INFO 2025-06-26 11:02:43,199 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 11:02:43,199 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled by DMO 10/28/05 - ctdToUse = ctd1 INFO 2025-06-26 11:02:43,199 process.py process_mission():449 [1] Processing BIOLUME mission 2005.308.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:02:43,199 process.py download_process():165 [1] Download and processing steps for 2005.308.01 INFO 2025-06-26 11:02:43,199 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005308/2005.308.01 INFO 2025-06-26 11:02:43,199 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005308/2005.308.01 to /data/auv_data/dorado/missionlogs/2005.308.01 INFO 2025-06-26 11:02:45,205 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.308.01 INFO 2025-06-26 11:02:45,206 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/ctdDriver.log (2931147 bytes) INFO 2025-06-26 11:02:45,424 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/ctdDriver2.log (2931053 bytes) INFO 2025-06-26 11:02:45,639 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/gps.log (26852 bytes) INFO 2025-06-26 11:02:45,652 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/hydroscatlog.log (2003294 bytes) INFO 2025-06-26 11:02:45,893 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/navigation.log (9833302 bytes) INFO 2025-06-26 11:02:46,612 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/isuslog.log (167861 bytes) INFO 2025-06-26 11:02:46,636 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/parosci.log (4288502 bytes) INFO 2025-06-26 11:02:47,007 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/tailCone.log (2005099 bytes) INFO 2025-06-26 11:02:47,266 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.01/biolume.log (2275148 bytes) INFO 2025-06-26 11:02:47,495 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:02:47,615 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.41 seconds WARNING 2025-06-26 11:02:47,615 process.py download_process():196 [1] No lopc.bin file for 2005.308.01 INFO 2025-06-26 11:02:47,615 process.py calibrate():227 [1] Calibration steps for 2005.308.01 INFO 2025-06-26 11:02:47,729 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 11:02:47,731 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:02:48,447 calibrate.py _nudge_pos():1806 [1] 93: 0.100 0.0003738 0.0000289 11770 39.23 1.416 0.137 2005-11-04T07:56:24.851280640 INFO 2025-06-26 11:02:48,959 calibrate.py _nudge_pos():1806 [1] 148: 0.110 0.0003516 0.0000706 10710 35.70 1.464 0.367 2005-11-04T08:33:00.850844416 INFO 2025-06-26 11:02:48,989 calibrate.py _nudge_pos():1806 [1] 151: 0.100 -0.0000642 0.0000135 30 0.10 -98.659 25.964 2005-11-04T08:33:08.850296320 INFO 2025-06-26 11:02:49,522 calibrate.py _nudge_pos():1806 [1] 207: 0.120 0.0000914 0.0001209 11235 37.45 0.363 0.598 2005-11-04T09:11:30.852598400 INFO 2025-06-26 11:02:50,061 calibrate.py _nudge_pos():1806 [1] 264: 0.100 -0.0000089 0.0000296 2810 9.36 -0.141 0.587 2005-11-04T09:21:48.850262656 INFO 2025-06-26 11:02:50,652 calibrate.py _nudge_pos():1806 [1] 326: 0.120 -0.0000420 0.0000435 3445 11.48 -0.544 0.703 2005-11-04T09:34:18.848884096 INFO 2025-06-26 11:02:50,985 calibrate.py _nudge_pos():1862 [1] 339: - - - 0 0.00 - - INFO 2025-06-26 11:02:50,985 calibrate.py _nudge_pos():1868 [1] Points in final series = 41658 WARNING 2025-06-26 11:02:51,057 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:02:51,383 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:51,711 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:51,965 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:51,967 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.308.01/ctd1.nc INFO 2025-06-26 11:02:51,968 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:02:51,968 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 11:02:51,968 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:02:52,277 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:52,537 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:52,539 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.308.01/ctd2.nc INFO 2025-06-26 11:02:52,540 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 11:02:52,540 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 11:02:52,540 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:02:52,557 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:02:52,992 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:02:52,997 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 11:02:52,997 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.308.01 ERROR 2025-06-26 11:02:52,997 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.308.01 INFO 2025-06-26 11:02:53,033 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_cal.nc INFO 2025-06-26 11:02:53,097 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 11:02:53,101 process.py align():251 [1] Alignment steps for 2005.308.01 INFO 2025-06-26 11:02:53,126 align.py process_cal():139 [1] Processing dorado_2005.308.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.308.01 INFO 2025-06-26 11:02:53,141 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:53,144 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:53,180 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:53,183 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:53,218 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:53,221 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:53,242 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:02:53,242 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:02:53,256 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:53,259 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:53,293 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:53,296 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,326 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:53,329 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,360 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:53,362 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,393 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,396 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,428 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,430 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,461 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,464 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,496 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,499 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,530 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,533 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,564 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,566 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,597 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,600 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,631 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,634 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,665 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,667 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,700 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,703 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,738 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,741 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,776 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,780 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,812 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,816 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,850 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,853 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,884 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,887 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,919 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,921 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,953 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:53,955 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:53,996 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:54,026 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:54,056 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:54,087 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:02:54,119 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:54,145 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_align.nc INFO 2025-06-26 11:02:54,203 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 11:02:54,205 process.py resample():273 [1] Resampling steps for 2005.308.01 INFO 2025-06-26 11:02:54,205 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:02:54,228 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_align.nc mission netCDF file INFO 2025-06-26 11:02:54,233 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_align.nc mission netCDF file INFO 2025-06-26 11:02:54,234 resample.py get_mission_start_end():1145 [1] navigation: 2005-11-04T07:16:01.507291136 to 2005-11-04T09:34:52.856554496 (0 days 00:00:00.089993984 before mission_end) INFO 2025-06-26 11:02:54,236 resample.py get_mission_start_end():1145 [1] hs2 : 2005-11-04T07:15:45.678375424 to 2005-11-04T09:34:52.796558592 (0 days 00:00:00.149989888 before mission_end) INFO 2025-06-26 11:02:54,237 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-11-04T07:16:08.156835584 to 2005-11-04T09:34:52.946548480 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:02:54,239 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-11-04T07:16:08.376820608 to 2005-11-04T09:34:52.926549632 (0 days 00:00:00.019998848 before mission_end) INFO 2025-06-26 11:02:54,240 resample.py get_mission_start_end():1145 [1] isus : 2005-11-04T07:17:07.072799488 to 2005-11-04T09:34:52.476580608 (0 days 00:00:00.469967872 before mission_end) INFO 2025-06-26 11:02:54,241 resample.py get_mission_start_end():1145 [1] biolume : 2005-11-04T07:15:39.878738432 to 2005-11-04T09:34:51.986579840 (0 days 00:00:00.959968640 before mission_end) INFO 2025-06-26 11:02:54,242 resample.py get_mission_start_end():1145 [1] tailcone : 2005-11-04T07:15:40.148754176 to 2005-11-04T09:34:52.936548992 (0 days 00:00:00.009999488 before mission_end) INFO 2025-06-26 11:02:54,243 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_align.nc mission netCDF file INFO 2025-06-26 11:02:54,244 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,353 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,373 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,394 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,414 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,433 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,451 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,469 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,487 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,505 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,522 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,538 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,554 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,570 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,586 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,602 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,618 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,636 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,653 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,670 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,687 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,704 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,722 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,733 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,743 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,754 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,765 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,785 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:54,923 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_1S.nc INFO 2025-06-26 11:02:56,220 create_products.py gulper_odv():401 [1] No gulper times found for 2005.308.01 INFO 2025-06-26 11:02:56,220 process.py archive():337 [1] Archiving steps for 2005.308.01 INFO 2025-06-26 11:02:56,220 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01, BASE_PATH = /data/auv_data INFO 2025-06-26 11:02:56,222 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 11:02:56,222 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.01_1S.nc INFO 2025-06-26 11:02:56,235 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:56,236 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.01_cal.nc INFO 2025-06-26 11:02:56,275 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:56,276 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.01_align.nc INFO 2025-06-26 11:02:56,313 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:56,326 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,341 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,345 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,356 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,386 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,391 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,407 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,419 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,446 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.01 done. INFO 2025-06-26 11:02:56,446 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:02:56,446 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.01/dorado_2005.308.01_processing.log /Volumes/AUVCTD/surveys/2005/netcdf