INFO 2025-06-26 11:02:13,967 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 11:02:13,967 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Portaled by DMO 10/28/05 - ctdToUse = ctd1 INFO 2025-06-26 11:02:13,967 process.py process_mission():449 [1] Processing BIOLUME mission 2005.308.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:02:13,967 process.py download_process():165 [1] Download and processing steps for 2005.308.00 INFO 2025-06-26 11:02:13,968 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005308/2005.308.00 INFO 2025-06-26 11:02:13,968 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005308/2005.308.00 to /data/auv_data/dorado/missionlogs/2005.308.00 INFO 2025-06-26 11:02:16,881 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.308.00 INFO 2025-06-26 11:02:16,882 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/ctdDriver.log (6860435 bytes) INFO 2025-06-26 11:02:17,393 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/ctdDriver2.log (6860429 bytes) INFO 2025-06-26 11:02:17,895 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/gps.log (57524 bytes) INFO 2025-06-26 11:02:17,910 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/hydroscatlog.log (4680794 bytes) INFO 2025-06-26 11:02:18,464 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/navigation.log (23003990 bytes) INFO 2025-06-26 11:02:20,130 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/isuslog.log (393973 bytes) INFO 2025-06-26 11:02:20,173 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/parosci.log (10019366 bytes) INFO 2025-06-26 11:02:20,996 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.308.00/parosci.log: [208727] INFO 2025-06-26 11:02:21,024 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/tailCone.log (4683691 bytes) INFO 2025-06-26 11:02:21,593 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.308.00/biolume.log (5311484 bytes) INFO 2025-06-26 11:02:22,106 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:02:22,377 logs2netcdfs.py download_process_logs():807 [1] Time to process: 5.50 seconds WARNING 2025-06-26 11:02:22,378 process.py download_process():196 [1] No lopc.bin file for 2005.308.00 INFO 2025-06-26 11:02:22,378 process.py calibrate():227 [1] Calibration steps for 2005.308.00 INFO 2025-06-26 11:02:22,548 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 11:02:22,550 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:02:24,111 calibrate.py _nudge_pos():1806 [1] 180: 0.040 -0.0004539 0.0002392 1315 4.38 -15.351 10.121 2005-11-04T01:32:00.901269376 INFO 2025-06-26 11:02:24,188 calibrate.py _nudge_pos():1806 [1] 188: 0.030 0.0000260 0.0000108 30 0.10 39.775 20.622 2005-11-04T01:32:13.900378880 INFO 2025-06-26 11:02:25,029 calibrate.py _nudge_pos():1806 [1] 276: 0.030 -0.0034370 0.0016714 10270 34.23 -14.878 9.048 2005-11-04T02:07:54.903710080 INFO 2025-06-26 11:02:25,671 calibrate.py _nudge_pos():1806 [1] 344: 0.030 -0.0037476 0.0015780 11155 37.18 -14.941 7.864 2005-11-04T02:46:12.906286208 INFO 2025-06-26 11:02:26,381 calibrate.py _nudge_pos():1806 [1] 418: 0.050 -0.0041594 0.0014036 11035 36.78 -16.769 7.072 2005-11-04T03:24:12.900096000 INFO 2025-06-26 11:02:27,108 calibrate.py _nudge_pos():1806 [1] 494: 0.040 -0.0060212 0.0004007 11625 38.75 -23.052 1.916 2005-11-04T04:04:12.905684224 INFO 2025-06-26 11:02:27,636 calibrate.py _nudge_pos():1806 [1] 549: 0.050 -0.0060237 -0.0000356 10860 36.20 -24.695 -0.182 2005-11-04T04:41:18.903192960 INFO 2025-06-26 11:02:28,124 calibrate.py _nudge_pos():1806 [1] 599: 0.050 -0.0051280 -0.0001021 10765 35.88 -21.216 -0.528 2005-11-04T05:18:00.902345600 INFO 2025-06-26 11:02:28,586 calibrate.py _nudge_pos():1806 [1] 647: 0.050 -0.0015888 -0.0001708 4505 15.01 -15.712 -2.109 2005-11-04T05:33:48.907403008 INFO 2025-06-26 11:02:29,169 calibrate.py _nudge_pos():1806 [1] 707: 0.040 0.0003176 -0.0015010 11380 37.93 1.243 -7.333 2005-11-04T06:12:43.907444480 INFO 2025-06-26 11:02:29,724 calibrate.py _nudge_pos():1806 [1] 764: 0.050 -0.0001581 -0.0010039 10755 35.85 -0.655 -5.189 2005-11-04T06:49:30.906254720 INFO 2025-06-26 11:02:29,942 calibrate.py _nudge_pos():1862 [1] 766: - - - 4 0.01 - - INFO 2025-06-26 11:02:29,942 calibrate.py _nudge_pos():1868 [1] Points in final series = 97466 WARNING 2025-06-26 11:02:33,311 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:02:34,097 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:34,855 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:35,466 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:35,469 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.308.00/ctd1.nc INFO 2025-06-26 11:02:35,470 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 11:02:35,470 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:02:35,470 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:02:36,168 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:36,750 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:02:36,752 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.308.00/ctd2.nc INFO 2025-06-26 11:02:36,754 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 11:02:36,754 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:02:36,754 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:02:36,784 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:02:37,687 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 150780 151200 379980 646260] INFO 2025-06-26 11:02:37,862 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:02:37,868 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 11:02:37,868 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.308.00 ERROR 2025-06-26 11:02:37,868 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.308.00 INFO 2025-06-26 11:02:37,944 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_cal.nc INFO 2025-06-26 11:02:38,042 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 11:02:38,047 process.py align():251 [1] Alignment steps for 2005.308.00 INFO 2025-06-26 11:02:38,075 align.py process_cal():139 [1] Processing dorado_2005.308.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.308.00 INFO 2025-06-26 11:02:38,104 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:38,107 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:38,178 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:38,183 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:38,253 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:38,258 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:38,300 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:02:38,300 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:02:38,328 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:02:38,333 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:38,400 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:38,404 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,466 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:38,470 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,532 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:02:38,536 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,598 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,602 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,664 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,668 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,727 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,731 