INFO 2025-06-26 11:54:59,677 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 11:54:59,677 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - out to between M1 & M2 - ctdToUse = ctd1 INFO 2025-06-26 11:54:59,677 process.py process_mission():449 [1] Processing AUVCTD mission 2006.249.03 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:54:59,677 process.py download_process():165 [1] Download and processing steps for 2006.249.03 INFO 2025-06-26 11:54:59,677 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006249/2006.249.03 INFO 2025-06-26 11:54:59,677 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006249/2006.249.03 to /data/auv_data/dorado/missionlogs/2006.249.03 INFO 2025-06-26 11:55:06,370 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.249.03 INFO 2025-06-26 11:55:06,370 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/ctdDriver.log (23213563 bytes) INFO 2025-06-26 11:55:08,012 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.249.03/ctdDriver.log: [ 409 584 2882 2894 4872 5234 14602 15224 15366 16590 22343 23117 23613 23928 24898 37721 44257 44845 68368 84442 89839 97338 99016 103484 104963 119834 120898 159156 163413 174849 178225 179834 184250 186369 187249 191106 207796 211074 232423 233528 254829 258735 262325] INFO 2025-06-26 11:55:08,083 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/ctdDriver2.log (23213029 bytes) INFO 2025-06-26 11:55:09,743 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.249.03/ctdDriver2.log: [ 237 403 775 870 1172 2875 4053 4346 5517 6228 6563 7106 7417 9873 11989 23112 25593 28587 29604 29836 31737 35014 37340 39887 46163 52756 52799 53712 53848 58389 67332 72430 74834 85712 88696 89836 91054 97334 99012 104906 119830 134831 139875 139991 142332 149031 160190 164832 167830 184246 207791 235286 247322 254823 262319] INFO 2025-06-26 11:55:09,826 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/gps.log (428180 bytes) INFO 2025-06-26 11:55:09,879 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/hydroscatlog.log (15827354 bytes) INFO 2025-06-26 11:55:11,704 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.249.03/hydroscatlog.log: [ 575 676 841 847 921 1584 2327 2859 4281 4453 5330 5623 6446 6576 7211 7675 8055 11475 12517 13870 15319 23821 24375 24993 29015 32940 39987 42057 46261 49716 51174 53703 56251 68349 69185 74797 75458 79395 89918 96759 99088 103889 104980 112400 118109 121640 123748 125265 142388 146547 149084 157380 160586 160765 161982 162396 163455 169706 172369 172908 174885 174984 176994 178826 187279 191134 196721 197065 205255 207816 210533 215301 224419 233537 239832 243607 244369 253187 254206 254824 260294 260890 262318] INFO 2025-06-26 11:55:11,756 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/navigation.log (77787142 bytes) INFO 2025-06-26 11:55:17,374 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/isuslog.log (1576565 bytes) INFO 2025-06-26 11:55:17,531 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/parosci.log (33908774 bytes) INFO 2025-06-26 11:55:20,289 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.249.03/parosci.log: [ 1 2 3 16 17 36 37 281 315 317 949 950 1861 2076 2077 2889 2890 2891 3006 3007 3444 3573 4005 4280 5057 5058 5341 5962 5963 5965 5989 6375 6377 7395 7628 7629 7630 7690 8914 8915 8916 13323 13324 13456 13457 14295 16988 16989 16990 17293 17294 17295 17524 17642 17886 17887 18387 18388 19344 19960 19961 20176 20446 26010 26011 26363 27076 27077 29079 29080 30268 37178 39393 40025 40026 41435 41713 41714 43541 43542 43543 46117 46118 49787 49788 50143 50144 51019 51020 51624 51899 62155 62174 62175 63781 63782 64324 66915 66916 76810 77669 80265 85247 85248 88192 88193 89147 89148 93307 94307 100278 100279 101279 106896 112614 112869 118748 120319 120320 123851 125896 128806 136997 141473 141474 143755 144027 144029 144391 144915 144916 150571 150572 156560 156561 161407 172387 183016 187497 187498 187499 194166 200251 200252 200253 200588 207816 210219 212543 216493 216495 226257 229662 229663 237640 240037 240039 243941 243942 243943 259025 259088 259089 259410 260777 265277 280848 287488 287489 287633 287634 297152 307864 317751 317752 325679 331323 331324 331325 335397 335398 335399 341106 346574 356765 356766 361205 368383 373392 381192 381193 381211 381213 392443 401371 401372 413929 421459 421460 421461 429112 429114 430523 433791 441548 441549 449589 455595 455596 462395 463073 463074 474033 477413 478933 481730 481731 487077 487078 488113 493565 506086 506087 511925 521085 521086 527822 544883 549777 549778 549779 562061 562062 562097 563932 564793 564794 568684 568685 568686 581339 582181 582183 593467 593468 602015 602016 622323 622324 622585 622586 630259 630260 631466 637157 637158 637160 637161 639208 642405 652512 654552 662471 663850 666798 673186 673187 673188 678127 680848 680849 682506 689791 697125 704334] INFO 2025-06-26 11:55:20,382 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/tailCone.log (15812971 bytes) INFO 2025-06-26 11:55:22,411 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.249.03/biolume.log (17952140 bytes) INFO 2025-06-26 11:55:24,196 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:55:25,105 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.73 seconds WARNING 2025-06-26 11:55:25,105 process.py download_process():196 [1] No lopc.bin file for 2006.249.03 