INFO 2025-11-06 15:27:12,751 logs2netcdfs.py download_process_logs():762 [12050] src_dir = /Volumes/AUVCTD/missionlogs/2004/2004240/2004.240.00 INFO 2025-11-06 15:27:12,752 logs2netcdfs.py download_process_logs():791 [12050] Rsyncing /Volumes/AUVCTD/missionlogs/2004/2004240/2004.240.00 to /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00 INFO 2025-11-06 15:27:26,236 logs2netcdfs.py download_process_logs():802 [12050] Processing mission: dorado 2004.240.00 INFO 2025-11-06 15:27:26,236 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/ctdDriver.log (9203347 bytes) INFO 2025-11-06 15:27:26,781 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/ctdDriver2.log (9195069 bytes) INFO 2025-11-06 15:27:27,387 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/gps.log (67172 bytes) INFO 2025-11-06 15:27:27,434 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/hydroscatlog.log (6275954 bytes) INFO 2025-11-06 15:27:28,009 logs2netcdfs.py _process_log_file():710 [12050] Non-monotonic increasing time indices in /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/hydroscatlog.log: [ 53 16592] INFO 2025-11-06 15:27:28,010 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/navigation.log (20391859 bytes) INFO 2025-11-06 15:27:29,225 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/isuslog.log (507772 bytes) INFO 2025-11-06 15:27:29,337 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/parosci.log (6279062 bytes) INFO 2025-11-06 15:27:29,754 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/tailCone.log (6279403 bytes) INFO 2025-11-06 15:27:30,375 logs2netcdfs.py download_process_logs():811 [12050] Processing file /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionlogs/2004.240.00/biolume.log (7119740 bytes) INFO 2025-11-06 15:27:30,913 logs2netcdfs.py write_variables():577 [12050] Expanding original timeTag to time60Hz variable for raw data INFO 2025-11-06 15:27:31,173 logs2netcdfs.py download_process_logs():830 [12050] Time to process: 4.94 seconds WARNING 2025-11-06 15:27:31,191 process.py download_process():249 [12050] No lopc.bin file for 2004.240.00 INFO 2025-11-06 15:27:31,384 AUV.py nudge_positions():80 [12050] 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 2025-11-06 15:27:31,388 AUV.py nudge_positions():114 [12050] - - - 0 0.00 - - - INFO 2025-11-06 15:27:33,115 AUV.py nudge_positions():203 [12050] 155: 0.160 -0.0000438 0.0000077 15 0.05 -139.023 30.423 2004-08-27T03:34:08.049566976 INFO 2025-11-06 15:27:33,502 AUV.py nudge_positions():203 [12050] 178: 0.160 0.0002247 0.0002695 1975 6.58 5.059 7.589 2004-08-27T03:41:05.051000576 INFO 2025-11-06 15:27:34,340 AUV.py nudge_positions():203 [12050] 260: 0.150 -0.0013732 0.0004307 10185 33.95 -5.994 2.351 2004-08-27T04:16:23.055907200 INFO 2025-11-06 15:27:34,398 AUV.py nudge_positions():203 [12050] 265: 0.150 -0.0014199 0.0004279 35 0.11 -1856.541 699.684 2004-08-27T04:16:34.055153664 INFO 2025-11-06 15:27:34,531 AUV.py nudge_positions():203 [12050] 275: 0.160 -0.0000243 -0.0000017 24 0.08 -46.968 -4.027 2004-08-27T04:16:48.054194688 INFO 2025-11-06 15:27:34,850 AUV.py nudge_positions():203 [12050] 310: 0.160 -0.0010631 0.0004421 10325 34.41 -4.579 2.381 2004-08-27T04:51:47.050403584 INFO 2025-11-06 15:27:34,885 AUV.py nudge_positions():203 [12050] 315: 0.020 -0.0000232 -0.0000192 17 0.05 -64.369 -66.847 2004-08-27T04:51:54.449896832 INFO 2025-11-06 15:27:35,282 AUV.py nudge_positions():203 [12050] 352: 0.020 -0.0013510 0.0003928 10017 33.39 -6.000 2.180 2004-08-27T05:25:53.450215552 INFO 2025-11-06 15:27:35,774 AUV.py nudge_positions():203 [12050] 394: 0.160 -0.0026903 -0.0014110 11195 37.31 -10.696 -7.007 2004-08-27T06:03:53.054052096 INFO 2025-11-06 15:27:36,228 AUV.py nudge_positions():203 [12050] 442: 0.160 -0.0010697 -0.0019424 11102 37.01 -4.289 -9.724 2004-08-27T06:41:41.058683136 INFO 2025-11-06 15:27:36,676 AUV.py nudge_positions():203 [12050] 487: 0.170 -0.0006433 -0.0024997 10670 35.56 -2.685 -13.025 2004-08-27T07:17:59.049480448 INFO 2025-11-06 15:27:37,131 AUV.py nudge_positions():203 [12050] 529: 0.170 -0.0003711 -0.0008749 3305 11.01 -5.003 -14.721 2004-08-27T07:29:41.051390208 INFO 2025-11-06 15:27:37,617 AUV.py nudge_positions():203 [12050] 572: 0.170 0.0037839 -0.0023016 11130 