INFO 2025-06-26 05:36:34,932 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2003 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 05:36:34,932 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 7/7/05 - ctdToUse = ctd1 INFO 2025-06-26 05:36:34,932 process.py process_mission():449 [1] Processing BIOLUME mission 2003.225.02 by user docker_user on host 671049448ece INFO 2025-06-26 05:36:34,932 process.py download_process():165 [1] Download and processing steps for 2003.225.02 INFO 2025-06-26 05:36:34,932 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2003/2003225/2003.225.02 INFO 2025-06-26 05:36:34,932 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2003/2003225/2003.225.02 to /data/auv_data/dorado/missionlogs/2003.225.02 INFO 2025-06-26 05:36:37,125 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2003.225.02 INFO 2025-06-26 05:36:37,125 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/ctdDriver.log (4738227 bytes) INFO 2025-06-26 05:36:37,475 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/ctdDriver2.log (4737869 bytes) INFO 2025-06-26 05:36:37,816 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/gps.log (25586 bytes) INFO 2025-06-26 05:36:37,825 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/hydroscatlog.log (3233654 bytes) INFO 2025-06-26 05:36:38,200 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/navigation.log (13191550 bytes) INFO 2025-06-26 05:36:39,155 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/isuslog.log (259861 bytes) INFO 2025-06-26 05:36:39,185 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/parosci.log (3235574 bytes) INFO 2025-06-26 05:36:39,458 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/tailCone.log (3235051 bytes) WARNING 2025-06-26 05:36:39,458 logs2netcdfs.py download_process_logs():795 [1] Failed to parse long_name & units from header in file /data/auv_data/dorado/missionlogs/2003.225.02/tailCone.log INFO 2025-06-26 05:36:39,458 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2003.225.02/biolume.log (3669664 bytes) INFO 2025-06-26 05:36:39,826 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 05:36:40,018 logs2netcdfs.py download_process_logs():807 [1] Time to process: 2.89 seconds WARNING 2025-06-26 05:36:40,019 process.py download_process():196 [1] No lopc.bin file for 2003.225.02 INFO 2025-06-26 05:36:40,019 process.py calibrate():227 [1] Calibration steps for 2003.225.02 INFO 2025-06-26 05:36:40,222 calibrate.py _navigation_process():1524 [1] Converting from Easting/Northing to lat/lon for mission 2003.225.02 INFO 2025-06-26 05:36:40,239 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 05:36:40,241 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 05:36:41,633 calibrate.py _nudge_pos():1806 [1] 165: 0.110 -0.0000049 0.0000069 30 0.10 -7.478 13.125 2003-08-13T05:12:08.460123904 INFO 2025-06-26 05:36:41,671 calibrate.py _nudge_pos():1806 [1] 169: 0.090 -0.0029014 -0.0025238 12966 43.22 -9.981 -10.822 2003-08-13T05:55:24.652272640 INFO 2025-06-26 05:36:41,740 calibrate.py _nudge_pos():1806 [1] 176: 0.080 -0.0000026 0.0000082 15 0.05 -8.275 32.408 2003-08-13T05:55:33.651656192 INFO 2025-06-26 05:36:42,163 calibrate.py _nudge_pos():1806 [1] 221: 0.080 0.0000425 0.0000013 25 0.08 78.978 3.033 2003-08-13T05:56:22.658299008 INFO 2025-06-26 05:36:42,276 calibrate.py _nudge_pos():1806 [1] 233: 0.070 -0.0033190 -0.0024297 13066 43.55 -11.326 -10.338 2003-08-13T06:40:06.858528896 INFO 2025-06-26 05:36:42,370 calibrate.py _nudge_pos():1806 [1] 243: 0.060 0.0000246 -0.0000110 15 0.05 78.333 -43.743 2003-08-13T06:40:18.857706880 INFO 2025-06-26 05:36:42,804 calibrate.py _nudge_pos():1806 [1] 288: 0.020 -0.0030142 -0.0025302 13516 45.05 -9.941 -10.407 2003-08-13T07:26:06.059510656 INFO 2025-06-26 05:36:43,432 calibrate.py _nudge_pos():1806 [1] 353: 0.010 -0.0034776 -0.0024093 13756 45.85 -11.265 -9.737 2003-08-13T08:13:01.256656384 INFO 2025-06-26 05:36:43,796 calibrate.py _nudge_pos():1806 [1] 391: 0.160 -0.0036978 -0.0016697 11995 39.98 -13.733 -7.739 2003-08-13T08:53:37.259778816 INFO 2025-06-26 05:36:44,013 calibrate.py _nudge_pos():1862 [1] 392: - - - 4 0.01 - - INFO 2025-06-26 05:36:44,013 calibrate.py _nudge_pos():1868 [1] Points in final series = 67298 WARNING 2025-06-26 05:36:44,072 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 05:36:44,571 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:45,069 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:45,464 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:45,466 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2003.225.02/ctd1.nc INFO 2025-06-26 05:36:45,467 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 05:36:45,468 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 05:36:45,468 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 05:36:45,932 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:46,332 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 19 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 05:36:46,334 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2003.225.02/ctd2.nc INFO 2025-06-26 05:36:46,335 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 05:36:46,335 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 05:36:46,335 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 05:36:46,358 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 05:36:46,937 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 660 46680 71820 79020 100140 117840 121620 209520 212160 273240 276180 276540 277920 279900 304080 308880 310020 327060 327480 330300 340380 342660 348420 349620 357420 362940 371700 373380 373620 374640 375060 375180 375780 376140 376380 376500 377460 378420 378660 378780 379260 379860 380580 381660 381900 382380 382620 385020 385920 386220 386580 510900 511500 515520 518940 520380 523260 541560 544680 549840 563460 580200 581640 582600 621960 661320 762240] INFO 2025-06-26 05:36:47,053 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 05:36:47,058 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 05:36:47,058 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.225.02 ERROR 2025-06-26 05:36:47,058 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.225.02 ERROR 2025-06-26 05:36:47,059 calibrate.py process_logs():3542 [1] Error processing tailcone: tailcone has no orig_data - likely a missing or zero-sized .log file in missionlogs/2003.225.02 INFO 2025-06-26 05:36:47,059 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_cal.nc INFO 2025-06-26 05:36:47,128 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, time INFO 2025-06-26 05:36:47,132 process.py align():251 [1] Alignment steps for 2003.225.02 INFO 2025-06-26 05:36:47,158 align.py process_cal():139 [1] Processing dorado_2003.225.