INFO 2025-06-26 11:10:30,340 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 11:10:30,341 process.py process_mission():434 [1] dorado_info[mission]["comment"] = Second unattended mission done- this one to M2! Outbound at depth, return yo-yo. - ctdToUse = ctd1 INFO 2025-06-26 11:10:30,341 process.py process_mission():449 [1] Processing AUVCTD mission 2006.073.01 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:10:30,341 process.py download_process():165 [1] Download and processing steps for 2006.073.01 INFO 2025-06-26 11:10:30,341 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006073/2006.073.01 INFO 2025-06-26 11:10:30,341 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006073/2006.073.01 to /data/auv_data/dorado/missionlogs/2006.073.01 INFO 2025-06-26 11:10:37,230 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.073.01 INFO 2025-06-26 11:10:37,230 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/ctdDriver.log (24160355 bytes) INFO 2025-06-26 11:10:38,982 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/ctdDriver2.log (24160261 bytes) INFO 2025-06-26 11:10:40,771 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/gps.log (232700 bytes) INFO 2025-06-26 11:10:40,803 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/hydroscatlog.log (16470194 bytes) INFO 2025-06-26 11:10:42,681 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.073.01/hydroscatlog.log: [23784] INFO 2025-06-26 11:10:42,726 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/navigation.log (80994382 bytes) INFO 2025-06-26 11:10:48,357 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/isuslog.log (1485269 bytes) INFO 2025-06-26 11:10:48,502 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/parosci.log (35278694 bytes) INFO 2025-06-26 11:10:51,336 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.073.01/parosci.log: [359355 359356 728379 728380 728382 728384 728385] INFO 2025-06-26 11:10:51,418 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/tailCone.log (16478299 bytes) INFO 2025-06-26 11:10:53,455 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.073.01/biolume.log (18680556 bytes) INFO 2025-06-26 11:10:55,305 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:10:56,223 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.99 seconds WARNING 2025-06-26 11:10:56,223 process.py download_process():196 [1] No lopc.bin file for 2006.073.01 INFO 2025-06-26 11:10:56,223 process.py calibrate():227 [1] Calibration steps for 2006.073.01 INFO 2025-06-26 11:10:56,735 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 11:10:56,737 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:10:57,520 calibrate.py _nudge_pos():1806 [1] 92: 0.120 -0.0021228 0.0017387 5945 19.81 -15.903 16.261 2006-03-14T20:35:23.939398272 INFO 2025-06-26 11:10:58,293 calibrate.py _nudge_pos():1806 [1] 168: 0.120 -0.0034123 0.0050787 10635 35.45 -14.289 26.549 2006-03-14T21:12:05.938550912 INFO 2025-06-26 11:10:59,127 calibrate.py _nudge_pos():1806 [1] 244: 0.120 -0.0032359 0.0056095 10425 34.75 -13.825 29.915 2006-03-14T21:48:05.940580864 INFO 2025-06-26 11:10:59,834 calibrate.py _nudge_pos():1806 [1] 312: 0.130 -0.0028751 0.0045163 10225 34.08 -12.525 24.556 2006-03-14T22:23:17.935899264 INFO 2025-06-26 11:11:00,422 calibrate.py _nudge_pos():1806 [1] 368: 0.120 0.0000153 0.0000226 35 0.11 20.021 36.985 2006-03-14T22:24:19.941651584 INFO 2025-06-26 11:11:00,504 calibrate.py _nudge_pos():1806 [1] 376: 0.120 -0.0033470 0.0035856 10275 34.25 -14.511 19.401 2006-03-14T22:58:41.940394880 INFO 2025-06-26 11:11:01,215 calibrate.py _nudge_pos():1806 [1] 444: 0.130 -0.0036377 0.0026333 9895 32.98 -16.379 14.795 2006-03-14T23:32:47.940234368 INFO 2025-06-26 11:11:01,692 calibrate.py _nudge_pos():1806 [1] 490: 0.130 -0.0000377 -0.0000115 15 0.05 -119.864 -45.609 2006-03-14T23:33:35.936946432 INFO 2025-06-26 11:11:01,845 calibrate.py _nudge_pos():1806 [1] 505: 0.130 -0.0040329 0.0022065 9680 32.26 -18.563 12.672 2006-03-15T00:06:05.943361792 INFO 2025-06-26 11:11:01,877 calibrate.py _nudge_pos():1806 [1] 508: 0.120 -0.0000991 0.0000330 30 0.10 -152.251 63.299 2006-03-15T00:06:13.942813696 INFO 2025-06-26 11:11:02,303 calibrate.py _nudge_pos():1806 [1] 549: 0.130 -0.0000142 -0.0000085 15 0.05 -45.275 -33.650 2006-03-15T00:06:56.939868160 INFO 2025-06-26 11:11:02,458 calibrate.py _nudge_pos():1806 [1] 564: 0.140 -0.0063640 0.0011842 9695 32.31 -29.251 6.791 2006-03-15T00:39:29.936078848 INFO 2025-06-26 11:11:02,977 calibrate.py _nudge_pos():1806 [1] 614: 0.130 0.0000308 -0.0000600 15 0.05 97.979 -238.280 2006-03-15T00:40:21.942516096 INFO 2025-06-26 11:11:03,131 calibrate.py _nudge_pos():1806 [1] 628: 0.130 -0.0000190 0.0000084 25 0.08 -35.234 19.516 2006-03-15T00:40:39.941283200 INFO 2025-06-26 11:11:03,153 calibrate.py _nudge_pos():1806 [1] 630: 0.140 -0.0078773 0.0020733 13325 44.41 -26.344 8.650 2006-03-15T01:25:05.938649856 INFO 2025-06-26 11:11:03,521 calibrate.py _nudge_pos():1806 [1] 665: 0.140 -0.0000522 -0.0000253 75 0.25 -31.397 -18.970 2006-03-15T01:25:54.945292672 INFO 2025-06-26 11:11:03,563 calibrate.py _nudge_pos():1806 [1] 669: 0.130 -0.0081479 0.0044435 13390 44.63 -27.118 18.449 2006-03-15T02:10:35.941631744 INFO 2025-06-26 11:11:04,236 calibrate.py _nudge_pos():1806 [1] 733: 0.150 -0.0000245 0.0000191 20 0.06 -57.481 55.846 2006-03-15T02:11:42.937042176 INFO 2025-06-26 11:11:04,362 calibrate.py _nudge_pos():1806 [1] 745: 0.140 -0.0076716 0.0080289 13350 44.50 -25.610 33.435 2006-03-15T02:56:23.943380864 INFO 2025-06-26 11:11:04,667 calibrate.py _nudge_pos():1806 [1] 774: 0.150 -0.0000236 0.0000136 65 0.21 -16.399 11.771 2006-03-15T02:57:04.940572288 INFO 2025-06-26 11:11:04,839 calibrate.py _nudge_pos():1806 [1] 790: 0.140 -0.0000326 0.0000238 15 0.05 -103.742 94.628 2006-03-15T02:57:23.939270784 INFO 2025-06-26 11:11:05,082 calibrate.py _nudge_pos():1806 [1] 813: 0.150 -0.0085485 0.0093730 11975 39.91 -31.818 43.514 2006-03-15T03:37:41.943626112 INFO 2025-06-26 11:11:05,515 calibrate.py _nudge_pos():1806 [1] 854: 0.140 -0.0000050 0.0001187 40 0.13 -5.683 169.143 2006-03-15T03:38:30.940269696 INFO 2025-06-26 11:11:05,756 calibrate.py _nudge_pos():1806 [1] 877: 0.140 -0.0014416 0.0022662 5450 18.16 -11.792 23.120 2006-03-15T03:57:02.944092032 INFO 2025-06-26 11:11:06,360 calibrate.py _nudge_pos():1806 [1] 934: 0.160 0.0026074 0.0030286 16265 54.21 7.145 10.352 2006-03-15T04:52:11.937410560 INFO 2025-06-26 11:11:07,102 calibrate.py _nudge_pos():1806 [1] 1004: 0.150 0.0011839 0.0028250 15604 52.01 3.381 10.064 2006-03-15T05:45:23.938743552 INFO 2025-06-26 11:11:07,125 calibrate.py _nudge_pos():1806 [1] 1006: 0.170 -0.0000238 0.0000408 15 0.05 -75.628 161.845 2006-03-15T05:45:27.938469376 INFO 2025-06-26 11:11:07,576 calibrate.py _nudge_pos():1806 [1] 1048: 0.150 0.0000229 -0.0000259 55 0.18 18.906 -26.614 2006-03-15T05:46:19.944906752 INFO 2025-06-26 11:11:07,715 calibrate.py _nudge_pos():1806 [1] 1061: 0.160 0.0006565 0.0028956 15680 52.26 1.866 10.267 2006-03-15T06:38:47.939254528 INFO 2025-06-26 11:11:08,278 calibrate.py _nudge_pos():1806 [1] 1111: 0.170 -0.0000153 -0.0000234 20 0.06 -35.903 -68.538 2006-03-15T06:39:40.935623936 INFO 2025-06-26 11:11:08,343 calibrate.py _nudge_pos():1806 [1] 1117: 0.160 0.0016275 0.0026586 15998 53.33 4.533 9.238 2006-03-15T07:33:05.936066432 INFO 2025-06-26 11:11:08,412 calibrate.py _nudge_pos():1806 [1] 1123: 0.160 0.0000193 -0.0000025 25 0.08 35.730 -5.859 2006-03-15T07:33:15.945380736 INFO 2025-06-26 11:11:08,955 calibrate.py _nudge_pos():1806 [1] 1171: 0.160 0.0028663 0.0008284 14745 49.15 8.662 3.123 2006-03-15T08:23:11.940140928 INFO 2025-06-26 11:11:09,585 calibrate.py _nudge_pos():1806 [1] 1227: 0.170 0.0020388 0.0021969 10885 36.28 8.345 11.221 2006-03-15T09:00:23.937238656 INFO 2025-06-26 11:11:10,210 calibrate.py _nudge_pos():1806 [1] 1284: 0.170 0.0029239 0.0020949 11420 38.06 11.407 10.198 2006-03-15T09:39:23.936937856 INFO 2025-06-26 11:11:10,626 calibrate.py _nudge_pos():1806 [1] 1322: 0.170 0.0035269 0.0026824 11455 38.18 13.716 13.019 2006-03-15T10:18:11.937458816 INFO 2025-06-26 11:11:11,184 calibrate.py _nudge_pos():1806 [1] 1373: 0.160 0.0035537 0.0034736 11235 37.45 14.089 17.189 2006-03-15T10:56:29.940034816 INFO 2025-06-26 11:11:11,781 calibrate.py _nudge_pos():1806 [1] 1427: 0.170 0.0000076 -0.0000063 15 0.05 24.306 -24.934 2006-03-15T10:57:25.936198656 INFO 2025-06-26 11:11:11,861 calibrate.py _nudge_pos():1806 [1] 1434: 0.170 0.0000128 -0.0000482 25 0.08 23.711 -111.504 2006-03-15T10:57:36.945444608 INFO 2025-06-26 11:11:11,897 calibrate.py _nudge_pos():1806 [1] 1437: 0.170 0.0044812 0.0039294 11085 36.95 18.006 19.707 2006-03-15T11:34:35.943432832 INFO 2025-06-26 11:11:12,552 calibrate.py _nudge_pos():1806 [1] 1495: 0.160 0.0030941 0.0040742 10575 35.25 13.031 21.419 2006-03-15T12:10:47.944640640 INFO 2025-06-26 11:11:13,142 calibrate.py _nudge_pos():1806 [1] 1549: 0.170 0.0040730 0.0054890 13175 43.91 13.766 23.162 2006-03-15T12:55:35.940500224 INFO 2025-06-26 11:11:13,697 calibrate.py _nudge_pos():1806 [1] 1600: 0.160 0.0017884 0.0011461 4580 15.26 17.391 13.914 2006-03-15T13:11:41.944324480 INFO 2025-06-26 11:11:14,295 calibrate.py _nudge_pos():1806 [1] 1654: 0.170 0.0024308 0.0048723 11555 38.51 9.367 23.442 2006-03-15T13:51:05.942379520 INFO 2025-06-26 11:11:15,039 calibrate.py _nudge_pos():1806 [1] 1721: 0.160 0.0009855 0.0021900 7710 25.70 5.691 15.792 2006-03-15T14:17:53.942224000 INFO 2025-06-26 11:11:15,746 calibrate.py _nudge_pos():1806 [1] 1785: 0.170 0.0001633 0.0018490 10665 35.55 0.682 9.639 2006-03-15T14:54:29.941787776 INFO 2025-06-26 11:11:31,861 calibrate.py _nudge_pos():1862 [1] 3198: - - - 2 0.00 - - INFO 2025-06-26 11:11:31,861 calibrate.py _nudge_pos():1868 [1] Points in final series = 343187 WARNING 2025-06-26 11:11:43,818 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:12:20,257 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:12:23,045 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:12:25,189 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:12:25,194 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.073.01/ctd1.nc INFO 2025-06-26 11:12:25,195 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd1_salinity values to NaN INFO 2025-06-26 11:12:25,196 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 11:12:25,196 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:12:27,770 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:12:29,925 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:12:29,930 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.073.01/ctd2.nc INFO 2025-06-26 11:12:29,931 calibrate.py _range_qc_combined_nc():898 [1] Setting 1 ctd2_salinity values to NaN INFO 2025-06-26 11:12:29,932 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 11:12:29,932 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:12:30,034 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:12:33,275 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 34260 142800 147240 470040 601740 699720 710340 713640 715560 716100 717840 807600 824940 826320 830220 924960 939000 940380 1053840 1167720 1279800 1280340 1280700 1280880 1377420 1394760 1655640 1849260 1849860 1964640 2410440 2411220 2414040 2960520 3071700 3181860 3857220] INFO 2025-06-26 11:12:33,906 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:12:33,913 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 11:12:33,914 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.073.01 ERROR 2025-06-26 11:12:33,914 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.073.01 INFO 2025-06-26 11:12:34,174 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_cal.nc INFO 2025-06-26 11:12:34,385 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 11:12:34,389 process.py align():251 [1] Alignment steps for 2006.073.01 INFO 2025-06-26 11:12:34,432 align.py process_cal():139 [1] Processing dorado_2006.073.01_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.073.01 INFO 2025-06-26 11:12:34,530 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:12:34,540 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:12:34,793 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:12:34,807 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:12:35,049 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:12:35,060 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:12:35,205 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:12:35,205 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:12:35,299 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:12:35,312 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:12:35,546 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:12:35,556 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:35,756 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:12:35,766 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:35,964 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:12:35,974 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:36,175 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:36,184 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:36,385 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:36,394 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:36,596 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:36,606 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:36,807 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:36,816 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:37,014 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:37,024 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:37,224 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:37,234 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:37,431 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:37,441 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:37,646 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:37,657 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:37,863 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:37,873 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:38,073 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:38,082 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:38,281 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:38,291 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:38,488 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:38,498 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:38,699 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:38,710 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:38,912 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:38,921 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:39,120 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:39,130 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:39,331 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:39,341 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:39,542 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.073.01_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:12:39,551 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:12:39,816 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:12:39,980 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:12:40,147 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.68 INFO 2025-06-26 11:12:40,319 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:12:40,498 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:12:40,653 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_align.nc INFO 2025-06-26 11:12:40,813 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 