INFO 2025-06-26 11:58:31,553 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 11:58:31,553 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - out to between M1 & M2 - ctdToUse = ctd1 INFO 2025-06-26 11:58:31,553 process.py process_mission():449 [1] Processing AUVCTD mission 2006.264.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:58:31,553 process.py download_process():165 [1] Download and processing steps for 2006.264.00 INFO 2025-06-26 11:58:31,553 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006264/2006.264.00 INFO 2025-06-26 11:58:31,553 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006264/2006.264.00 to /data/auv_data/dorado/missionlogs/2006.264.00 INFO 2025-06-26 11:58:38,448 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.264.00 INFO 2025-06-26 11:58:38,448 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/ctdDriver.log (27769587 bytes) INFO 2025-06-26 11:58:40,596 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.264.00/ctdDriver.log: [ 360 546 2570 5094 8018 11969 30065 36335 49568 52792 54304 57799 62176 68992 116825 117075 124044 132078 134354 139582 154582 172964 177081 178273 197104 198678 202319 216988 229516 229586 231214 246840 252085 297084] INFO 2025-06-26 11:58:40,677 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/ctdDriver2.log (27769053 bytes) INFO 2025-06-26 11:58:42,659 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.264.00/ctdDriver2.log: [ 2467 4189 5088 8012 11963 30059 36329 44400 49562 52786 54298 62170 68986 87068 117070 118663 124039 134349 139577 154577 172959 177076 178268 184577 197662 198673 202314 203315 216982 229510 229580 231208 244580 245328 246834 252079 270965 285473 291184] INFO 2025-06-26 11:58:42,752 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/gps.log (330116 bytes) INFO 2025-06-26 11:58:42,794 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/hydroscatlog.log (18930014 bytes) INFO 2025-06-26 11:58:45,000 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.264.00/hydroscatlog.log: [ 68 104 123 510 638 645 1078 1493 1503 1523 1586 2425 2843 2979 4787 5072 5184 7301 7347 8755 11166 13134 14284 19628 22119 24393 27083 29541 41934 49460 60319 62238 73437 75350 75381 78570 78583 79206 80549 81933 86325 88991 96210 102393 117109 126211 126743 129133 137420 142383 145490 154597 157773 158748 159121 167849 176669 177083 178275 180466 181591 186441 190383 193653 198669 199579 209363 215444 215624 221482 222731 224085 225711 242683 244058 245300 259543 260755 260920 267039 269124 274534 282030 285379 285423 291094 293823 297393 301674 308040 315146] INFO 2025-06-26 11:58:45,059 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/navigation.log (93032742 bytes) INFO 2025-06-26 11:58:51,769 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/isuslog.log (1889589 bytes) INFO 2025-06-26 11:58:51,950 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.264.00/isuslog.log: [3 4 5 6 8] INFO 2025-06-26 11:58:51,956 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/parosci.log (40471814 bytes) INFO 2025-06-26 11:58:55,288 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.264.00/parosci.log: [ 14 16 17 18 251 282 348 636 845 846 976 1282 1382 1383 1724 1725 1741 1743 1923 1924 1933 2281 2462 2463 2512 2513 2514 2704 2747 2786 2787 2898 3020 3021 3662 4002 4027 4029 4283 4284 4340 5029 5030 5031 5977 5978 5986 6024 6417 6418 6488 6489 6860 7120 7121 7603 7604 7967 7969 8816 8817 8832 8936 8937 8939 9259 9616 9617 9618 11461 11840 13116 13117 13290 13353 14495 14496 15611 15612 15613 15628 17244 17245 19508 19510 19511 19806 19958 19959 20773 25937 29831 30079 32206 35089 37012 44641 44642 46144 46716 51230 51231 52816 53665 53666 61371 65168 69989 69990 72356 72357 74418 74664 74665 74666 74667 78928 78930 78931 79330 80536 82242 88070 88180 91440 97291 105665 108386 108388 118847 119067 122619 122620 122621 132168 132170 141248 145287 146282 146284 152667 152668 158245 161180 177242 184522 185552 193048 196250 201360 201361 201362 201870 201872 210000 210001 226412 226413 230126 230127 230128 234293 234294 238638 253691 253692 257104 272235 272236 276650 283812 295330 296613 296614 297381 297383 310239 317213 329242 339296 339297 341072 341073 341074 341075 348240 356133 362192 362194 366190 366191 366691 368016 368017 379341 380509 384763 388812 388813 388814 388815 393117 393118 393119 400934 405249 405704 418512 418513 424248 424249 429251 437563 437564 443250 448571 462250 472144 473865 473866 477561 477563 477990 482290 482292 485299 499119 499120 499121 500252 500253 508795 513325 513326 515835 515836 517536 526737 530942 530943 531686 531687 551102 553407 553408 557255 557256 559525 559526 560734 560735 560736 593467 