INFO 2025-06-26 10:33:30,744 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 10:33:30,744 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Night-time survey that hit mud near Pt. Pinos. - ctdToUse = ctd1 INFO 2025-06-26 10:33:30,744 process.py process_mission():449 [1] Processing BIOLUME mission 2005.103.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:33:30,744 process.py download_process():165 [1] Download and processing steps for 2005.103.01 INFO 2025-06-26 10:33:30,744 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005103/2005.103.01 INFO 2025-06-26 10:33:30,744 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005103/2005.103.01 to /data/auv_data/dorado/missionlogs/2005.103.01 INFO 2025-06-26 10:33:31,044 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.103.01 INFO 2025-06-26 10:33:31,044 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/ctdDriver.log (3343779 bytes) INFO 2025-06-26 10:33:31,292 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/ctdDriver2.log (3347293 bytes) INFO 2025-06-26 10:33:31,568 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/gps.log (34556 bytes) INFO 2025-06-26 10:33:31,580 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/hydroscatlog.log (2285234 bytes) INFO 2025-06-26 10:33:31,853 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/navigation.log (11213194 bytes) INFO 2025-06-26 10:33:32,677 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/isuslog.log (189397 bytes) INFO 2025-06-26 10:33:32,700 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/parosci.log (2248742 bytes) INFO 2025-06-26 10:33:32,893 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/tailCone.log (2285899 bytes) INFO 2025-06-26 10:33:33,188 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.103.01/biolume.log (2594476 bytes) INFO 2025-06-26 10:33:33,448 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:33:33,585 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.54 seconds WARNING 2025-06-26 10:33:33,586 process.py download_process():196 [1] No lopc.bin file for 2005.103.01 INFO 2025-06-26 10:33:33,586 process.py calibrate():227 [1] Calibration steps for 2005.103.01 INFO 2025-06-26 10:33:33,703 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 10:33:33,704 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:33:35,294 calibrate.py _nudge_pos():1806 [1] 182: 0.090 0.0001094 0.0000332 1092 3.66 4.425 1.679 2005-04-13T03:16:01.018767360 INFO 2025-06-26 10:33:35,304 calibrate.py _nudge_pos():1806 [1] 183: 0.100 -0.0001032 -0.0000326 45 0.15 -104.195 -41.149 2005-04-13T03:16:10.018151040 INFO 2025-06-26 10:33:36,264 calibrate.py _nudge_pos():1806 [1] 284: 0.100 -0.0009752 -0.0016417 11091 36.98 -3.908 -8.226 2005-04-13T03:54:49.019288576 INFO 2025-06-26 10:33:36,887 calibrate.py _nudge_pos():1806 [1] 349: 0.090 -0.0017945 -0.0006150 11014 36.73 -7.242 -3.103 2005-04-13T04:32:37.023919616 INFO 2025-06-26 10:33:37,325 calibrate.py _nudge_pos():1806 [1] 394: 0.100 -0.0015288 -0.0014821 11030 36.76 -6.167 -7.470 2005-04-13T05:10:07.019784192 INFO 2025-06-26 10:33:37,862 calibrate.py _nudge_pos():1806 [1] 451: 0.100 -0.0062556 -0.0008370 11030 36.76 -25.241 -4.219 2005-04-13T05:47:49.014827008 INFO 2025-06-26 10:33:38,025 calibrate.py _nudge_pos():1862 [1] 447: - - - 3 0.01 - - INFO 2025-06-26 10:33:38,025 calibrate.py _nudge_pos():1868 [1] Points in final series = 47505 WARNING 2025-06-26 10:33:38,065 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 10:33:38,418 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:33:38,776 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:33:39,062 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:33:39,063 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.103.01/ctd1.nc INFO 2025-06-26 10:33:39,065 calibrate.py _range_qc_combined_nc():898 [1] Setting 72 ctd1_salinity values to NaN INFO 2025-06-26 10:33:39,065 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 10:33:39,065 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:33:39,416 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 16 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:33:39,700 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 16 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:33:39,702 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.103.01/ctd2.nc INFO 2025-06-26 10:33:39,703 calibrate.py _range_qc_combined_nc():898 [1] Setting 12 ctd2_salinity values to NaN INFO 2025-06-26 10:33:39,703 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 10:33:39,703 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:33:39,722 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:33:40,215 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [436440] INFO 2025-06-26 10:33:40,301 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:33:40,307 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 10:33:40,307 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.103.01 ERROR 2025-06-26 10:33:40,307 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.103.01 INFO 2025-06-26 10:33:40,348 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_cal.nc INFO 2025-06-26 10:33:40,411 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 10:33:40,417 process.py align():251 [1] Alignment steps for 2005.103.01 INFO 2025-06-26 10:33:40,445 align.py process_cal():139 [1] Processing dorado_2005.103.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.103.01 INFO 2025-06-26 10:33:40,462 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:33:40,465 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:33:40,505 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:33:40,508 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:33:40,546 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:33:40,549 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:33:40,572 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:33:40,572 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:33:40,595 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:33:40,598 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:33:40,635 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:33:40,638 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,671 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:33:40,674 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,708 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:33:40,711 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,744 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,747 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,781 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,784 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,818 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,821 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,856 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,859 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,893 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,896 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,930 