11:12:40,816 process.py resample():273 [1] Resampling steps for 2006.073.01 INFO 2025-06-26 11:12:40,816 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:12:40,851 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_align.nc mission netCDF file INFO 2025-06-26 11:12:40,861 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_align.nc mission netCDF file INFO 2025-06-26 11:12:40,864 resample.py get_mission_start_end():1145 [1] navigation: 2006-03-14T20:14:26.155562368 to 2006-03-15T15:18:24.343524480 (0 days 00:00:00.009999232 before mission_end) INFO 2025-06-26 11:12:40,867 resample.py get_mission_start_end():1145 [1] hs2 : 2006-03-14T20:14:08.326783616 to 2006-03-15T15:18:24.313526400 (0 days 00:00:00.039997312 before mission_end) INFO 2025-06-26 11:12:40,870 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-03-14T20:14:30.745248128 to 2006-03-15T15:18:24.353523712 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:12:40,872 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-03-14T20:14:30.975232128 to 2006-03-15T15:18:24.353523712 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:12:40,874 resample.py get_mission_start_end():1145 [1] isus : 2006-03-14T20:15:28.521290112 to 2006-03-15T15:18:23.243599872 (0 days 00:00:01.109923840 before mission_end) INFO 2025-06-26 11:12:40,876 resample.py get_mission_start_end():1145 [1] biolume : 2006-03-14T20:14:03.477081728 to 2006-03-15T15:18:23.163571072 (0 days 00:00:01.189952640 before mission_end) INFO 2025-06-26 11:12:40,879 resample.py get_mission_start_end():1145 [1] tailcone : 2006-03-14T20:14:04.037077632 to 2006-03-15T15:18:24.233531904 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 11:12:40,880 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_align.nc mission netCDF file INFO 2025-06-26 11:12:40,880 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:41,571 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:41,683 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:41,791 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:41,904 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:41,996 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,092 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,184 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,276 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,361 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,448 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,534 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,621 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,708 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,795 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,882 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:42,968 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,059 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,148 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,235 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,323 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,411 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,498 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,532 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,560 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,585 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,616 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:43,718 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:12:44,207 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_1S.nc INFO 2025-06-26 11:12:46,472 create_products.py gulper_odv():401 [1] No gulper times found for 2006.073.01 INFO 2025-06-26 11:12:46,472 process.py archive():337 [1] Archiving steps for 2006.073.01 INFO 2025-06-26 11:12:46,472 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01, BASE_PATH = /data/auv_data INFO 2025-06-26 11:12:46,473 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:12:46,475 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.073.01_1S.nc INFO 2025-06-26 11:12:46,731 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:12:46,733 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.073.01_cal.nc INFO 2025-06-26 11:12:47,008 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:12:47,010 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.073.01_align.nc INFO 2025-06-26 11:12:47,260 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:12:47,331 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,393 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,398 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,447 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,647 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,657 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,765 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:47,828 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:48,013 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006073/2006.073.01 done. INFO 2025-06-26 11:12:48,014 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:12:48,014 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.073.01/dorado_2006.073.01_processing.log /Volumes/AUVCTD/surveys/2006/netcdf