593468 595251 595252 598869 598870 603216 603217 603218 612645 613508 615577 630796 633552 633553 646907 646908 646909 653584 669242 671266 676298 682780 690597 690599 696894 696895 718592 718593 719259 721700 721701 724066 734289 734290 739965 739967 744475 747264 747265 753751 753752 762030 762704 762706 766267 766268 773786 779379 779380 780422 780423 780425 793824 806254 806255 819176 819177 821669 823259 823260 837780 837781] INFO 2025-06-26 11:58:55,401 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/tailCone.log (18911227 bytes) INFO 2025-06-26 11:58:57,750 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.264.00/biolume.log (21470460 bytes) INFO 2025-06-26 11:58:59,901 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:59:01,078 logs2netcdfs.py download_process_logs():807 [1] Time to process: 22.63 seconds WARNING 2025-06-26 11:59:01,079 process.py download_process():196 [1] No lopc.bin file for 2006.264.00 INFO 2025-06-26 11:59:01,079 process.py calibrate():227 [1] Calibration steps for 2006.264.00 INFO 2025-06-26 11:59:01,725 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 11:59:01,728 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:59:02,434 calibrate.py _nudge_pos():1806 [1] 84: 0.100 -0.0007567 -0.0001282 1456 4.90 -22.913 -4.851 2006-09-21T14:45:53.701256192 INFO 2025-06-26 11:59:02,990 calibrate.py _nudge_pos():1806 [1] 138: 0.110 -0.0002749 0.0008283 5169 17.31 -2.354 8.865 2006-09-21T15:04:05.696449280 INFO 2025-06-26 11:59:03,452 calibrate.py _nudge_pos():1806 [1] 183: 0.120 -0.0004434 0.0010446 5562 18.56 -3.542 10.427 2006-09-21T15:23:23.697121024 INFO 2025-06-26 11:59:03,879 calibrate.py _nudge_pos():1806 [1] 224: 0.110 -0.0007269 0.0017235 11218 37.43 -2.880 8.532 2006-09-21T16:01:29.700518912 INFO 2025-06-26 11:59:04,315 calibrate.py _nudge_pos():1806 [1] 265: 0.120 -0.0064188 0.0018685 13709 45.73 -20.807 7.571 2006-09-21T16:47:53.699801856 INFO 2025-06-26 11:59:04,851 calibrate.py _nudge_pos():1806 [1] 317: 0.120 -0.0028982 0.0014990 8472 28.25 -15.206 9.833 2006-09-21T17:16:59.700192768 INFO 2025-06-26 11:59:05,199 calibrate.py _nudge_pos():1806 [1] 351: 0.130 -0.0025690 0.0010219 6641 22.15 -17.188 8.551 2006-09-21T17:39:41.696889600 INFO 2025-06-26 11:59:05,975 calibrate.py _nudge_pos():1806 [1] 427: 0.150 -0.0015971 0.0013789 6609 22.05 -10.736 11.589 2006-09-21T18:02:59.701119744 INFO 2025-06-26 11:59:05,996 calibrate.py _nudge_pos():1806 [1] 429: 0.130 -0.0000116 -0.0000221 75 0.25 -6.949 -16.607 2006-09-21T18:03:15.700023552 INFO 2025-06-26 11:59:06,467 calibrate.py _nudge_pos():1806 [1] 475: 0.160 -0.0020751 0.0020892 9618 32.08 -9.588 12.068 2006-09-21T18:36:05.705069056 INFO 2025-06-26 11:59:06,955 calibrate.py _nudge_pos():1806 [1] 522: 0.160 -0.0021533 0.0019298 9727 32.43 -9.843 11.027 2006-09-21T19:09:17.698608128 INFO 2025-06-26 11:59:07,314 calibrate.py _nudge_pos():1806 [1] 556: 0.170 -0.0064297 0.0012748 13705 45.71 -20.843 5.167 2006-09-21T19:55:35.698302208 INFO 2025-06-26 11:59:07,799 calibrate.py _nudge_pos():1806 [1] 602: 0.170 -0.0063383 0.0016507 13688 45.65 -20.569 6.701 2006-09-21T20:41:59.697585152 INFO 2025-06-26 11:59:08,176 calibrate.py _nudge_pos():1806 [1] 637: 0.160 -0.0016784 0.0009475 5477 18.26 -13.612 9.613 2006-09-21T21:00:49.700174848 INFO 2025-06-26 11:59:08,542 calibrate.py _nudge_pos():1806 [1] 672: 0.170 -0.0021636 0.0005708 4797 16.00 -20.030 6.612 2006-09-21T21:17:23.702081024 INFO 2025-06-26 11:59:09,129 calibrate.py _nudge_pos():1806 [1] 726: 0.160 -0.0016579 0.0008315 4924 16.41 -14.960 9.387 2006-09-21T21:34:41.700973056 INFO 2025-06-26 11:59:09,570 calibrate.py _nudge_pos():1806 [1] 768: 0.170 -0.0015825 0.0008268 4862 16.21 -14.458 9.449 2006-09-21T21:51:35.701509120 INFO 2025-06-26 11:59:09,983 calibrate.py _nudge_pos():1806 [1] 806: 0.180 -0.0038218 0.0023968 12589 41.98 -13.489 10.580 2006-09-21T22:34:11.696411648 INFO 2025-06-26 11:59:10,505 calibrate.py _nudge_pos():1806 [1] 855: 0.180 -0.0040549 0.0020087 13014 43.40 -13.849 8.577 2006-09-21T23:18:23.704736768 INFO 2025-06-26 11:59:11,105 calibrate.py _nudge_pos():1806 [1] 905: 0.180 -0.0063862 0.0013572 13610 45.38 -20.850 5.542 2006-09-22T00:04:35.704841728 INFO 2025-06-26 11:59:11,556 calibrate.py _nudge_pos():1806 [1] 947: 0.190 -0.0061143 0.0015154 13825 46.11 -19.637 6.089 2006-09-22T00:51:23.702480640 INFO 2025-06-26 11:59:11,995 calibrate.py _nudge_pos():1806 [1] 988: 0.190 -0.0019819 0.0009187 5977 19.93 -14.726 8.541 2006-09-22T01:11:59.697809152 INFO 2025-06-26 11:59:12,424 calibrate.py _nudge_pos():1806 [1] 1028: 0.190 -0.0020452 0.0005627 4634 15.45 -19.604 6.750 2006-09-22T01:28:05.701633536 INFO 2025-06-26 11:59:13,262 calibrate.py _nudge_pos():1806 [1] 1106: 