INFO 2025-06-26 12:10:20,022 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 12:10:20,022 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - out to M1 and back - ctdToUse = ctd1 INFO 2025-06-26 12:10:20,022 process.py process_mission():449 [1] Processing AUVCTD mission 2006.291.04 by user docker_user on host eae60d30a712 INFO 2025-06-26 12:10:20,022 process.py download_process():165 [1] Download and processing steps for 2006.291.04 INFO 2025-06-26 12:10:20,022 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006291/2006.291.04 INFO 2025-06-26 12:10:20,022 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006291/2006.291.04 to /data/auv_data/dorado/missionlogs/2006.291.04 INFO 2025-06-26 12:10:26,962 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.291.04 INFO 2025-06-26 12:10:26,962 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/ctdDriver.log (21915387 bytes) INFO 2025-06-26 12:10:28,562 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.291.04/ctdDriver.log: [ 133 154 668 1122 2084 2170 2711 3083 3243 3260 17709 18955 22019 23820 28892 30316 35791 70837 77920 80676 90319 97819 110447 112069 134013 144004 156955 157777 159714 164198 165283 183543 187769 210259 211264 224320 224914 225251 231206] INFO 2025-06-26 12:10:28,628 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/ctdDriver2.log (21926909 bytes) INFO 2025-06-26 12:10:30,258 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.291.04/ctdDriver2.log: [ 750 846 1553 3180 3357 3678 4422 5111 13765 16489 23480 29322 33006 35888 37921 49831 80771 88516 90418 98249 128199 157069 157890 164311 165396 172704 180386 187881 200198 210376 225031 225368 244755] INFO 2025-06-26 12:10:30,336 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/gps.log (317300 bytes) INFO 2025-06-26 12:10:30,380 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/hydroscatlog.log (14958674 bytes) INFO 2025-06-26 12:10:32,122 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.291.04/hydroscatlog.log: [ 4 5 6 8 9 39 56 59 91 277 569 634 726 922 944 996 1064 1296 1677 2075 2237 2329 2434 3345 4998 5215 5856 6675 8149 8172 8522 9912 11192 12061 12228 12904 13175 14761 17084 21291 24784 28419 33341 33909 37377 40790 42202 43027 43826 45528 52148 53776 57442 67684 68030 73962 74794 80886 81906 83971 84149 88629 90532 95560 96129 98028 101871 106706 106873 109839 110654 115992 117462 120525 131680 133824 137700 143269 144231 152157 157190 159566 159821 163515 165959 167234 173011 174317 176931 179812 188005 188829 188949 191236 195674 202781 203001 207186 210501 225498 231221 243665 244834 245441] INFO 2025-06-26 12:10:32,168 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/navigation.log (73500438 bytes) INFO 2025-06-26 12:10:37,648 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/isuslog.log (1496277 bytes) INFO 2025-06-26 12:10:37,794 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/parosci.log (32042678 bytes) INFO 2025-06-26 12:10:40,508 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.291.04/parosci.log: [ 1 2 3 5 7 12 16 17 37 39 41 42 74 161 204 332 333 985 1391 1743 1744 1745 1987 1988 2213 2280 2312 2314 2510 2511 2512 2569 2570 2571 2890 2891 2974 2975 3038 3039 3041 3661 4227 4228 4270 4271 4452 4655 4656 5221 5222 5585 5586 5886 6242 6243 6759 6760 6979 6980 7167 7168 7170 8802 8803 9226 9551 9552 12116 12126 13174 13691 13692 13963 14336 14353 14545 14546 17373 17374 17858 17859 17860 18958 19728 19729 19996 20364 20365 21038 21039 21040 21413 21414 21797 21798 21799 22796 26510 27718 29582 29584 29882 29883 30329 31617 31618 31648 32699 32700 35230 39470 39471 45420 45687 45688 47898 47900 49040 49042 49043 51229 58969 59426 59428 59517 59518 61541 61542 64248 64249 66277 66553 66900 67971 68014 71677 71678 71680 72562 72564 73553 73554 76027 76028 77851 77852 77853 78736 81673 82025 89214 89215 89217 90734 96318 96319 99872 99873 99875 100006 100508 100509 104981 104982 109127 109128 112901 112902 117243 117244 117246 121799 121800 121801 122014 122015 122126 122127 123997 123998 132294 139517 139518 143041 143883 144358 144359 149804 149805 153718 157830 157831 160933 160934 162010 165732 165733 169885 172925 181119 190109 190110 197902 200295 200297 204624 204625 204627 208379 209050 209959 209960 215755 216421 216422 224673 230789 236661 236663 238200 238201 248315 248316 248318 257250 257252 261589 262320 262321 262322 274337 274338 279591 279592 282419 285580 293983 293984 296159 296842 297819 297820 297821 300510 302516 302518 302519 310465 310466 314405 314406 318326 318327 320818 320819 322610 333461 333462 334909 334910 335696 339810 343495 352508 352509 352511 358257 361693 364405 364406 368652 369714 369715 379387 379388 382882 382883 383566 386148 386149 387743 387744 387745 390635 390637 402744 402745 402989 402990 405407 405408 407392 407394 408233 409680 409681 420876 420877 420878 423078 423079 423080 426592 426593 426595 427247 427248 428744 428745 432676 432677 444375 449092 457101 457102 463266 463267 466768 466769 481475 481477 481478 481526 483930 483931 485887 485888 492124 492771 492772 503452 503453 504938 504939 505654 505655 505976 510460 510461 510462 514615 514616 530414 530415 535149 536464 543044 543045 543633 543634 554149 554151 554152 554853 556004 561514 561515 561516 563733 563734 566426 575222 579285 579286 580182 580183 581150 581151 583813 583824 598985 598986 599295 601971 601972 602986 603696 603697 619835 619836 619837 623948 623949 624135 638256 638257 640078 640151 640152 640153 646126 646128 646563 646564 646565 652501 655627 662779 664058 667354] INFO 2025-06-26 12:10:40,597 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/tailCone.log (14937115 bytes) INFO 2025-06-26 12:10:42,446 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.291.04/biolume.log (16967500 bytes) INFO 2025-06-26 12:10:44,062 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 12:10:44,938 logs2netcdfs.py download_process_logs():807 [1] Time to process: 17.98 seconds WARNING 2025-06-26 12:10:44,938 process.py download_process():196 [1] No lopc.bin file for 2006.291.04 INFO 2025-06-26 12:10:44,938 process.py calibrate():227 [1] Calibration steps for 2006.291.04 INFO 2025-06-26 12:10:45,374 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 12:10:45,377 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 12:10:46,143 calibrate.py _nudge_pos():1806 [1] 89: 0.160 -0.0006088 0.0004780 4307 14.46 -6.249 6.124 2006-10-18T21:24:41.947960064 INFO 2025-06-26 12:10:46,904 calibrate.py _nudge_pos():1806 [1] 163: 0.170 0.0008731 0.0005331 9990 33.38 3.883 2.959 2006-10-18T21:59:17.945744640 INFO 2025-06-26 12:10:47,593 calibrate.py _nudge_pos():1806 [1] 228: 0.170 -0.0045903 0.0044272 13261 44.23 -15.410 18.548 2006-10-18T22:44:35.949548800 INFO 2025-06-26 12:10:48,170 calibrate.py _nudge_pos():1806 [1] 284: 0.180 -0.0066070 0.0030474 13122 43.78 -22.410 12.898 2006-10-18T23:29:17.945819392 INFO 2025-06-26 12:10:48,911 calibrate.py _nudge_pos():1806 [1] 356: 0.180 -0.0046146 0.0009233 8252 27.51 -24.909 6.218 2006-10-18T23:57:59.947854080 INFO 2025-06-26 12:10:49,656 calibrate.py _nudge_pos():1806 [1] 427: 0.190 -0.0025474 0.0057423 9905 33.03 -11.454 32.214 2006-10-19T00:32:11.947282432 INFO 2025-06-26 12:10:50,342 calibrate.py _nudge_pos():1806 [1] 491: 0.190 -0.0055356 0.0037132 15181 50.65 -16.234 13.586 2006-10-19T01:23:53.944781056 INFO 2025-06-26 12:10:51,076 calibrate.py _nudge_pos():1806 [1] 560: 0.010 -0.0115036 0.0021952 13363 44.56 -38.344 9.128 2006-10-19T02:09:36.146927360 INFO 2025-06-26 12:10:51,658 calibrate.py _nudge_pos():1806 [1] 614: 0.030 -0.0035236 0.0018554 13673 45.61 -11.476 7.538 2006-10-19T02:56:06.145799424 INFO 2025-06-26 12:10:52,246 calibrate.py _nudge_pos():1806 [1] 669: 0.020 -0.0042857 0.0039872 13399 44.70 -14.245 16.530 2006-10-19T03:41:42.148370176 INFO 2025-06-26 12:10:52,679 calibrate.py _nudge_pos():1806 [1] 709: 0.010 -0.0002903 -0.0003029 4062 13.55 -3.184 -4.143 2006-10-19T03:55:54.150004480 INFO 2025-06-26 12:10:53,307 calibrate.py _nudge_pos():1806 [1] 768: 0.010 0.0000866 -0.0000160 30 0.10 133.185 -30.689 2006-10-19T03:56:58.145620224 INFO 2025-06-26 12:10:53,329 calibrate.py _nudge_pos():1806 [1] 770: 0.030 0.0063610 0.0017746 16494 55.01 17.177 5.977 2006-10-19T04:52:00.149417472 INFO 2025-06-26 12:10:54,004 calibrate.py _nudge_pos():1806 [1] 833: 0.020 0.0048571 0.0029157 16566 55.25 13.059 9.779 2006-10-19T05:48:18.148008704 INFO 2025-06-26 12:10:54,635 calibrate.py _nudge_pos():1806 [1] 891: 0.030 0.0021551 0.0040385 16479 54.95 5.825 13.619 2006-10-19T06:44:12.148243968 INFO 2025-06-26 12:10:55,388 calibrate.py _nudge_pos():1806 [1] 960: 0.040 0.0015141 0.0016026 10988 36.66 6.134 8.100 2006-10-19T07:22:00.142875648 INFO 2025-06-26 12:10:56,063 calibrate.py _nudge_pos():1806 [1] 1022: 0.030 0.0000675 0.0012264 6023 20.08 0.499 11.318 2006-10-19T07:43:06.146148608 INFO 2025-06-26 12:10:56,774 calibrate.py _nudge_pos():1806 [1] 1087: 0.040 0.0029750 0.0024715 11550 38.53 11.466 11.886 2006-10-19T08:22:42.143381504 INFO 2025-06-26 12:10:57,464 calibrate.py _nudge_pos():1806 [1] 1150: 0.050 0.0021092 0.0020853 9975 33.26 9.416 11.617 2006-10-19T08:57:00.142398976 INFO 2025-06-26 12:10:58,141 calibrate.py _nudge_pos():1806 [1] 1207: 0.050 0.0014447 0.0022765 10844 36.16 5.932 11.665 2006-10-19T09:34:06.149907200 INFO 2025-06-26 12:10:58,756 calibrate.py _nudge_pos():1806 [1] 1263: 0.040 0.0016897 0.0017556 11388 37.98 6.605 8.565 2006-10-19T10:13:00.150017024 INFO 2025-06-26 12:10:59,370 calibrate.py _nudge_pos():1806 [1] 1318: 0.050 0.0020333 0.0021097 11540 38.50 7.841 10.155 2006-10-19T10:52:24.148072192 INFO 2025-06-26 12:11:00,020 calibrate.py _nudge_pos():1806 [1] 1375: 0.060 0.0016430 0.0020344 11027 36.76 6.634 10.254 2006-10-19T11:30:06.143114752 INFO 2025-06-26 12:11:00,660 calibrate.py _nudge_pos():1806 [1] 1433: 0.060 0.0024744 0.0013308 8977 29.95 12.264 8.235 2006-10-19T12:01:00.146106880 INFO 2025-06-26 12:11:01,180 calibrate.py _nudge_pos():1806 [1] 1480: 0.060 0.0014550 0.0004212 5045 16.83 12.832 4.637 2006-10-19T12:18:36.143766272 INFO 2025-06-26 12:11:01,789 calibrate.py _nudge_pos():1806 [1] 1534: 0.060 0.0027619 0.0011543 7830 26.11 15.697 8.191 2006-10-19T12:45:36.142788608 INFO 2025-06-26 12:11:02,398 calibrate.py _nudge_pos():1806 [1] 1589: 0.060 0.0021081 0.0020129 8633 28.80 10.863 12.953 2006-10-19T13:15:18.150712832 INFO 2025-06-26 12:11:03,083 calibrate.py _nudge_pos():1806 [1] 1652: 0.060 0.0012422 0.0008953 7808 26.03 7.081 6.373 2006-10-19T13:42:24.149324288 INFO 2025-06-26 12:11:33,236 calibrate.py _nudge_pos():1862 [1] 4374: - - - 3 0.01 - - INFO 2025-06-26 12:11:33,236 calibrate.py _nudge_pos():1868 [1] Points in final series = 311399 WARNING 2025-06-26 12:11:44,038 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 12:12:15,200 calibrate.py _hs2_process():2400 [1] Number of bad hs2 points: 1 of 249192 INFO 2025-06-26 12:12:17,143 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:12:34,855 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 54 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:12:36,689 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 54 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 12:12:36,693 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.291.04/ctd1.nc INFO 2025-06-26 12:12:36,694 calibrate.py _range_qc_combined_nc():898 [1] Setting 159 ctd1_salinity values to NaN INFO 2025-06-26 12:12:36,695 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 12:12:36,695 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 12:12:50,411 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 30 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:12:52,274 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 30 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 12:12:52,278 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.291.04/ctd2.nc INFO 2025-06-26 12:12:52,280 calibrate.py _range_qc_combined_nc():898 [1] Setting 169 ctd2_salinity values to NaN INFO 2025-06-26 12:12:52,280 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 12:12:52,280 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 12:12:52,370 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 12:12:55,364 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 ... 