INFO 2025-06-26 11:55:25,105 process.py calibrate():227 [1] Calibration steps for 2006.249.03 INFO 2025-06-26 11:55:25,614 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 11:55:25,616 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:55:26,386 calibrate.py _nudge_pos():1806 [1] 91: 0.110 0.0000168 -0.0007248 3168 10.63 0.234 -12.635 2006-09-06T21:14:41.260803840 INFO 2025-06-26 11:55:26,617 calibrate.py _nudge_pos():1806 [1] 113: 0.100 0.0000167 0.0000026 25 0.08 30.964 6.068 2006-09-06T21:15:07.269022208 INFO 2025-06-26 11:55:27,158 calibrate.py _nudge_pos():1806 [1] 166: 0.110 -0.0033541 0.0014997 12661 42.30 -11.773 6.570 2006-09-06T21:58:17.261595392 INFO 2025-06-26 11:55:27,644 calibrate.py _nudge_pos():1806 [1] 213: 0.140 -0.0018681 0.0002742 8220 27.43 -10.112 1.853 2006-09-06T22:26:29.265685248 INFO 2025-06-26 11:55:28,170 calibrate.py _nudge_pos():1806 [1] 264: 0.140 0.0003196 -0.0007767 10424 34.76 1.365 -4.140 2006-09-06T23:02:05.259359744 INFO 2025-06-26 11:55:28,325 calibrate.py _nudge_pos():1806 [1] 279: 0.110 -0.0000656 0.0000109 30 0.10 -100.702 20.912 2006-09-06T23:02:25.267988992 INFO 2025-06-26 11:55:28,853 calibrate.py _nudge_pos():1806 [1] 330: 0.130 0.0017553 -0.0041804 12569 41.91 6.219 -18.482 2006-09-06T23:45:11.262206208 INFO 2025-06-26 11:55:29,589 calibrate.py _nudge_pos():1806 [1] 402: 0.140 0.0016684 -0.0032635 9601 32.01 7.740 -18.890 2006-09-07T00:18:23.265744640 INFO 2025-06-26 11:55:30,243 calibrate.py _nudge_pos():1806 [1] 465: 0.130 0.0031674 -0.0002662 11214 37.40 12.580 -1.319 2006-09-07T00:56:49.267772928 INFO 2025-06-26 11:55:30,694 calibrate.py _nudge_pos():1806 [1] 508: 0.130 0.0061143 -0.0014033 15168 50.56 17.962 -5.143 2006-09-07T01:48:05.267052288 INFO 2025-06-26 11:55:31,408 calibrate.py _nudge_pos():1806 [1] 576: 0.140 -0.0010765 -0.0007087 13339 44.48 -3.595 -2.952 2006-09-07T02:33:41.259624192 INFO 2025-06-26 11:55:32,064 calibrate.py _nudge_pos():1806 [1] 638: 0.150 0.0054193 0.0051906 13609 45.38 17.741 21.195 2006-09-07T03:20:05.268906240 INFO 2025-06-26 11:55:32,621 calibrate.py _nudge_pos():1806 [1] 691: 0.140 0.0035938 0.0056316 15097 50.33 10.608 20.734 2006-09-07T04:11:17.268460032 INFO 2025-06-26 11:55:33,180 calibrate.py _nudge_pos():1806 [1] 743: 0.150 -0.0000260 -0.0000045 15 0.05 -82.778 -17.778 2006-09-07T04:12:11.264761088 INFO 2025-06-26 11:55:33,285 calibrate.py _nudge_pos():1806 [1] 753: 0.150 -0.0017773 0.0033301 7329 24.45 -10.801 25.241 2006-09-07T04:36:47.263648256 INFO 2025-06-26 11:55:34,002 calibrate.py _nudge_pos():1806 [1] 820: 0.150 0.0095878 0.0074986 16042 53.50 26.623 25.974 2006-09-07T05:31:23.259227136 INFO 2025-06-26 11:55:34,662 calibrate.py _nudge_pos():1806 [1] 881: 0.150 0.0113179 0.0060718 16155 53.88 31.199 20.882 2006-09-07T06:26:17.263572480 INFO 2025-06-26 11:55:35,355 calibrate.py _nudge_pos():1806 [1] 945: 0.150 0.0115131 0.0025118 16118 53.75 31.814 8.660 2006-09-07T07:21:05.268328704 INFO 2025-06-26 11:55:35,959 calibrate.py _nudge_pos():1806 [1] 1001: 0.170 0.0049099 -0.0008021 7313 24.38 29.912 -6.096 2006-09-07T07:46:23.264338688 INFO 2025-06-26 11:55:36,540 calibrate.py _nudge_pos():1806 [1] 1055: 0.170 0.0022988 -0.0008560 5883 19.61 17.408 -8.087 2006-09-07T08:06:53.260078080 INFO 2025-06-26 11:55:37,190 calibrate.py _nudge_pos():1806 [1] 1115: 0.160 0.0055652 0.0000605 10918 36.41 22.697 0.308 2006-09-07T08:44:17.266353408 INFO 2025-06-26 11:55:37,800 calibrate.py _nudge_pos():1806 [1] 1172: 0.170 0.0048757 -0.0007790 11021 36.76 19.694 -3.926 2006-09-07T09:21:59.261395968 INFO 2025-06-26 11:55:38,433 calibrate.py _nudge_pos():1806 [1] 1231: 0.180 0.0030452 -0.0008278 11105 37.03 12.211 -4.143 2006-09-07T09:59:59.265205248 INFO 2025-06-26 11:55:39,047 calibrate.py _nudge_pos():1806 [1] 1287: 0.170 0.0012344 0.0004485 11149 37.18 4.929 2.235 2006-09-07T10:38:05.268603136 INFO 2025-06-26 11:55:39,614 calibrate.py _nudge_pos():1806 [1] 1339: 0.170 0.0006421 0.0015401 11107 37.05 2.573 7.703 2006-09-07T11:15:59.262823936 INFO 2025-06-26 11:55:40,220 calibrate.py _nudge_pos():1806 [1] 1394: 0.170 0.0016596 0.0022548 11033 36.80 6.695 11.355 2006-09-07T11:53:41.267865856 INFO 2025-06-26 11:55:40,785 calibrate.py _nudge_pos():1806 [1] 1445: 0.180 0.0019781 0.0014443 8746 29.16 10.068 9.177 2006-09-07T12:23:41.264557568 INFO 2025-06-26 11:55:41,329 calibrate.py _nudge_pos():1806 [1] 1494: 0.180 0.0012114 0.0006587 4440 14.80 12.152 8.249 2006-09-07T12:39:17.260437504 INFO 2025-06-26 11:55:41,352 calibrate.py _nudge_pos():1806 [1] 1496: 0.170 0.0000263 -0.0000186 99 0.33 11.832 -10.416 2006-09-07T12:39:38.268998400 INFO 2025-06-26 11:55:41,927 calibrate.py _nudge_pos():1806 [1] 1549: 0.180 0.0023317 0.0025334 11572 38.58 8.969 12.168 2006-09-07T13:19:05.266847744 INFO 2025-06-26 11:55:42,511 calibrate.py _nudge_pos():1806 [1] 1602: 0.180 0.0012136 0.0015831 7295 24.33 7.402 12.057 2006-09-07T13:44:17.263268864 INFO 2025-06-26 11:55:43,119 calibrate.py _nudge_pos():1806 [1] 1657: 0.180 0.0002565 0.0015033 7738 25.80 1.475 10.798 2006-09-07T14:10:59.263524608 INFO 2025-06-26 11:56:31,007 calibrate.py _nudge_pos():1862 [1] 5913: - - - 5 0.01 - - INFO 2025-06-26 11:56:31,007 calibrate.py _nudge_pos():1868 [1] Points in final series = 329354 WARNING 2025-06-26 11:56:42,363 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:57:17,252 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:57:36,148 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:57:38,171 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:57:38,175 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.249.03/ctd1.nc INFO 2025-06-26 11:57:38,177 calibrate.py _range_qc_combined_nc():898 [1] Setting 92 ctd1_salinity values to NaN INFO 2025-06-26 11:57:38,177 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 11:57:38,177 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:57:52,717 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 29 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:57:54,715 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 29 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:57:54,719 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.249.03/ctd2.nc INFO 2025-06-26 11:57:54,721 calibrate.py _range_qc_combined_nc():898 [1] Setting 94 ctd2_salinity values to NaN INFO 2025-06-26 11:57:54,721 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 11:57:54,721 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:57:54,815 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:57:57,867 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 3883688 3883689 3949680] INFO 2025-06-26 11:57:58,501 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:57:58,508 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 11:57:58,508 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.249.03 ERROR 2025-06-26 11:57:58,509 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.249.03 INFO 2025-06-26 11:57:58,761 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_cal.nc INFO 2025-06-26 11:58:19,263 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 11:58:19,268 process.py align():251 [1] Alignment steps for 2006.249.03 INFO 2025-06-26 11:58:19,312 align.py process_cal():139 [1] Processing dorado_2006.249.03_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.249.03 INFO 2025-06-26 11:58:19,396 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:58:19,404 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:58:19,612 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:58:19,624 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:58:19,820 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:58:19,833 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:58:19,968 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:58:19,968 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:58:20,055 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:58:20,066 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:58:20,261 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:58:20,271 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:20,453 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:58:20,463 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:20,637 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:58:20,646 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:20,819 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:20,829 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,002 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,012 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,191 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,200 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,375 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,385 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,554 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,564 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,740 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,750 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:21,922 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:21,932 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:22,108 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:22,118 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:22,289 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:22,299 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:22,470 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:22,479 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:22,652 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:22,662 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:22,835 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:22,845 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,017 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:23,029 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,204 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:23,213 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,387 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:23,397 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,572 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:23,582 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,753 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.249.03_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:58:23,762 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:58:23,983 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:58:24,128 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:58:24,274 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:58:24,421 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:58:24,578 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 11:58:24,711 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_align.nc INFO 2025-06-26 11:58:24,869 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 11:58:24,872 process.py resample():273 [1] Resampling steps for 2006.249.03 INFO 2025-06-26 11:58:24,872 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:58:24,907 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_align.nc mission netCDF file INFO 2025-06-26 11:58:24,916 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_align.nc mission netCDF file INFO 2025-06-26 11:58:24,918 resample.py get_mission_start_end():1145 [1] navigation: 2006-09-06T21:02:55.919123200 to 2006-09-07T15:22:17.260461568 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:58:24,921 resample.py get_mission_start_end():1145 [1] hs2 : 2006-09-06T21:02:41.750093824 to 2006-09-07T15:22:17.210465280 (0 days 00:00:00.049996288 before mission_end) INFO 2025-06-26 11:58:24,924 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-09-06T21:03:04.518533888 to 2006-09-07T15:22:17.240463104 (0 days 00:00:00.019998464 before mission_end) INFO 2025-06-26 11:58:24,926 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-09-06T21:03:06.168421120 to 2006-09-07T15:22:17.170467840 (0 days 00:00:00.089993728 before mission_end) INFO 2025-06-26 11:58:24,928 resample.py get_mission_start_end():1145 [1] isus : 2006-09-06T21:04:01.194651392 to 2006-09-07T15:22:16.420519168 (0 days 00:00:00.839942400 before mission_end) INFO 2025-06-26 11:58:24,930 resample.py get_mission_start_end():1145 [1] biolume : 2006-09-06T21:02:35.140512256 to 2006-09-07T15:22:16.740463104 (0 days 00:00:00.519998464 before mission_end) INFO 2025-06-26 11:58:24,932 resample.py get_mission_start_end():1145 [1] tailcone : 2006-09-06T21:02:36.420458752 to 2006-09-07T15:22:17.220464384 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 11:58:24,933 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_align.nc mission netCDF file INFO 2025-06-26 11:58:24,934 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:25,594 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:25,700 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:25,804 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:25,907 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:25,996 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,087 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,175 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,261 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,342 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,423 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,505 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,587 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,669 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,751 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,833 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:26,914 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,002 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,092 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,179 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,266 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,353 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,439 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,474 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,502 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,529 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,560 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:27,660 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:58:28,144 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_1S.nc INFO 2025-06-26 11:58:30,245 create_products.py gulper_odv():401 [1] No gulper times found for 2006.249.03 INFO 2025-06-26 11:58:30,245 process.py archive():337 [1] Archiving steps for 2006.249.03 INFO 2025-06-26 11:58:30,245 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03, BASE_PATH = /data/auv_data INFO 2025-06-26 11:58:30,247 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:58:30,248 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.249.03_1S.nc INFO 2025-06-26 11:58:30,299 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:58:30,300 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.249.03_cal.nc INFO 2025-06-26 11:58:30,543 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:58:30,544 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.249.03_align.nc INFO 2025-06-26 11:58:30,766 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:58:30,828 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:30,886 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:30,892 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:30,934 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,128 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,138 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,228 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,285 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,454 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006249/2006.249.03 done. INFO 2025-06-26 11:58:31,454 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:58:31,455 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.249.03/dorado_2006.249.03_processing.log /Volumes/AUVCTD/surveys/2006/netcdf