0.200 -0.0017057 0.0002652 5759 19.21 -13.149 2.558 2006-09-22T01:48:35.697372928 INFO 2025-06-26 11:59:13,784 calibrate.py _nudge_pos():1806 [1] 1155: 0.200 -0.0017849 0.0003212 6029 20.10 -13.154 2.962 2006-09-22T02:09:29.701467648 INFO 2025-06-26 11:59:14,398 calibrate.py _nudge_pos():1806 [1] 1212: 0.010 -0.0042959 0.0009419 14262 47.56 -13.382 3.670 2006-09-22T02:57:59.902105344 INFO 2025-06-26 11:59:14,948 calibrate.py _nudge_pos():1806 [1] 1262: 0.010 -0.0045297 0.0006139 14355 47.88 -14.022 2.376 2006-09-22T03:46:41.901934592 INFO 2025-06-26 11:59:15,407 calibrate.py _nudge_pos():1806 [1] 1303: 0.010 -0.0041321 0.0024725 13982 46.63 -13.130 9.825 2006-09-22T04:33:59.897518592 INFO 2025-06-26 11:59:15,875 calibrate.py _nudge_pos():1806 [1] 1346: 0.030 -0.0034156 0.0022903 12622 42.10 -12.019 10.081 2006-09-22T05:16:47.901598208 INFO 2025-06-26 11:59:16,345 calibrate.py _nudge_pos():1806 [1] 1388: 0.030 -0.0009608 0.0008744 4955 16.51 -8.618 9.812 2006-09-22T05:33:59.900901632 INFO 2025-06-26 11:59:16,800 calibrate.py _nudge_pos():1806 [1] 1430: 0.020 -0.0013349 0.0008277 4622 15.41 -12.826 9.950 2006-09-22T05:50:05.904725504 INFO 2025-06-26 11:59:17,392 calibrate.py _nudge_pos():1806 [1] 1484: 0.030 -0.0018967 0.0004195 5852 19.51 -14.397 3.984 2006-09-22T06:10:29.900876288 INFO 2025-06-26 11:59:17,870 calibrate.py _nudge_pos():1806 [1] 1528: 0.040 -0.0015232 0.0002399 5003 16.68 -13.528 2.666 2006-09-22T06:27:53.899357440 INFO 2025-06-26 11:59:18,274 calibrate.py _nudge_pos():1806 [1] 1564: 0.050 -0.0043606 0.0010318 14339 47.81 -13.515 3.999 2006-09-22T07:16:17.900419840 INFO 2025-06-26 11:59:18,780 calibrate.py _nudge_pos():1806 [1] 1610: 0.040 -0.0045022 0.0007153 14798 49.35 -13.526 2.686 2006-09-22T08:06:23.904494336 INFO 2025-06-26 11:59:19,244 calibrate.py _nudge_pos():1806 [1] 1650: 0.040 -0.0019508 0.0020874 11469 38.25 -7.560 10.113 2006-09-22T08:45:17.904604416 INFO 2025-06-26 11:59:19,683 calibrate.py _nudge_pos():1806 [1] 1690: 0.060 -0.0013584 0.0015758 9039 30.15 -6.678 9.686 2006-09-22T09:16:05.898008064 INFO 2025-06-26 11:59:20,134 calibrate.py _nudge_pos():1806 [1] 1730: 0.060 -0.0008953 0.0010616 6131 20.45 -6.488 9.621 2006-09-22T09:37:11.901280768 INFO 2025-06-26 11:59:20,679 calibrate.py _nudge_pos():1806 [1] 1779: 0.060 -0.0025729 0.0009066 7888 26.30 -14.501 6.389 2006-09-22T10:04:17.899892224 INFO 2025-06-26 11:59:20,691 calibrate.py _nudge_pos():1806 [1] 1780: 0.060 -0.0000147 0.0000173 120 0.40 -5.484 8.064 2006-09-22T10:04:41.898248448 INFO 2025-06-26 11:59:21,174 calibrate.py _nudge_pos():1806 [1] 1823: 0.080 -0.0026635 0.0005574 9326 31.10 -12.697 3.321 2006-09-22T10:36:29.897541632 INFO 2025-06-26 11:59:21,713 calibrate.py _nudge_pos():1806 [1] 1871: 0.070 -0.0046073 0.0012162 14247 47.51 -14.380 4.743 2006-09-22T11:24:47.899014656 INFO 2025-06-26 11:59:22,269 calibrate.py _nudge_pos():1806 [1] 1920: 0.070 -0.0002856 0.0009546 7527 25.10 -1.687 7.048 2006-09-22T11:50:41.902558208 INFO 2025-06-26 11:59:52,776 calibrate.py _nudge_pos():1862 [1] 4550: - - - 2 0.00 - - INFO 2025-06-26 11:59:52,776 calibrate.py _nudge_pos():1868 [1] Points in final series = 394088 WARNING 2025-06-26 12:00:06,963 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 12:00:48,233 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 10 of 315394 INFO 2025-06-26 12:00:50,688 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 3 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:01:13,331 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:01:15,658 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:01:15,662 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.264.00/ctd1.nc INFO 2025-06-26 12:01:15,664 calibrate.py _range_qc_combined_nc():898 [1] Setting 144 ctd1_salinity values to NaN INFO 2025-06-26 12:01:15,664 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 12:01:15,664 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:01:33,097 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:01:35,761 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:01:35,766 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.264.00/ctd2.nc INFO 2025-06-26 12:01:35,768 calibrate.py _range_qc_combined_nc():898 [1] Setting 142 ctd2_salinity values to NaN INFO 2025-06-26 12:01:35,768 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 12:01:35,768 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 12:01:38,583 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 12:01:42,319 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 4705320 4705321 4705322] INFO 2025-06-26 12:01:43,117 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -2 seconds, d_end_time_diff: 0 seconds ERROR 2025-06-26 12:01:43,124 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 12:01:43,127 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.264.00 ERROR 2025-06-26 12:01:43,127 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.264.00 INFO 2025-06-26 12:01:43,425 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_cal.nc INFO 2025-06-26 12:02:07,622 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 12:02:07,627 process.py align():251 [1] Alignment steps for 2006.264.00 INFO 2025-06-26 12:02:07,675 align.py process_cal():139 [1] Processing dorado_2006.264.