mission_end) INFO 2025-06-26 10:38:53,103 resample.py get_mission_start_end():1145 [1] tailcone : 2005-05-17T16:09:58.505489536 to 2005-05-17T21:03:19.889712128 (0 days 00:00:00.099993216 before mission_end) INFO 2025-06-26 10:38:53,103 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_align.nc mission netCDF file INFO 2025-06-26 10:38:53,104 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,299 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,335 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,369 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,403 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,434 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,464 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,494 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,523 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,550 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,577 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,603 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,629 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,655 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,682 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,708 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,734 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,763 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,791 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,820 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,848 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,876 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,903 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,918 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,931 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,943 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,958 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:53,989 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:38:54,184 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_1S.nc INFO 2025-06-26 10:38:55,210 create_products.py gulper_odv():401 [1] No gulper times found for 2005.137.00 INFO 2025-06-26 10:38:55,211 process.py archive():337 [1] Archiving steps for 2005.137.00 INFO 2025-06-26 10:38:55,211 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:38:55,211 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:38:55,212 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.137.00_1S.nc INFO 2025-06-26 10:38:55,229 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:55,230 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.137.00_cal.nc INFO 2025-06-26 10:38:55,310 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:55,311 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.137.00_align.nc INFO 2025-06-26 10:38:55,386 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:38:55,408 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,428 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,432 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,447 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,507 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,513 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,541 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,560 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,609 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005137/2005.137.00 done. INFO 2025-06-26 10:38:55,609 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:38:55,609 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.137.00/dorado_2005.137.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf