INFO 2025-06-26 12:16:11,680 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 12:16:11,680 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - out to between M1 & M2 - ctdToUse = ctd1 INFO 2025-06-26 12:16:11,680 process.py process_mission():449 [1] Processing AUVCTD mission 2006.331.02 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:16:11,680 process.py download_process():165 [1] Download and processing steps for 2006.331.02 INFO 2025-06-26 12:16:11,681 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006331/2006.331.02 INFO 2025-06-26 12:16:11,681 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006331/2006.331.02 to /data/auv_data/dorado/missionlogs/2006.331.02 INFO 2025-06-26 12:16:18,432 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.331.02 INFO 2025-06-26 12:16:18,433 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/ctdDriver.log (22126147 bytes) INFO 2025-06-26 12:16:20,047 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.331.02/ctdDriver.log: [ 494 648 1456 2201 2233 3387 3437 5228 5388 5530 10036 11043 19157 31359 75325 103251 106020 114181 118352 138064 160502 169617 171868 172842 202218 205491 210366 218317 226652 242980] INFO 2025-06-26 12:16:20,113 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/ctdDriver2.log (22128781 bytes) INFO 2025-06-26 12:16:21,714 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.331.02/ctdDriver2.log: [ 683 1532 1552 1916 3466 5260 5561 8393 10248 11942 34781 39490 48066 78057 88220 103286 106055 114697 123860 124292 164319 169650 172877 177799 202251 220517 226681 234813] INFO 2025-06-26 12:16:21,788 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/gps.log (222692 bytes) INFO 2025-06-26 12:16:21,821 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/hydroscatlog.log (15097694 bytes) INFO 2025-06-26 12:16:23,580 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.331.02/hydroscatlog.log: [ 237 355 725 1523 1578 1610 1880 2015 2288 2330 2466 2985 3280 3352 3475 5366 5669 6605 7726 8503 8788 9198 10181 10360 11336 11995 12100 12430 13763 16690 18178 26273 26845 27831 31875 34255 34916 38546 47729 47776 47973 48626 52299 55703 60345 63198 65273 66986 72795 72833 78200 80230 83579 88366 95432 96513 100695 104232 105947 106200 108199 109655 123169 123195 124186 129106 136787 145205 152315 153190 159425 160611 160691 162693 169782 170835 172055 173030 174210 185805 186632 188436 190686 194971 198807 208280 209196 210555 214032 215380 223389 233617 235672 242737 243170 244746] INFO 2025-06-26 12:16:23,626 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/navigation.log (74174690 bytes) INFO 2025-06-26 12:16:29,071 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/isuslog.log (1511093 bytes) INFO 2025-06-26 12:16:29,222 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/parosci.log (32442374 bytes) INFO 2025-06-26 12:16:31,892 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.331.02/parosci.log: [ 2 3 17 18 27 29 31 53 56 57 58 59 102 169 171 228 233 328 677 678 680 719 811 992 994 995 1292 1381 1382 1384 1392 1654 1655 1656 1767 1768 1769 1982 1983 2019 2077 2495 2541 2543 2544 2747 2748 2921 2923 2924 2960 2973 3064 3065 3067 3198 3199 3609 3611 3700 4112 4258 4274 4368 4419 5065 5066 5426 5427 5428 5892 6042 6044 6045 6289 6290 6624 6625 6626 6628 8073 8807 8808 8809 9002 9003 9004 9232 9234 9265 9331 9333 9809 11910 11911 12130 13441 13445 13841 13842 13876 13877 14219 14380 14381 14382 14639 14956 14957 15000 18215 20690 20752 20753 20754 20960 20961 20962 24709 24710 24711 27354 27835 27836 30457 30458 30493 30495 30496 30907 30908 31653 31654 31656 32221 32222 32223 32503 33387 35478 35479 35480 36959 39561 39562 40962 40963 41711 44810 44812 46193 46195 48809 48810 53226 53227 54736 59675 64041 65283 66736 68966 68967 70537 70538 72081 72082 73765 74315 74316 74732 74733 84389 84390 84633 85579 85580 89115 89116 91955 91956 93728 93729 99459 99460 103466 106356 108112 108113 108114 111081 111082 111083 111226 111227 113012 113014 113129 113130 122546 122547 128233 128235 128236 137507 137508 138687 138688 140397 141661 148752 150002 150003 151803 151805 160764 160765 171775 175224 175225 185877 185878 186458 189768 202689 202691 205870 205871 210908 210909 210911 214294 214295 217962 222335 222336 224326 230039 235422 235423 237078 239185 250184 250185 259065 259066 270297 270298 275261 275262 279805 279806 279808 280960 280961 282875 282876 284420 285102 287747 287748 287749 290471 290472 290473 294393 302863 303245 303246 307044 310634 310635 313493 313494 318260 326565 326566 326567 330731 330732 330800 330802 332622 332624 332625 332992 333463 346681 346683 350945 351729 351731 357641 357642 357973 357974 359387 359388 359390 359391 367342 367343 368363 368578 370257 370258 370854 371123 373890 389969 389970 407007 407009 409078 409079 411430 411431 412218 412220 412324 412325 413947 413948 413949 413950 428202 428203 428205 430076 431387 431388 431530 431600 431601 434207 434209 436985 436986 447303 447304 447305 451207 451208 457637 457639 458873 458874 464760 464761 467938 467939 467940 477994 482960 482962 485528 485529 492071 492072 495461 495462 505061 512225 512226 529570 529571 542872 543748 552527 552528 552909 554085 554086 559522 559523 561952 561953 561979 574977 578606 581093 588709 588710 600127 600128 600194 616878 632401 632402 633102 638372 640955 640957 642729 642730 647461 651009 651011 651012 653238 653239 653383 655917 655918 657464 657465 672815 675685 675687] INFO 2025-06-26 12:16:31,981 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/tailCone.log (15073963 bytes) INFO 2025-06-26 12:16:33,927 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.331.02/biolume.log (17124172 bytes) INFO 2025-06-26 12:16:35,627 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 12:16:36,516 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.08 seconds WARNING 2025-06-26 12:16:36,516 process.py download_process():196 [1] No lopc.bin file for 2006.331.02 INFO 2025-06-26 12:16:36,516 process.py calibrate():227 [1] Calibration steps for 2006.331.02 INFO 2025-06-26 12:16:36,939 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 12:16:36,941 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:16:37,906 calibrate.py _nudge_pos():1806 [1] 112: 0.050 -0.0003401 0.0001629 657 2.23 -22.639 13.540 2006-11-27T21:51:48.029020416 INFO 2025-06-26 12:16:37,927 calibrate.py _nudge_pos():1806 [1] 114: 0.050 -0.0000013 -0.0000010 55 0.18 -1.032 -1.027 2006-11-27T21:52:00.028198144 INFO 2025-06-26 12:16:38,277 calibrate.py _nudge_pos():1806 [1] 148: 0.050 -0.0000373 -0.0000136 35 0.11 -48.831 -22.312 2006-11-27T21:52:40.025458176 INFO 2025-06-26 12:16:38,359 calibrate.py _nudge_pos():1806 [1] 156: 0.060 -0.0080851 0.0034449 13628 45.61 -26.316 13.995 2006-11-27T22:38:24.027481088 INFO 2025-06-26 12:16:38,891 calibrate.py _nudge_pos():1806 [1] 208: 0.050 -0.0042139 0.0031022 8282 27.65 -22.631 20.793 2006-11-27T23:06:54.030338048 INFO 2025-06-26 12:16:39,257 calibrate.py _nudge_pos():1806 [1] 244: 0.050 -0.0000279 0.0000100 15 0.05 -88.836 39.612 2006-11-27T23:07:32.027735040 INFO 2025-06-26 12:16:39,529 calibrate.py _nudge_pos():1806 [1] 270: 0.060 -0.0079708 0.0047073 12574 41.95 -28.217 20.795 2006-11-27T23:49:54.033595648 INFO 2025-06-26 12:16:40,132 calibrate.py _nudge_pos():1806 [1] 329: 0.070 -0.0051447 0.0050934 8341 27.83 -27.452 33.913 2006-11-28T00:18:42.025220096 INFO 2025-06-26 12:16:40,143 calibrate.py _nudge_pos():1806 [1] 330: 0.070 0.0000654 -0.0000119 30 0.10 100.540 -22.864 2006-11-28T00:18:48.024809216 INFO 2025-06-26 12:16:40,380 calibrate.py _nudge_pos():1806 [1] 353: 0.040 -0.0000263 -0.0000003 50 0.16 -23.886 -0.319 2006-11-28T00:19:20.032616448 INFO 2025-06-26 12:16:40,872 calibrate.py _nudge_pos():1806 [1] 401: 0.050 -0.0036978 0.0047531 11388 38.00 -14.454 23.180 2006-11-28T00:58:07.033206016 INFO 2025-06-26 12:16:41,066 calibrate.py _nudge_pos():1806 [1] 420: 0.060 -0.0000191 0.0000026 30 0.10 -29.275 5.059 2006-11-28T00:58:31.031561728 INFO 2025-06-26 12:16:41,502 calibrate.py _nudge_pos():1806 [1] 462: 0.060 -0.0057295 0.0050138 15052 50.20 -16.952 18.508 2006-11-28T01:49:24.032417024 INFO 2025-06-26 12:16:41,599 calibrate.py _nudge_pos():1806 [1] 471: 0.060 0.0000234 0.0000112 20 0.06 54.835 32.683 2006-11-28T01:49:36.031595008 INFO 2025-06-26 12:16:42,190 calibrate.py _nudge_pos():1806 [1] 528: 0.060 0.0002428 0.0056315 13394 44.66 0.807 23.364 2006-11-28T02:35:12.034166016 INFO 2025-06-26 12:16:42,806 calibrate.py _nudge_pos():1806 [1] 587: 0.060 -0.0014881 0.0065153 13586 45.33 -4.876 26.633 2006-11-28T03:21:30.033860096 INFO 2025-06-26 12:16:43,439 calibrate.py _nudge_pos():1806 [1] 647: 0.060 -0.0000318 -0.0000055 15 0.05 -101.308 -22.009 2006-11-28T03:22:33.029544704 INFO 2025-06-26 12:16:43,503 calibrate.py _nudge_pos():1806 [1] 653: 0.060 -0.0048353 0.0040128 15070 50.26 -14.291 14.793 2006-11-28T04:12:54.032591616 INFO 2025-06-26 12:16:43,986 calibrate.py _nudge_pos():1806 [1] 698: 0.070 -0.0035471 0.0012613 6828 22.76 -23.152 10.267 2006-11-28T04:36:24.026000384 INFO 2025-06-26 12:16:43,998 calibrate.py _nudge_pos():1806 [1] 699: 0.070 -0.0000724 -0.0000455 80 0.26 -40.834 -32.025 2006-11-28T04:36:40.024904448 INFO 2025-06-26 12:16:44,601 calibrate.py _nudge_pos():1806 [1] 755: 0.060 -0.0001023 -0.0000041 35 0.11 -134.080 -6.726 2006-11-28T04:37:42.030656768 INFO 2025-06-26 12:16:44,634 calibrate.py _nudge_pos():1806 [1] 758: 0.080 0.0026568 0.0024370 16296 54.36 7.260 8.307 2006-11-28T05:32:06.027057664 INFO 2025-06-26 12:16:45,352 calibrate.py _nudge_pos():1806 [1] 825: 0.080 0.0018323 0.0034137 16434 54.81 4.965 11.540 2006-11-28T06:28:01.027224576 INFO 2025-06-26 12:16:45,796 calibrate.py _nudge_pos():1806 [1] 865: 0.070 -0.0000646 0.0000720 75 0.25 -38.848 54.080 2006-11-28T06:28:55.033524736 INFO 2025-06-26 12:16:45,829 calibrate.py _nudge_pos():1806 [1] 868: 0.080 0.0033369 0.0024068 16324 54.45 9.103 8.191 2006-11-28T07:23:24.029583104 INFO 2025-06-26 12:16:46,545 calibrate.py _nudge_pos():1806 [1] 934: 0.080 0.0050569 -0.0003002 16438 54.81 13.702 -1.015 2006-11-28T08:19:18.029818624 INFO 2025-06-26 12:16:46,995 calibrate.py _nudge_pos():1806 [1] 975: 0.080 -0.0000764 -0.0000386 50 0.16 -69.462 -43.771 2006-11-28T08:20:08.026393344 INFO 2025-06-26 12:16:47,162 calibrate.py _nudge_pos():1806 [1] 990: 0.080 -0.0026296 0.0020703 5674 18.93 -20.632 20.265 2006-11-28T08:39:18.027612928 INFO 2025-06-26 12:16:47,770 calibrate.py _nudge_pos():1806 [1] 1046: 0.080 0.0023121 0.0029312 13761 45.88 7.484 11.838 2006-11-28T09:26:06.025251840 INFO 2025-06-26 12:16:48,311 calibrate.py _nudge_pos():1806 [1] 1095: 0.080 0.0020760 0.0019928 10822 36.10 8.540 10.230 2006-11-28T10:03:00.033582080 INFO 2025-06-26 12:16:48,931 calibrate.py _nudge_pos():1806 [1] 1152: 0.090 0.0004555 0.0032306 10755 35.86 1.886 16.692 2006-11-28T10:39:48.032323840 INFO 2025-06-26 12:16:49,520 calibrate.py _nudge_pos():1806 [1] 1206: 0.080 0.0000977 0.0036928 11579 38.61 0.376 17.721 2006-11-28T11:19:18.029967872 INFO 2025-06-26 12:16:50,115 calibrate.py _nudge_pos():1806 [1] 1259: 0.090 0.0013341 0.0026329 11669 38.93 5.088 12.532 2006-11-28T11:59:06.026378752 INFO 2025-06-26 12:16:50,721 calibrate.py _nudge_pos():1806 [1] 1314: 0.090 0.0019074 0.0017521 11212 37.40 7.571 8.681 2006-11-28T12:37:24.028954624 INFO 2025-06-26 12:16:51,334 calibrate.py _nudge_pos():1806 [1] 1369: 0.080 0.0014464 0.0027038 13221 44.10 4.868 11.362 2006-11-28T13:22:24.033991936 INFO 2025-06-26 12:16:51,980 calibrate.py _nudge_pos():1806 [1] 1427: 0.100 0.0002935 0.0006364 4993 16.65 2.617 7.084 2006-11-28T13:40:00.031651072 INFO 2025-06-26 12:16:52,669 calibrate.py _nudge_pos():1806 [1] 1488: 0.100 0.0007677 0.0021452 8695 29.00 3.929 13.709 2006-11-28T14:10:00.028342784 INFO 2025-06-26 12:16:53,317 calibrate.py _nudge_pos():1806 [1] 1545: 0.090 -0.0001150 0.0021117 9163 30.56 -0.558 12.803 2006-11-28T14:41:30.028868864 INFO 2025-06-26 12:16:54,031 calibrate.py _nudge_pos():1806 [1] 1609: 0.100 0.0000710 0.0006050 2892 9.65 1.093 11.622 2006-11-28T14:52:12.024889344 INFO 2025-06-26 12:17:10,780 calibrate.py _nudge_pos():1862 [1] 3059: - - - 2 0.00 - - INFO 2025-06-26 12:17:10,780 calibrate.py _nudge_pos():1868 [1] Points in final series = 314290 WARNING 2025-06-26 12:17:21,759 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 12:17:54,859 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:18:12,796 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 29 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:18:14,729 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 29 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:18:14,733 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.331.02/ctd1.nc INFO 2025-06-26 12:18:14,735 calibrate.py _range_qc_combined_nc():898 [1] Setting 34 ctd1_salinity values to NaN INFO 2025-06-26 12:18:14,735 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 12:18:14,735 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:18:28,697 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:18:30,656 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 20 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:18:30,659 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.331.02/ctd2.nc INFO 2025-06-26 12:18:30,661 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 12:18:30,661 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 12:18:30,661 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 12:18:30,750 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 12:18:33,669 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 3775752 3775753 3775754] INFO 2025-06-26 12:18:34,303 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: 0 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 12:18:34,310 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 12:18:34,310 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.331.02 ERROR 2025-06-26 12:18:34,311 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.331.02 INFO 2025-06-26 12:18:34,626 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_cal.nc INFO 2025-06-26 12:18:54,081 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 12:18:54,086 process.py align():251 [1] Alignment steps for 2006.331.02 INFO 2025-06-26 12:18:54,127 align.py process_cal():139 [1] Processing dorado_2006.331.02_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.331.02 INFO 2025-06-26 12:18:54,208 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:18:54,216 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:18:54,410 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:18:54,420 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:18:54,611 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:18:54,621 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:18:54,745 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:18:54,745 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:18:54,820 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:18:54,830 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:18:55,017 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:18:55,027 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:55,190 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:18:55,199 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:55,366 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:18:55,375 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:55,540 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:55,549 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:55,717 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:55,727 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:55,896 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:55,905 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,072 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,081 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,256 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,265 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,441 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,450 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,615 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,624 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,800 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,809 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:56,973 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:56,982 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:57,149 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:57,158 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:57,322 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:57,332 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:57,501 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:57,512 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:57,679 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:57,690 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:57,864 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:57,875 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:58,054 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:58,064 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:58,232 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:58,242 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:58,416 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.331.02_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:18:58,426 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:18:58,648 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:18:58,785 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:18:58,923 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:18:59,070 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 12:18:59,251 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:18:59,382 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_align.nc INFO 2025-06-26 12:18:59,533 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 12:18:59,536 process.py resample():273 [1] Resampling steps for 2006.331.02 INFO 2025-06-26 12:18:59,536 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:18:59,572 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_align.nc mission netCDF file INFO 2025-06-26 12:18:59,582 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_align.nc mission netCDF file INFO 2025-06-26 12:18:59,584 resample.py get_mission_start_end():1145 [1] navigation: 2006-11-27T21:48:05.654254080 to 2006-11-28T15:16:43.434090752 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 12:18:59,587 resample.py get_mission_start_end():1145 [1] hs2 : 2006-11-27T21:47:49.845336832 to 2006-11-28T15:16:43.344097024 (0 days 00:00:00.139990272 before mission_end) INFO 2025-06-26 12:18:59,590 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-11-27T21:48:14.533645568 to 2006-11-28T15:16:43.434090752 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 12:18:59,593 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-11-27T21:48:05.204284672 to 2006-11-28T15:16:43.484087296 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:18:59,595 resample.py get_mission_start_end():1145 [1] isus : 2006-11-27T21:49:11.799722752 to 2006-11-28T15:16:43.144110592 (0 days 00:00:00.339976704 before mission_end) INFO 2025-06-26 12:18:59,597 resample.py get_mission_start_end():1145 [1] biolume : 2006-11-27T21:47:44.455671808 to 2006-11-28T15:16:42.194141440 (0 days 00:00:01.289945856 before mission_end) INFO 2025-06-26 12:18:59,599 resample.py get_mission_start_end():1145 [1] tailcone : 2006-11-27T21:47:43.935741696 to 2006-11-28T15:16:43.434090752 (0 days 00:00:00.049996544 before mission_end) INFO 2025-06-26 12:18:59,600 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_align.nc mission netCDF file INFO 2025-06-26 12:18:59,600 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,245 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,350 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,449 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,550 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,635 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,719 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,805 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,889 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:00,971 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,056 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,137 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,218 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,298 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,379 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,459 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,541 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,624 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,714 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,800 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,893 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:01,981 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,070 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,107 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,135 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,163 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,195 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,292 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:19:02,757 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_1S.nc INFO 2025-06-26 12:19:05,176 create_products.py gulper_odv():401 [1] No gulper times found for 2006.331.02 INFO 2025-06-26 12:19:05,176 process.py archive():337 [1] Archiving steps for 2006.331.02 INFO 2025-06-26 12:19:05,176 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02, BASE_PATH = /data/auv_data INFO 2025-06-26 12:19:05,178 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 12:19:05,180 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.331.02_1S.nc INFO 2025-06-26 12:19:05,222 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:19:05,223 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.331.02_cal.nc INFO 2025-06-26 12:19:05,471 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:19:05,471 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.331.02_align.nc INFO 2025-06-26 12:19:05,697 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:19:05,765 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:05,823 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:05,829 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:05,871 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,073 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,083 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,169 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,223 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,390 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006331/2006.331.02 done. INFO 2025-06-26 12:19:06,390 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:19:06,390 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.331.02/dorado_2006.331.02_processing.log /Volumes/AUVCTD/surveys/2006/netcdf