INFO 2025-06-26 15:34:20,555 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 15:34:20,555 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - Processing requested by Yanwu (Kevin helped with SSDS ingest/portal) - ctdToUse = ctd1 INFO 2025-06-26 15:34:20,555 process.py process_mission():449 [1] Processing AUVCTD mission 2010.083.08 by user docker_user on host eae60d30a712 INFO 2025-06-26 15:34:20,555 process.py download_process():165 [1] Download and processing steps for 2010.083.08 INFO 2025-06-26 15:34:20,555 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2010/2010083/2010.083.08 INFO 2025-06-26 15:34:20,555 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2010/2010083/2010.083.08 to /data/auv_data/dorado/missionlogs/2010.083.08 INFO 2025-06-26 15:34:22,525 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2010.083.08 INFO 2025-06-26 15:34:22,525 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/ctdDriver.log (3738726 bytes) INFO 2025-06-26 15:34:22,791 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2010.083.08/ctdDriver.log: [ 310 598 710 1607 2296 2361 3063 4706 7108 10430 14250 18855 36764] INFO 2025-06-26 15:34:22,802 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/ctdDriver2.log (3738623 bytes) INFO 2025-06-26 15:34:23,070 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2010.083.08/ctdDriver2.log: [ 513 598 711 1608 4597 4706 7106 8191 14250 18855 34910 36763] INFO 2025-06-26 15:34:23,083 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/gps.log (29300 bytes) INFO 2025-06-26 15:34:23,094 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/hydroscatlog.log (3278290 bytes) INFO 2025-06-26 15:34:23,431 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2010.083.08/hydroscatlog.log: [ 1 75 114 176 385 396 555 587 684 775 782 1120 1291 1914 2452 3062 3512 3578 4270 4575 5589 6394 7198 7506 8632 10138 11616 12948 14086 15124 15570 15657 18822 19421 21072 24157 31547 35096 36594 38662] INFO 2025-06-26 15:34:23,440 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/navigation.log (11434562 bytes) INFO 2025-06-26 15:34:24,258 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/isuslog.log (240725 bytes) INFO 2025-06-26 15:34:24,286 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/parosci.log (3807494 bytes) INFO 2025-06-26 15:34:24,607 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/tailCone.log (2332843 bytes) INFO 2025-06-26 15:34:24,906 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.38 seconds INFO 2025-06-26 15:34:24,906 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2010.083.08/lopc.bin (6597885 bytes) INFO 2025-06-26 15:34:24,907 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 15:34:24 2025 INFO 2025-06-26 15:34:24,907 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2010.083.08/parosci.nc INFO 2025-06-26 15:34:24,907 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 15:34:24,907 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2010.083.08/parosci.nc INFO 2025-06-26 15:34:24,910 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1269457103.6, sensor_off_time = 1269466868.0 INFO 2025-06-26 15:34:24,910 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 9764 seconds. Expecting to read 19528 L frames from the lopc.bin file. INFO 2025-06-26 15:34:24,910 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 19528 records from the lopc.bin file. INFO 2025-06-26 15:34:25,026 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2010-03-24 18:58:23 Z and endTime = 2010-03-24 21:41:08 Z with 19528 records expected to be read from lopc.bin INFO 2025-06-26 15:34:25,026 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2010.083.08/lopc.bin INFO 2025-06-26 15:34:25,026 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2010.083.08/lopc.nc INFO 2025-06-26 15:34:25,027 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2010.083.08/lopc.nc INFO 2025-06-26 15:34:25,027 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2010.083.08 INFO 2025-06-26 15:34:25,027 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 ERROR 2025-06-26 15:34:25,031 process.py download_process():223 [1] UnexpectedAreaOfCode: Encountered unexpected area of code - lopc.nc file is probably corrupt INFO 2025-06-26 15:34:25,031 process.py calibrate():227 [1] Calibration steps for 2010.083.08 INFO 2025-06-26 15:34:25,155 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 15:34:25,157 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 15:34:25,725 calibrate.py _nudge_pos():1806 [1] 102: 0.080 0.0000254 -0.0005504 1989 6.73 0.560 -15.154 2010-03-24T19:06:46.228530432 INFO 2025-06-26 15:34:26,140 calibrate.py _nudge_pos():1806 [1] 146: 0.080 0.0069965 -0.0029991 15390 51.48 20.171 -10.795 2010-03-24T19:58:58.223974144 INFO 2025-06-26 15:34:26,749 calibrate.py _nudge_pos():1806 [1] 211: 0.090 0.0063342 -0.0021110 15257 50.93 18.459 -7.680 2010-03-24T20:50:58.220239616 INFO 2025-06-26 15:34:27,346 calibrate.py _nudge_pos():1806 [1] 273: 0.100 0.0037353 -0.0008887 9854 32.88 16.861 -5.008 2010-03-24T21:24:52.220901376 INFO 2025-06-26 15:34:27,903 calibrate.py _nudge_pos():1806 [1] 331: 0.090 -0.0000590 -0.0006397 4269 14.25 -0.615 -8.320 2010-03-24T21:40:04.228424192 INFO 2025-06-26 15:34:28,513 calibrate.py _nudge_pos():1862 [1] 343: - - - 4 0.01 - - INFO 2025-06-26 15:34:28,513 calibrate.py _nudge_pos():1868 [1] Points in final series = 48442 WARNING 2025-06-26 15:34:28,577 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 15:34:33,840 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 6 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:34:36,718 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:34:37,008 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:34:37,010 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2010.083.08/ctd1.nc INFO 2025-06-26 15:34:37,011 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 15:34:37,012 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 15:34:37,012 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 15:34:39,182 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:34:39,473 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:34:39,475 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2010.083.08/ctd2.nc INFO 2025-06-26 15:34:39,477 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 15:34:39,477 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 15:34:39,477 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 15:34:39,489 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.083.08 ERROR 2025-06-26 15:34:39,489 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no time coordinate - likely an incomplete lopc.nc file in missionlogs/2010.083.08 ERROR 2025-06-26 15:34:39,489 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.083.08 INFO 2025-06-26 15:34:39,529 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_cal.nc INFO 2025-06-26 15:34:43,818 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, 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 15:34:43,823 process.py align():251 [1] Alignment steps for 2010.083.08 INFO 2025-06-26 15:34:43,847 align.py process_cal():139 [1] Processing dorado_2010.083.08_cal.nc from /data/auv_data/dorado/missionnetcdfs/2010.083.08 INFO 2025-06-26 15:34:43,864 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:34:43,867 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 15:34:43,904 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:34:43,907 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 15:34:43,945 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:34:43,948 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 15:34:43,970 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 15:34:43,970 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 15:34:43,985 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:34:43,988 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 15:34:44,028 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,031 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 15:34:44,066 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,069 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 15:34:44,103 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,106 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 3.99 INFO 2025-06-26 15:34:44,140 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,143 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,177 