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2003.225.02 INFO 2025-06-26 05:36:47,180 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:47,183 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:47,237 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:47,241 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:47,292 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:47,296 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:47,326 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 05:36:47,326 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 05:36:47,347 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 05:36:47,351 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 05:36:47,401 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:47,405 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,451 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:47,455 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,501 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 05:36:47,505 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,550 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,554 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,599 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,603 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,648 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,652 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,698 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,702 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,746 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,750 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,796 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,799 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,844 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,848 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,893 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,896 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,941 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,945 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:47,992 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:47,995 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,040 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,044 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,090 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,094 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,140 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,144 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,189 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,193 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,239 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,243 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,289 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,292 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,338 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2003.225.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 05:36:48,341 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 05:36:48,391 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:48,425 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:48,459 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-06-26 05:36:48,494 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 05:36:48,509 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_align.nc INFO 2025-06-26 05:36:48,568 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 INFO 2025-06-26 05:36:48,571 process.py resample():273 [1] Resampling steps for 2003.225.02 INFO 2025-06-26 05:36:48,571 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 05:36:48,594 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_align.nc mission netCDF file INFO 2025-06-26 05:36:48,599 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_align.nc mission netCDF file INFO 2025-06-26 05:36:48,600 resample.py get_mission_start_end():1145 [1] navigation: 2003-08-13T05:09:40.660248960 to 2003-08-13T08:54:00.058217088 (0 days 00:00:00 before mission_end) INFO 2025-06-26 05:36:48,602 resample.py get_mission_start_end():1145 [1] hs2 : 2003-08-13T05:09:23.201444992 to 2003-08-13T08:54:00.038218368 (0 days 00:00:00.019998720 before mission_end) INFO 2025-06-26 05:36:48,604 resample.py get_mission_start_end():1145 [1] ctd1 : 2003-08-13T05:09:39.000362624 to 2003-08-13T08:54:00.048217600 (0 days 00:00:00.009999488 before mission_end) INFO 2025-06-26 05:36:48,606 resample.py get_mission_start_end():1145 [1] ctd2 : 2003-08-13T05:09:39.270344192 to 2003-08-13T08:54:00.048217600 (0 days 00:00:00.009999488 before mission_end) INFO 2025-06-26 05:36:48,607 resample.py get_mission_start_end():1145 [1] isus : 2003-08-13T05:10:34.946530048 to 2003-08-13T08:53:58.528321920 (0 days 00:00:01.529895168 before mission_end) INFO 2025-06-26 05:36:48,608 resample.py get_mission_start_end():1145 [1] biolume : 2003-08-13T05:09:18.551729152 to 2003-08-13T08:53:59.258237568 (0 days 00:00:00.799979520 before mission_end) INFO 2025-06-26 05:36:48,609 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_align.nc mission netCDF file INFO 2025-06-26 05:36:48,610 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,768 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,796 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,824 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,851 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,876 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,901 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,925 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,949 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,973 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:48,995 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,020 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,044 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,066 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,089 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,111 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,132 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,157 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,180 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,203 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,226 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,250 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,274 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,287 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,299 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,310 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,323 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 05:36:49,489 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_1S.nc INFO 2025-06-26 05:36:50,625 create_products.py gulper_odv():401 [1] No gulper times found for 2003.225.02 INFO 2025-06-26 05:36:50,626 process.py archive():337 [1] Archiving steps for 2003.225.02 INFO 2025-06-26 05:36:50,626 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02, BASE_PATH = /data/auv_data INFO 2025-06-26 05:36:50,626 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02 files to /Volumes/AUVCTD/surveys/2003/netcdf INFO 2025-06-26 05:36:50,627 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.225.02_1S.nc INFO 2025-06-26 05:36:50,643 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_1S.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:50,644 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.225.02_cal.nc INFO 2025-06-26 05:36:50,697 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_cal.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:50,698 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2003/netcdf/dorado_2003.225.02_align.nc INFO 2025-06-26 05:36:50,748 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_align.nc /Volumes/AUVCTD/surveys/2003/netcdf done. INFO 2025-06-26 05:36:50,769 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,788 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,792 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,806 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,848 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,857 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,872 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,917 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2003/2003225/2003.225.02 done. INFO 2025-06-26 05:36:50,917 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 05:36:50,917 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2003.225.02/dorado_2003.225.02_processing.log /Volumes/AUVCTD/surveys/2003/netcdf