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,933 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:40,968 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:40,971 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,006 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,009 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,044 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,047 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,082 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,084 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,121 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,124 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,159 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,163 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,198 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,201 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,237 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,240 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,275 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,278 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,313 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,316 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,351 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.103.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:33:41,354 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:33:41,393 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:33:41,423 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:33:41,451 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 10:33:41,480 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:33:41,510 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:33:41,539 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_align.nc INFO 2025-06-26 10:33:41,600 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 10:33:41,602 process.py resample():273 [1] Resampling steps for 2005.103.01 INFO 2025-06-26 10:33:41,603 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:33:41,627 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_align.nc mission netCDF file INFO 2025-06-26 10:33:41,632 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_align.nc mission netCDF file INFO 2025-06-26 10:33:41,634 resample.py get_mission_start_end():1145 [1] navigation: 2005-04-13T03:09:41.244783872 to 2005-04-13T05:48:05.623689216 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:33:41,635 resample.py get_mission_start_end():1145 [1] hs2 : 2005-04-13T03:09:23.855974912 to 2005-04-13T05:48:05.523696000 (0 days 00:00:00.099993216 before mission_end) INFO 2025-06-26 10:33:41,637 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-04-13T03:09:47.454358400 to 2005-04-13T05:48:05.473699584 (0 days 00:00:00.149989632 before mission_end) INFO 2025-06-26 10:33:41,638 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-04-13T03:09:36.985075456 to 2005-04-13T05:48:05.513696640 (0 days 00:00:00.109992576 before mission_end) INFO 2025-06-26 10:33:41,640 resample.py get_mission_start_end():1145 [1] isus : 2005-04-13T03:10:36.211018368 to 2005-04-13T05:48:04.183787776 (0 days 00:00:01.439901440 before mission_end) INFO 2025-06-26 10:33:41,641 resample.py get_mission_start_end():1145 [1] biolume : 2005-04-13T03:09:18.946277120 to 2005-04-13T05:48:04.863707008 (0 days 00:00:00.759982208 before mission_end) INFO 2025-06-26 10:33:41,643 resample.py get_mission_start_end():1145 [1] tailcone : 2005-04-13T03:09:21.286150912 to 2005-04-13T05:48:05.443701504 (0 days 00:00:00.179987712 before mission_end) INFO 2025-06-26 10:33:41,643 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_align.nc mission netCDF file INFO 2025-06-26 10:33:41,644 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,763 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,786 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,807 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,829 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,850 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,871 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,890 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,909 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,927 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,946 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,965 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:41,982 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,000 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,018 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,036 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,054 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,074 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,094 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,114 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,133 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,152 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,172 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,185 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,196 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,206 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,218 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,241 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:33:42,391 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_1S.nc INFO 2025-06-26 10:33:43,169 create_products.py gulper_odv():401 [1] No gulper times found for 2005.103.01 INFO 2025-06-26 10:33:43,169 process.py archive():337 [1] Archiving steps for 2005.103.01 INFO 2025-06-26 10:33:43,169 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01, BASE_PATH = /data/auv_data INFO 2025-06-26 10:33:43,169 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:33:43,171 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.01_1S.nc INFO 2025-06-26 10:33:43,184 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:33:43,186 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.01_cal.nc INFO 2025-06-26 10:33:43,232 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:33:43,233 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.103.01_align.nc INFO 2025-06-26 10:33:43,281 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:33:43,299 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,315 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,322 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,334 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,370 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,377 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,389 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,403 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,435 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005103/2005.103.01 done. INFO 2025-06-26 10:33:43,435 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:33:43,436 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.103.01/dorado_2005.103.01_processing.log /Volumes/AUVCTD/surveys/2005/netcdf