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,180 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,214 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,217 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,252 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,255 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,289 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,292 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,327 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,331 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,365 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,368 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,403 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,406 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,440 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,444 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,479 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,482 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,516 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,518 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,554 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,557 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,591 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,594 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,629 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,632 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,666 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,669 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,703 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,706 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,740 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,743 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,777 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,781 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,814 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.083.08_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:34:44,817 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:34:44,858 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:34:44,887 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:34:44,918 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:34:44,949 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 15:34:44,977 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_align.nc INFO 2025-06-26 15:34:45,038 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_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, 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 15:34:45,040 process.py resample():273 [1] Resampling steps for 2010.083.08 INFO 2025-06-26 15:34:45,040 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 15:34:45,064 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_align.nc mission netCDF file INFO 2025-06-26 15:34:45,069 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_align.nc mission netCDF file INFO 2025-06-26 15:34:45,070 resample.py get_mission_start_end():1145 [1] navigation: 2010-03-24T18:59:13.289558784 to 2010-03-24T21:41:08.024054016 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 15:34:45,071 resample.py get_mission_start_end():1145 [1] hs2 : 2010-03-24T18:58:30.302503936 to 2010-03-24T21:41:07.924060928 (0 days 00:00:00.129990912 before mission_end) INFO 2025-06-26 15:34:45,073 resample.py get_mission_start_end():1145 [1] ctd1 : 2010-03-24T18:58:50.961088768 to 2010-03-24T21:41:07.984056832 (0 days 00:00:00.069995008 before mission_end) INFO 2025-06-26 15:34:45,074 resample.py get_mission_start_end():1145 [1] ctd2 : 2010-03-24T18:58:50.941089792 to 2010-03-24T21:41:07.954059008 (0 days 00:00:00.099992832 before mission_end) INFO 2025-06-26 15:34:45,076 resample.py get_mission_start_end():1145 [1] isus : 2010-03-24T18:59:38.907803904 to 2010-03-24T21:41:07.274105344 (0 days 00:00:00.779946496 before mission_end) INFO 2025-06-26 15:34:45,077 resample.py get_mission_start_end():1145 [1] tailcone : 2010-03-24T18:58:24.682888704 to 2010-03-24T21:41:08.054051840 (0 days 00:00:00 before mission_end) INFO 2025-06-26 15:34:45,077 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_align.nc mission netCDF file INFO 2025-06-26 15:34:45,078 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,205 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,228 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,251 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,274 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,295 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,316 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,337 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,358 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,377 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,395 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,413 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,431 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,450 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,469 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,487 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,505 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,523 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,543 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,563 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,582 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,600 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,619 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,638 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,657 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,670 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,682 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,693 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,715 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 15:34:45,864 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_1S.nc INFO 2025-06-26 15:34:47,698 create_products.py _get_best_ctd():380 [1] ctdToUse = ctd1 INFO 2025-06-26 15:34:51,909 create_products.py gulper_odv():522 [1] Wrote 4 Gulper data lines to /data/auv_data/dorado/missionodvs/2010.083.08/dorado_2010.083.08_1S_Gulper.txt INFO 2025-06-26 15:34:51,909 process.py archive():337 [1] Archiving steps for 2010.083.08 INFO 2025-06-26 15:34:51,909 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08, BASE_PATH = /data/auv_data INFO 2025-06-26 15:34:51,911 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08 files to /Volumes/AUVCTD/surveys/2010/netcdf INFO 2025-06-26 15:34:51,912 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.083.08_1S.nc INFO 2025-06-26 15:34:51,924 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_1S.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:34:51,925 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.083.08_cal.nc INFO 2025-06-26 15:34:51,965 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_cal.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:34:51,966 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.083.08_align.nc INFO 2025-06-26 15:34:52,005 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_align.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:34:52,021 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,035 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,039 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/gps.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,052 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,084 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,089 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,104 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,115 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,120 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010083/2010.083.08 done. INFO 2025-06-26 15:34:52,120 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 15:34:52,121 archive.py copy_to_AUVTCD():133 [1] Removing /Volumes/AUVCTD/surveys/2010/odv/dorado_2010.083.08_1S_Gulper.txt INFO 2025-06-26 15:34:52,126 archive.py copy_to_AUVTCD():136 [1] copyfile /data/auv_data/dorado/missionodvs/2010.083.08/dorado_2010.083.08_1S_Gulper.txt /Volumes/AUVCTD/surveys/2010/odv done. INFO 2025-06-26 15:34:52,126 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.083.08/dorado_2010.083.08_processing.log /Volumes/AUVCTD/surveys/2010/netcdf