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.264.00 INFO 2025-06-26 12:02:07,775 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:02:07,784 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:02:08,034 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:02:08,049 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:02:08,285 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:02:08,299 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:02:08,445 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:02:08,446 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:02:08,542 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:02:08,555 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:02:08,794 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:02:08,806 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:09,010 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:02:09,021 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:09,228 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:02:09,239 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:09,445 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:09,456 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:09,665 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:09,676 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:09,880 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:09,891 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:10,100 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:10,111 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:10,314 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:10,325 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:10,544 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:10,555 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:10,760 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:10,771 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:10,981 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:10,992 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:11,198 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:11,209 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:11,427 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:11,437 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:11,642 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:11,654 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:11,860 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:11,871 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:12,079 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:12,093 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:12,301 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:12,313 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:12,521 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:12,532 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:12,743 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:12,755 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:12,962 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.264.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:02:12,972 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:02:13,245 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:02:13,416 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:02:13,591 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:02:13,767 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 12:02:13,955 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:02:14,114 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_align.nc INFO 2025-06-26 12:02:14,295 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 12:02:14,297 process.py resample():273 [1] Resampling steps for 2006.264.00 INFO 2025-06-26 12:02:14,298 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:02:14,335 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_align.nc mission netCDF file INFO 2025-06-26 12:02:14,345 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_align.nc mission netCDF file INFO 2025-06-26 12:02:14,347 resample.py get_mission_start_end():1145 [1] navigation: 