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,793 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,797 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,859 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,863 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,923 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,927 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:38,987 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:38,992 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,055 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,059 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,120 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,124 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,185 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,189 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,251 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,255 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,318 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,322 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,383 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,388 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,449 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,453 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,517 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,522 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,585 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,589 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,650 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.308.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:02:39,654 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:02:39,731 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:39,785 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:39,840 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.63 INFO 2025-06-26 11:02:39,896 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:02:39,956 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:02:40,006 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_align.nc INFO 2025-06-26 11:02:40,091 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 11:02:40,093 process.py resample():273 [1] Resampling steps for 2005.308.00 INFO 2025-06-26 11:02:40,094 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:02:40,121 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_align.nc mission netCDF file INFO 2025-06-26 11:02:40,127 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_align.nc mission netCDF file INFO 2025-06-26 11:02:40,129 resample.py get_mission_start_end():1145 [1] navigation: 2005-11-04T01:25:00.720053888 to 2005-11-04T06:49:53.704692864 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:02:40,131 resample.py get_mission_start_end():1145 [1] hs2 : 2005-11-04T01:24:44.621156736 to 2005-11-04T06:49:53.644696960 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 11:02:40,132 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-11-04T01:25:06.349668224 to 2005-11-04T06:49:53.604699904 (0 days 00:00:00.099992960 before mission_end) INFO 2025-06-26 11:02:40,134 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-11-04T01:25:06.359667584 to 2005-11-04T06:49:53.624698368 (0 days 00:00:00.079994496 before mission_end) INFO 2025-06-26 11:02:40,136 resample.py get_mission_start_end():1145 [1] isus : 2005-11-04T01:26:06.255564160 to 2005-11-04T06:49:52.844751872 (0 days 00:00:00.859940992 before mission_end) INFO 2025-06-26 11:02:40,137 resample.py get_mission_start_end():1145 [1] biolume : 2005-11-04T01:24:38.761523712 to 2005-11-04T06:49:52.664729856 (0 days 00:00:01.039963008 before mission_end) INFO 2025-06-26 11:02:40,139 resample.py get_mission_start_end():1145 [1] tailcone : 2005-11-04T01:24:39.181529344 to 2005-11-04T06:49:53.674695040 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 11:02:40,140 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_align.nc mission netCDF file INFO 2025-06-26 11:02:40,140 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,365 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,404 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,442 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,480 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,516 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,549 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,583 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,617 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,647 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,676 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,706 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,736 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,767 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,796 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,826 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,856 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,888 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,921 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,953 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:40,984 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,023 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,056 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,072 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,086 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,099 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,114 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,150 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:02:41,371 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_1S.nc INFO 2025-06-26 11:02:42,719 create_products.py gulper_odv():401 [1] No gulper times found for 2005.308.00 INFO 2025-06-26 11:02:42,719 process.py archive():337 [1] Archiving steps for 2005.308.00 INFO 2025-06-26 11:02:42,719 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00, BASE_PATH = /data/auv_data INFO 2025-06-26 11:02:42,719 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 11:02:42,721 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.00_1S.nc INFO 2025-06-26 11:02:42,740 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:42,741 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.00_cal.nc INFO 2025-06-26 11:02:42,832 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:42,833 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.308.00_align.nc INFO 2025-06-26 11:02:42,913 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 11:02:42,938 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:42,960 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:42,965 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:42,983 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,054 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,060 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,091 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,111 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,168 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005308/2005.308.00 done. INFO 2025-06-26 11:02:43,168 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:02:43,168 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.308.00/dorado_2005.308.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf