INFO 2025-06-26 10:35:19,289 process.py process_mission():429 [1] commandline = src/data/process_dorado.py --start_year 2005 --end_year 2014 --num_cores 1 -v --noinput --clobber INFO 2025-06-26 10:35:19,289 process.py process_mission():434 [1] dorado_info[mission]["comment"] = ctdToUse = ctd1 INFO 2025-06-26 10:35:19,289 process.py process_mission():449 [1] Processing AUVCTD mission 2005.122.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 10:35:19,289 process.py download_process():165 [1] Download and processing steps for 2005.122.00 INFO 2025-06-26 10:35:19,289 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2005/2005122/2005.122.00 INFO 2025-06-26 10:35:19,290 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2005/2005122/2005.122.00 to /data/auv_data/dorado/missionlogs/2005.122.00 INFO 2025-06-26 10:35:20,993 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2005.122.00 INFO 2025-06-26 10:35:20,994 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/ctdDriver.log (8611547 bytes) INFO 2025-06-26 10:35:21,656 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/ctdDriver2.log (8611365 bytes) INFO 2025-06-26 10:35:22,302 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/gps.log (65228 bytes) INFO 2025-06-26 10:35:22,318 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/hydroscatlog.log (5875574 bytes) INFO 2025-06-26 10:35:23,032 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/navigation.log (28876378 bytes) INFO 2025-06-26 10:35:25,136 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/isuslog.log (488533 bytes) INFO 2025-06-26 10:35:25,186 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/parosci.log (12574838 bytes) INFO 2025-06-26 10:35:26,211 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2005.122.00/parosci.log: [128592 128593 128595 128596 128597 128598 172283 172285 172286 172288] INFO 2025-06-26 10:35:26,245 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/tailCone.log (5878219 bytes) INFO 2025-06-26 10:35:26,969 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2005.122.00/biolume.log (6665772 bytes) INFO 2025-06-26 10:35:27,632 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 10:35:27,965 logs2netcdfs.py download_process_logs():807 [1] Time to process: 6.97 seconds WARNING 2025-06-26 10:35:27,966 process.py download_process():196 [1] No lopc.bin file for 2005.122.00 INFO 2025-06-26 10:35:27,966 process.py calibrate():227 [1] Calibration steps for 2005.122.00 INFO 2025-06-26 10:35:28,167 calibrate.py _nudge_pos():1680 [1] seg# end_sec_diff end_lon_diff end_lat_diff len(segi) seg_min u_drift (cm/s) v_drift (cm/s) start datetime of segment INFO 2025-06-26 10:35:28,169 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 10:35:29,763 calibrate.py _nudge_pos():1806 [1] 181: 0.170 0.0000174 -0.0000152 2775 9.25 0.278 -0.304 2005-05-02T15:31:36.933057024 INFO 2025-06-26 10:35:30,754 calibrate.py _nudge_pos():1806 [1] 285: 0.170 -0.0008256 0.0002622 10465 34.88 -3.507 1.393 2005-05-02T16:08:12.932620800 INFO 2025-06-26 10:35:31,385 calibrate.py _nudge_pos():1806 [1] 351: 0.170 -0.0007819 0.0003053 10895 36.31 -3.192 1.558 2005-05-02T16:45:36.938895744 INFO 2025-06-26 10:35:32,040 calibrate.py _nudge_pos():1806 [1] 419: 0.180 -0.0008488 0.0002240 11064 36.88 -3.413 1.125 2005-05-02T17:23:36.932705408 INFO 2025-06-26 10:35:32,562 calibrate.py _nudge_pos():1806 [1] 473: 0.170 -0.0009625 0.0001624 11584 38.61 -3.698 0.779 2005-05-02T18:03:06.940348800 INFO 2025-06-26 10:35:33,129 calibrate.py _nudge_pos():1806 [1] 531: 0.170 -0.0008634 0.0002492 11445 38.15 -3.359 1.211 2005-05-02T18:42:12.939636992 INFO 2025-06-26 10:35:33,730 calibrate.py _nudge_pos():1806 [1] 591: 0.180 -0.0021650 0.0004799 11735 39.11 -8.217 2.274 2005-05-02T19:22:18.934814976 INFO 2025-06-26 10:35:34,282 calibrate.py _nudge_pos():1806 [1] 647: 0.170 -0.0006836 0.0002186 5395 17.98 -5.644 2.253 2005-05-02T19:41:12.937130496 INFO 2025-06-26 10:35:34,827 calibrate.py _nudge_pos():1806 [1] 702: 0.170 0.0008243 -0.0002401 10613 35.40 3.458 -1.257 2005-05-02T20:17:30.937927296 INFO 2025-06-26 10:35:35,394 calibrate.py _nudge_pos():1806 [1] 759: 0.170 0.0006304 -0.0006203 10430 34.76 2.694 -3.306 2005-05-02T20:53:12.941189760 INFO 2025-06-26 10:35:36,044 calibrate.py _nudge_pos():1806 [1] 824: 0.180 0.0002667 0.0002319 10990 36.63 1.082 1.173 2005-05-02T21:30:54.936232576 INFO 2025-06-26 10:35:36,570 calibrate.py _nudge_pos():1806 [1] 877: 0.170 0.0003292 0.0002648 10657 35.53 1.377 1.381 2005-05-02T22:07:18.936618368 INFO 2025-06-26 10:35:36,737 calibrate.py _nudge_pos():1862 [1] 873: - - - 3 0.01 - - INFO 2025-06-26 10:35:36,738 calibrate.py _nudge_pos():1868 [1] Points in final series = 122347 WARNING 2025-06-26 10:35:40,973 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 10:35:41,883 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:35:42,863 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:35:43,600 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:35:43,603 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2005.122.00/ctd1.nc INFO 2025-06-26 10:35:43,604 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 10:35:43,604 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:35:43,605 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 10:35:44,512 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:35:45,257 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 10:35:45,259 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2005.122.00/ctd2.nc INFO 2025-06-26 10:35:45,261 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 10:35:45,261 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 10:35:45,261 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 10:35:45,297 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 10:35:46,575 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 177300 350820 684900 1073580 1134300] INFO 2025-06-26 10:35:46,821 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 10:35:46,827 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 10:35:46,827 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.122.00 ERROR 2025-06-26 10:35:46,828 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2005.122.00 INFO 2025-06-26 10:35:46,924 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_cal.nc INFO 2025-06-26 10:35:47,035 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 10:35:47,039 process.py align():251 [1] Alignment steps for 2005.122.00 INFO 2025-06-26 10:35:47,070 align.py process_cal():139 [1] Processing dorado_2005.122.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2005.122.00 INFO 2025-06-26 10:35:47,106 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:35:47,110 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:35:47,217 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:35:47,223 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:35:47,309 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:35:47,314 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:35:47,365 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 10:35:47,365 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 10:35:47,399 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 10:35:47,404 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:35:47,488 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:35:47,492 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,565 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:35:47,570 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,642 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 10:35:47,646 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,720 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:47,725 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,799 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:47,803 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,876 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:47,881 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:47,955 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:47,959 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,034 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,039 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,114 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,119 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,193 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,197 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,272 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,277 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,351 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,356 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,429 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,433 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,507 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,512 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,585 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,590 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,663 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,669 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,743 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,748 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,822 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,827 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,905 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,910 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:48,991 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2005.122.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 10:35:48,996 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 10:35:49,090 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:35:49,153 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:35:49,218 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.62 INFO 2025-06-26 10:35:49,284 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 10:35:49,354 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 10:35:49,412 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_align.nc INFO 2025-06-26 10:35:49,498 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 10:35:49,501 process.py resample():273 [1] Resampling steps for 2005.122.00 INFO 2025-06-26 10:35:49,501 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 10:35:49,528 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_align.nc mission netCDF file INFO 2025-06-26 10:35:49,534 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_align.nc mission netCDF file INFO 2025-06-26 10:35:49,536 resample.py get_mission_start_end():1145 [1] navigation: 2005-05-02T15:19:43.351940608 to 2005-05-02T22:07:35.535481216 (0 days 00:00:00 before mission_end) INFO 2025-06-26 10:35:49,537 resample.py get_mission_start_end():1145 [1] hs2 : 2005-05-02T15:19:27.313039360 to 2005-05-02T22:07:35.395490944 (0 days 00:00:00.139990272 before mission_end) INFO 2025-06-26 10:35:49,539 resample.py get_mission_start_end():1145 [1] ctd1 : 2005-05-02T15:19:49.501519488 to 2005-05-02T22:07:35.395490944 (0 days 00:00:00.139990272 before mission_end) INFO 2025-06-26 10:35:49,541 resample.py get_mission_start_end():1145 [1] ctd2 : 2005-05-02T15:19:49.761501568 to 2005-05-02T22:07:35.405490176 (0 days 00:00:00.129991040 before mission_end) INFO 2025-06-26 10:35:49,542 resample.py get_mission_start_end():1145 [1] isus : 2005-05-02T15:20:38.508162304 to 2005-05-02T22:07:34.275567488 (0 days 00:00:01.259913728 before mission_end) INFO 2025-06-26 10:35:49,544 resample.py get_mission_start_end():1145 [1] biolume : 2005-05-02T15:19:22.063364736 to 2005-05-02T22:07:34.435522304 (0 days 00:00:01.099958912 before mission_end) INFO 2025-06-26 10:35:49,546 resample.py get_mission_start_end():1145 [1] tailcone : 2005-05-02T15:19:22.263385344 to 2005-05-02T22:07:35.435488000 (0 days 00:00:00.099993216 before mission_end) INFO 2025-06-26 10:35:49,546 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_align.nc mission netCDF file INFO 2025-06-26 10:35:49,547 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:49,812 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:49,857 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:49,901 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:49,946 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:49,985 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,026 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,072 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,109 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,144 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,178 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,212 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,247 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,281 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,316 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,350 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,384 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,421 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,459 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,497 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,534 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,570 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,607 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,624 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,639 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,653 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,670 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,711 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 10:35:50,943 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_1S.nc INFO 2025-06-26 10:35:52,224 create_products.py gulper_odv():401 [1] No gulper times found for 2005.122.00 INFO 2025-06-26 10:35:52,224 process.py archive():337 [1] Archiving steps for 2005.122.00 INFO 2025-06-26 10:35:52,224 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00, BASE_PATH = /data/auv_data INFO 2025-06-26 10:35:52,225 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00 files to /Volumes/AUVCTD/surveys/2005/netcdf INFO 2025-06-26 10:35:52,226 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.122.00_1S.nc INFO 2025-06-26 10:35:52,248 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_1S.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:35:52,248 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.122.00_cal.nc INFO 2025-06-26 10:35:52,364 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_cal.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:35:52,365 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2005/netcdf/dorado_2005.122.00_align.nc INFO 2025-06-26 10:35:52,470 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_align.nc /Volumes/AUVCTD/surveys/2005/netcdf done. INFO 2025-06-26 10:35:52,500 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,528 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,532 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,553 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,639 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,645 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,681 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,705 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,775 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2005/2005122/2005.122.00 done. INFO 2025-06-26 10:35:52,776 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 10:35:52,776 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2005.122.00/dorado_2005.122.00_processing.log /Volumes/AUVCTD/surveys/2005/netcdf