2006-09-21T14:40:00.295466240 to 2006-09-22T12:34:54.300856576 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:02:14,350 resample.py get_mission_start_end():1145 [1] hs2 : 2006-09-21T14:39:43.826594304 to 2006-09-22T12:34:54.260859136 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 12:02:14,353 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-09-21T14:40:06.745024256 to 2006-09-22T12:34:54.240860672 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 12:02:14,355 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-09-21T14:40:08.234922240 to 2006-09-22T12:34:54.270858496 (0 days 00:00:00.029998080 before mission_end) INFO 2025-06-26 12:02:14,357 resample.py get_mission_start_end():1145 [1] isus : 2006-09-21T14:40:41.582637824 to 2006-09-22T12:34:53.880885248 (0 days 00:00:00.419971328 before mission_end) INFO 2025-06-26 12:02:14,359 resample.py get_mission_start_end():1145 [1] biolume : 2006-09-21T14:39:38.536922368 to 2006-09-22T12:34:53.750860032 (0 days 00:00:00.549996544 before mission_end) INFO 2025-06-26 12:02:14,362 resample.py get_mission_start_end():1145 [1] tailcone : 2006-09-21T14:39:38.946928384 to 2006-09-22T12:34:54.280858112 (0 days 00:00:00.019998464 before mission_end) INFO 2025-06-26 12:02:14,363 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_align.nc mission netCDF file INFO 2025-06-26 12:02:14,363 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,161 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,288 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,410 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,534 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,639 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,743 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,848 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:15,953 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,053 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,152 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,252 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,351 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,450 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,549 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,646 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,744 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,845 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:16,953 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,059 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,165 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,295 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,397 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,437 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,470 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,500 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,537 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:17,654 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:02:18,201 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_1S.nc INFO 2025-06-26 12:02:21,056 create_products.py gulper_odv():401 [1] No gulper times found for 2006.264.00 INFO 2025-06-26 12:02:21,057 process.py archive():337 [1] Archiving steps for 2006.264.00 INFO 2025-06-26 12:02:21,057 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00, BASE_PATH = /data/auv_data INFO 2025-06-26 12:02:21,058 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 12:02:21,059 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.264.00_1S.nc INFO 2025-06-26 12:02:21,114 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:02:21,115 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.264.00_cal.nc INFO 2025-06-26 12:02:21,401 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:02:21,402 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.264.00_align.nc INFO 2025-06-26 12:02:21,678 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:02:21,761 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:21,833 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:21,839 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:21,890 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,139 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,150 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,261 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,327 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,526 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006264/2006.264.00 done. INFO 2025-06-26 12:02:22,526 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:02:22,526 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.264.00/dorado_2006.264.00_processing.log /Volumes/AUVCTD/surveys/2006/netcdf