37.10 15.149 -11.497 2004-08-27T08:07:29.056021248 INFO 2025-11-06 15:27:38,370 AUV.py nudge_positions():203 [12050] 624: 0.170 0.0022583 -0.0005061 8864 29.55 11.354 -3.174 2004-08-27T08:37:53.051069056 INFO 2025-11-06 15:27:38,589 AUV.py nudge_positions():203 [12050] 642: 0.170 -0.0001380 0.0000561 25 0.08 -256.269 129.984 2004-08-27T08:38:16.049493376 INFO 2025-11-06 15:27:38,928 AUV.py nudge_positions():203 [12050] 674: 0.030 0.0017508 0.0013450 9512 31.70 8.206 7.861 2004-08-27T09:10:29.457046016 INFO 2025-11-06 15:27:38,940 AUV.py nudge_positions():203 [12050] 675: 0.170 0.0017618 0.0013297 153 0.51 516.743 486.321 2004-08-27T09:11:00.054949760 INFO 2025-11-06 15:27:39,092 AUV.py nudge_positions():203 [12050] 688: 0.170 -0.0000168 0.0000018 55 0.18 -13.834 1.803 2004-08-27T09:11:23.053374336 INFO 2025-11-06 15:27:39,653 AUV.py nudge_positions():203 [12050] 727: 0.170 0.0021538 0.0012738 11240 37.46 8.546 6.300 2004-08-27T09:49:29.056772480 INFO 2025-11-06 15:27:40,417 AUV.py nudge_positions():203 [12050] 780: 0.180 0.0018054 0.0012421 10390 34.63 7.752 6.646 2004-08-27T10:24:59.050857728 INFO 2025-11-06 15:27:41,283 AUV.py nudge_positions():203 [12050] 827: 0.180 0.0003539 0.0001611 2708 9.02 5.833 3.307 2004-08-27T10:34:47.050576896 INFO 2025-11-06 15:27:41,955 AUV.py nudge_positions():203 [12050] 873: 0.180 0.0005074 0.0003769 3375 11.25 6.710 6.210 2004-08-27T10:46:47.051253504 INFO 2025-11-06 15:27:42,427 AUV.py nudge_positions():261 [12050] 900: - - - 5 0.01 - - INFO 2025-11-06 15:27:42,427 AUV.py nudge_positions():267 [12050] Points in final series = 130708 WARNING 2025-11-06 15:27:43,346 AUV.py _create_nudge_plots():376 [12050] No map plot, could not import cartopy WARNING 2025-11-06 15:27:43,409 calibrate.py _depth_process():1925 [12050] Expected sample_rate to be 10 Hz, instead it's 5.00 Hz INFO 2025-11-06 15:27:53,065 calibrate.py _geometric_depth_correction():3155 [12050] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-11-06 15:27:53,631 calibrate.py _geometric_depth_correction():3155 [12050] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-11-06 15:27:54,055 calibrate.py _geometric_depth_correction():3155 [12050] ctd1: d_beg_time_diff: 19 seconds, d_end_time_diff: -1 seconds INFO 2025-11-06 15:27:54,057 calibrate.py _ctd_process():2651 [12050] Performing range checking of ['ctd1_salinity'] in 2004.240.00/ctd1.nc INFO 2025-11-06 15:27:54,058 calibrate.py _range_qc_combined_nc():890 [12050] Setting 57 ctd1_salinity values to NaN INFO 2025-11-06 15:27:54,058 calibrate.py _range_qc_combined_nc():902 [12050] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-11-06 15:27:54,058 calibrate.py _range_qc_combined_nc():928 [12050] Done range checking ctd1 INFO 2025-11-06 15:27:54,594 calibrate.py _geometric_depth_correction():3155 [12050] ctd2: d_beg_time_diff: 43 seconds, d_end_time_diff: 0 seconds INFO 2025-11-06 15:27:55,023 calibrate.py _geometric_depth_correction():3155 [12050] ctd2: d_beg_time_diff: 43 seconds, d_end_time_diff: 0 seconds INFO 2025-11-06 15:27:55,026 calibrate.py _ctd_process():2651 [12050] Performing range checking of ['ctd2_salinity'] in 2004.240.00/ctd2.nc INFO 2025-11-06 15:27:55,027 calibrate.py _range_qc_combined_nc():890 [12050] Setting 0 ctd2_salinity values to NaN INFO 2025-11-06 15:27:55,027 calibrate.py _range_qc_combined_nc():902 [12050] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-11-06 15:27:55,027 calibrate.py _range_qc_combined_nc():928 [12050] Done range checking ctd2 INFO 2025-11-06 15:27:55,051 calibrate.py _biolume_process():2860 [12050] Checking for non-monotonic increasing time60hz INFO 2025-11-06 15:27:55,719 calibrate.py _biolume_process():2863 [12050] Removing non-monotonic increasing time60hz at indices: [ 816660 1361760] INFO 2025-11-06 15:27:55,869 calibrate.py _geometric_depth_correction():3155 [12050] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-11-06 15:27:55,875 calibrate.py process_logs():3280 [12050] 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 2025-11-06 15:27:55,875 calibrate.py process_logs():3274 [12050] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.240.00 ERROR 2025-11-06 15:27:55,876 calibrate.py process_logs():3274 [12050] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2004.240.00 INFO 2025-11-06 15:27:55,942 calibrate.py write_netcdf():3240 [12050] Writing calibrated instrument data to /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_cal.nc INFO 2025-11-06 15:27:55,998 calibrate.py write_netcdf():3244 [12050] 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 2025-11-06 15:27:56,034 align.py process_cal():144 [12050] Processing /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_cal.nc INFO 2025-11-06 15:27:56,062 align.py process_cal():211 [12050] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-11-06 15:27:56,065 align.py process_cal():254 [12050] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-11-06 15:27:56,130 align.py process_cal():211 [12050] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-11-06 15:27:56,133 align.py process_cal():254 [12050] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-11-06 15:27:56,195 align.py process_cal():211 [12050] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-11-06 15:27:56,198 align.py process_cal():254 [12050] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-11-06 15:27:56,232 align.py process_cal():166 [12050] Skipping navigation_posx INFO 2025-11-06 15:27:56,232 align.py process_cal():166 [12050] Skipping navigation_posy INFO 2025-11-06 15:27:56,257 align.py process_cal():211 [12050] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-11-06 15:27:56,260 align.py process_cal():254 [12050] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-11-06 15:27:56,318 align.py process_cal():211 [12050] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-11-06 15:27:56,321 align.py process_cal():254 [12050] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,373 align.py process_cal():211 [12050] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-11-06 15:27:56,376 align.py process_cal():254 [12050] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,430 align.py process_cal():211 [12050] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-11-06 15:27:56,432 align.py process_cal():254 [12050] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,484 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,487 align.py process_cal():254 [12050] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,539 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,542 align.py process_cal():254 [12050] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,594 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,597 align.py process_cal():254 [12050] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,649 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,652 align.py process_cal():254 [12050] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,703 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,706 align.py process_cal():254 [12050] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,758 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,761 align.py process_cal():254 [12050] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,812 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,815 align.py process_cal():254 [12050] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,866 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,869 align.py process_cal():254 [12050] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,919 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,922 align.py process_cal():254 [12050] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:56,973 align.py process_cal():211 [12050] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:56,977 align.py process_cal():254 [12050] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,031 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,034 align.py process_cal():254 [12050] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,088 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,091 align.py process_cal():254 [12050] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,144 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,148 align.py process_cal():254 [12050] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,201 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,204 align.py process_cal():254 [12050] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,258 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,261 align.py process_cal():254 [12050] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,316 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,319 align.py process_cal():254 [12050] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,375 align.py process_cal():211 [12050] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2004.240.