INFO 2025-06-26 06:08:09,049 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 06:08:09,049 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Re-portaled 8/21/05 - ctdToUse = ctd1 INFO 2025-06-26 06:08:09,049 process.py process_mission():449 [1] Processing BIOLUME mission 2004.317.01 by user docker_user on host 671049448ece INFO 2025-06-26 06:08:09,049 process.py download_process():165 [1] Download and processing steps for 2004.317.01 INFO 2025-06-26 06:08:09,049 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004317/2004.317.01 INFO 2025-06-26 06:08:09,049 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004317/2004.317.01 to /data/auv_data/dorado/missionlogs/2004.317.01 INFO 2025-06-26 06:08:11,117 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2004.317.01 INFO 2025-06-26 06:08:11,118 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/ctdDriver.log (6949843 bytes) INFO 2025-06-26 06:08:11,618 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/ctdDriver2.log (6949925 bytes) INFO 2025-06-26 06:08:12,125 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/gps.log (63140 bytes) INFO 2025-06-26 06:08:12,140 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/hydroscatlog.log (4740434 bytes) INFO 2025-06-26 06:08:12,686 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2004.317.01/hydroscatlog.log: [7376] INFO 2025-06-26 06:08:12,698 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/navigation.log (15397519 bytes) INFO 2025-06-26 06:08:13,839 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/isuslog.log (407861 bytes) INFO 2025-06-26 06:08:13,888 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/parosci.log (4742870 bytes) INFO 2025-06-26 06:08:14,299 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/tailCone.log (4742251 bytes) INFO 2025-06-26 06:08:14,909 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2004.317.01/biolume.log (5378668 bytes) INFO 2025-06-26 06:08:15,440 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 06:08:15,713 logs2netcdfs.py download_process_logs():807 [1] Time to process: 4.60 seconds WARNING 2025-06-26 06:08:15,713 process.py download_process():196 [1] No lopc.bin file for 2004.317.01 INFO 2025-06-26 06:08:15,713 process.py calibrate():227 [1] Calibration steps for 2004.317.01 INFO 2025-06-26 06:08:15,887 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 06:08:15,889 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 06:08:17,287 calibrate.py _nudge_pos():1806 [1] 166: 0.080 -0.0010763 0.0004315 3395 11.31 -14.093 7.068 2004-11-12T04:39:42.361072000 INFO 2025-06-26 06:08:18,039 calibrate.py _nudge_pos():1806 [1] 246: 0.070 -0.0015074 0.0004915 8574 28.58 -7.815 3.187 2004-11-12T05:09:36.358174848 INFO 2025-06-26 06:08:18,550 calibrate.py _nudge_pos():1806 [1] 297: 0.060 -0.0016736 0.0006566 10340 34.46 -7.198 3.530 2004-11-12T05:44:54.363081472 INFO 2025-06-26 06:08:19,058 calibrate.py _nudge_pos():1806 [1] 349: 0.080 -0.0013889 0.0000537 10185 33.95 -6.067 0.293 2004-11-12T06:19:42.360043776 INFO 2025-06-26 06:08:19,552 calibrate.py _nudge_pos():1806 [1] 398: 0.070 -0.0020131 -0.0021546 11162 37.21 -8.025 -10.728 2004-11-12T06:57:43.363784320 INFO 2025-06-26 06:08:20,013 calibrate.py _nudge_pos():1806 [1] 446: 0.070 -0.0013521 -0.0016548 10710 35.70 -5.621 -8.590 2004-11-12T07:34:12.363827712 INFO 2025-06-26 06:08:20,486 calibrate.py _nudge_pos():1806 [1] 493: 0.070 -0.0018478 -0.0017549 11242 37.48 -7.319 -8.676 2004-11-12T08:12:27.366609152 INFO 2025-06-26 06:08:21,558 calibrate.py _nudge_pos():1806 [1] 604: 0.100 -0.0008788 -0.0002841 4295 14.31 -9.116 -3.678 2004-11-12T08:28:36.360228480 INFO 2025-06-26 06:08:21,997 calibrate.py _nudge_pos():1806 [1] 649: 0.080 0.0015321 -0.0034917 11539 38.46 5.916 -16.822 2004-11-12T09:07:48.359105536 INFO 2025-06-26 06:08:22,482 calibrate.py _nudge_pos():1806 [1] 696: 0.090 0.0011844 -0.0020717 13090 43.63 4.033 -8.799 2004-11-12T09:52:12.366608640 INFO 2025-06-26 06:08:24,148 calibrate.py _nudge_pos():1862 [1] 843: - - - 3 0.01 - - INFO 2025-06-26 06:08:24,148 calibrate.py _nudge_pos():1868 [1] Points in final series = 98694 WARNING 2025-06-26 06:08:24,230 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-06-26 06:08:34,815 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:08:35,610 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:08:36,183 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:08:36,186 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2004.317.01/ctd1.nc INFO 2025-06-26 06:08:36,187 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 06:08:36,187 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 06:08:36,187 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 06:08:36,874 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:08:37,447 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 18 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 06:08:37,449 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2004.317.01/ctd2.nc INFO 2025-06-26 06:08:37,450 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 06:08:37,451 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 06:08:37,451 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 06:08:37,482 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 06:08:38,328 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [1179840] INFO 2025-06-26 06:08:38,496 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 06:08:38,501 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 06:08:38,501 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.317.01 ERROR 2025-06-26 06:08:38,501 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.317.01 INFO 2025-06-26 06:08:38,650 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_cal.nc INFO 2025-06-26 06:08:38,736 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 06:08:38,741 process.py align():251 [1] Alignment steps for 2004.317.01 INFO 2025-06-26 06:08:38,768 align.py process_cal():139 [1] Processing dorado_2004.317.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2004.317.01 INFO 2025-06-26 06:08:38,797 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:38,800 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:38,874 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:38,878 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:38,947 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:38,951 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:38,992 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 06:08:38,992 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 06:08:39,021 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 06:08:39,025 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:39,094 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:39,098 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,159 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:39,163 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,222 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 06:08:39,226 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,286 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,290 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,352 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,356 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,415 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,419 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,481 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,485 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,550 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,567 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,629 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,633 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,694 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,698 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,759 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,764 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,824 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,828 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,889 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,892 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:39,953 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:39,957 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,020 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,025 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,088 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,094 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,156 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,161 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,230 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,235 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,297 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,302 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,364 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.317.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 06:08:40,367 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 06:08:40,435 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:40,478 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:40,523 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.65 INFO 2025-06-26 06:08:40,570 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 06:08:40,618 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 06:08:40,665 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_align.nc INFO 2025-06-26 06:08:40,745 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 06:08:40,747 process.py resample():273 [1] Resampling steps for 2004.317.01 INFO 2025-06-26 06:08:40,748 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 06:08:40,774 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_align.nc mission netCDF file INFO 2025-06-26 06:08:40,780 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_align.nc mission netCDF file INFO 2025-06-26 06:08:40,781 resample.py get_mission_start_end():1145 [1] navigation: 2004-11-12T04:26:00.767355008 to 2004-11-12T09:55:00.965058816 (0 days 00:00:00.009999232 before mission_end) INFO 2025-06-26 06:08:40,783 resample.py get_mission_start_end():1145 [1] hs2 : 2004-11-12T04:25:43.328549632 to 2004-11-12T09:55:00.865065600 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 06:08:40,784 resample.py get_mission_start_end():1145 [1] ctd1 : 2004-11-12T04:25:59.377450240 to 2004-11-12T09:55:00.945060224 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 06:08:40,786 resample.py get_mission_start_end():1145 [1] ctd2 : 2004-11-12T04:25:59.297455744 to 2004-11-12T09:55:00.865065600 (0 days 00:00:00.109992448 before mission_end) INFO 2025-06-26 06:08:40,787 resample.py get_mission_start_end():1145 [1] isus : 2004-11-12T04:26:55.543602432 to 2004-11-12T09:55:00.805069696 (0 days 00:00:00.169988352 before mission_end) INFO 2025-06-26 06:08:40,789 resample.py get_mission_start_end():1145 [1] biolume : 2004-11-12T04:25:38.368855296 to 2004-11-12T09:54:59.685112192 (0 days 00:00:01.289945856 before mission_end) INFO 2025-06-26 06:08:40,790 resample.py get_mission_start_end():1145 [1] tailcone : 2004-11-12T04:25:40.618735360 to 2004-11-12T09:55:00.975058048 (0 days 00:00:00 before mission_end) INFO 2025-06-26 06:08:40,791 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_align.nc mission netCDF file INFO 2025-06-26 06:08:40,792 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,012 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,050 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,088 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,125 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,159 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,192 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,225 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,258 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,289 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,319 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,349 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,379 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,409 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,438 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,468 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,498 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,531 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,563 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,596 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,628 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,659 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,689 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,704 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,718 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,731 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,746 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,782 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 06:08:41,992 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_1S.nc INFO 2025-06-26 06:08:43,041 create_products.py gulper_odv():401 [1] No gulper times found for 2004.317.01 INFO 2025-06-26 06:08:43,042 process.py archive():337 [1] Archiving steps for 2004.317.01 INFO 2025-06-26 06:08:43,042 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01, BASE_PATH = /data/auv_data INFO 2025-06-26 06:08:43,043 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-06-26 06:08:43,045 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.317.01_1S.nc INFO 2025-06-26 06:08:43,070 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:43,072 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.317.01_cal.nc INFO 2025-06-26 06:08:43,180 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:43,181 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.317.01_align.nc INFO 2025-06-26 06:08:43,280 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-06-26 06:08:43,310 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,343 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,351 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,372 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,432 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,441 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,466 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,497 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,560 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004317/2004.317.01 done. INFO 2025-06-26 06:08:43,560 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 06:08:43,560 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2004.317.01/dorado_2004.317.01_processing.log /Volumes/AUVCTD/surveys/2004/netcdf