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-11-06 15:27:57,378 align.py process_cal():254 [12050] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-11-06 15:27:57,437 align.py process_cal():254 [12050] isus_nitrate: instrument_sample_rate_hz = 0.61 INFO 2025-11-06 15:27:57,475 align.py process_cal():254 [12050] isus_temp: instrument_sample_rate_hz = 0.61 INFO 2025-11-06 15:27:57,513 align.py process_cal():254 [12050] isus_quality: instrument_sample_rate_hz = 0.61 INFO 2025-11-06 15:27:57,553 align.py process_cal():254 [12050] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-11-06 15:27:57,595 align.py process_cal():254 [12050] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-11-06 15:27:57,684 align.py write_netcdf():342 [12050] Writing aligned data to /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_align.nc INFO 2025-11-06 15:27:57,727 align.py write_netcdf():347 [12050] 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 2025-11-06 15:27:57,728 resample.py resample_mission():1185 [12050] Using depth_threshold = 10.00 m INFO 2025-11-06 15:27:57,752 resample.py instruments_variables():235 [12050] Reading variables from /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_align.nc mission netCDF file INFO 2025-11-06 15:27:57,758 resample.py instruments_variables():235 [12050] Reading variables from /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_align.nc mission netCDF file INFO 2025-11-06 15:27:57,760 resample.py get_mission_start_end():1145 [12050] navigation: 2004-08-27T03:31:52.658841856 to 2004-08-27T10:47:35.077963648 (0 days 00:00:00.119991680 before mission_end) INFO 2025-11-06 15:27:57,762 resample.py get_mission_start_end():1145 [12050] hs2 : 2004-08-27T03:31:36.389956480 to 2004-08-27T10:47:34.997969152 (0 days 00:00:00.199986176 before mission_end) INFO 2025-11-06 15:27:57,764 resample.py get_mission_start_end():1145 [12050] ctd1 : 2004-08-27T03:31:51.348931840 to 2004-08-27T10:47:35.017967744 (0 days 00:00:00.179987584 before mission_end) INFO 2025-11-06 15:27:57,765 resample.py get_mission_start_end():1145 [12050] ctd2 : 2004-08-27T03:32:15.287291776 to 2004-08-27T10:47:35.167957248 (0 days 00:00:00.029998080 before mission_end) INFO 2025-11-06 15:27:57,767 resample.py get_mission_start_end():1145 [12050] isus : 2004-08-27T03:32:47.000000000 to 2004-08-27T10:47:31.000000000 (0 days 00:00:04.197955328 before mission_end) INFO 2025-11-06 15:27:57,768 resample.py get_mission_start_end():1145 [12050] biolume : 2004-08-27T03:31:31.160280448 to 2004-08-27T10:47:33.918008832 (0 days 00:00:01.279946496 before mission_end) INFO 2025-11-06 15:27:57,770 resample.py get_mission_start_end():1145 [12050] tailcone : 2004-08-27T03:31:30.440364160 to 2004-08-27T10:47:35.197955328 (0 days 00:00:00 before mission_end) INFO 2025-11-06 15:27:57,771 resample.py instruments_variables():235 [12050] Reading variables from /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_align.nc mission netCDF file INFO 2025-11-06 15:27:57,773 resample.py resample_coordinates():249 [12050] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:57,927 resample.py resample_variable():1031 [12050] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:57,956 resample.py resample_variable():1031 [12050] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:57,982 resample.py resample_variable():1031 [12050] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,009 resample.py resample_variable():1031 [12050] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,033 resample.py resample_variable():1031 [12050] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,057 resample.py resample_variable():1031 [12050] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,080 resample.py resample_variable():1031 [12050] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,103 resample.py resample_variable():1031 [12050] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,126 resample.py resample_variable():1031 [12050] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,148 resample.py resample_variable():1031 [12050] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,169 resample.py resample_variable():1031 [12050] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,190 resample.py resample_variable():1031 [12050] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,212 resample.py resample_variable():1031 [12050] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,234 resample.py resample_variable():1031 [12050] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,255 resample.py resample_variable():1031 [12050] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,277 resample.py resample_variable():1031 [12050] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,300 resample.py resample_variable():1031 [12050] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,322 resample.py resample_variable():1031 [12050] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,344 resample.py resample_variable():1031 [12050] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,366 resample.py resample_variable():1031 [12050] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,388 resample.py resample_variable():1031 [12050] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,409 resample.py resample_variable():1031 [12050] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,420 resample.py resample_variable():1031 [12050] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,428 resample.py resample_variable():1031 [12050] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,435 resample.py resample_variable():1031 [12050] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,444 resample.py resample_variable():1031 [12050] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,467 resample.py resample_variable():1031 [12050] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-11-06 15:27:58,650 resample.py resample_mission():1297 [12050] Saved resampled mission to /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_1S.nc INFO 2025-11-06 15:28:01,261 create_products.py gulper_odv():401 [12050] No gulper times found for 2004.240.00 INFO 2025-11-06 15:28:01,267 archive.py copy_to_AUVTCD():62 [12050] Archiving /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00 files to /Volumes/AUVCTD/surveys/2004/netcdf INFO 2025-11-06 15:28:01,297 archive.py copy_to_AUVTCD():80 [12050] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.240.00_1S.nc INFO 2025-11-06 15:28:01,438 archive.py copy_to_AUVTCD():84 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_1S.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-11-06 15:28:01,818 archive.py copy_to_AUVTCD():80 [12050] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.240.00_cal.nc INFO 2025-11-06 15:28:02,224 archive.py copy_to_AUVTCD():84 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_cal.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-11-06 15:28:02,226 archive.py copy_to_AUVTCD():80 [12050] Removing /Volumes/AUVCTD/surveys/2004/netcdf/dorado_2004.240.00_align.nc INFO 2025-11-06 15:28:02,674 archive.py copy_to_AUVTCD():84 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_align.nc /Volumes/AUVCTD/surveys/2004/netcdf done. INFO 2025-11-06 15:28:03,004 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,166 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,184 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,259 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,461 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,484 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,558 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,646 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,894 archive.py copy_to_AUVTCD():110 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2004/2004240/2004.240.00 done. INFO 2025-11-06 15:28:03,894 archive.py copy_to_AUVTCD():118 [12050] Archiving product files INFO 2025-11-06 15:28:03,894 archive.py copy_to_AUVTCD():163 [12050] copyfile /Users/mccann/GitHub/auv-python/data/auv_data/dorado/missionnetcdfs/2004.240.00/dorado_2004.240.00_processing.log /Volumes/AUVCTD/surveys/2004/netcdf