3722651 3722652 3722653] INFO 2025-06-26 12:12:56,017 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -3 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 12:12:56,024 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 12:12:56,028 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.291.04 ERROR 2025-06-26 12:12:56,028 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.291.04 INFO 2025-06-26 12:12:56,274 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_cal.nc INFO 2025-06-26 12:13:16,905 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 12:13:16,910 process.py align():251 [1] Alignment steps for 2006.291.04 INFO 2025-06-26 12:13:16,954 align.py process_cal():139 [1] Processing dorado_2006.291.04_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.291.04 INFO 2025-06-26 12:13:17,032 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:13:17,040 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:13:17,235 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:13:17,246 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:13:17,436 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:13:17,447 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:13:17,564 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 12:13:17,565 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 12:13:17,639 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 12:13:17,650 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 12:13:17,836 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:13:17,845 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,010 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:13:18,020 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,184 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 12:13:18,193 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,358 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:18,367 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,538 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:18,547 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,719 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:18,728 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:18,897 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:18,906 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,068 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,077 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,242 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,251 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,416 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,426 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,595 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,605 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,778 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,787 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:19,953 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:19,962 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:20,132 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:20,142 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:20,308 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:20,318 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:20,482 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:20,494 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:20,661 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:20,671 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:20,837 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:20,846 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:21,013 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:21,023 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:21,189 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.291.04_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 12:13:21,198 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 12:13:21,406 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:13:21,543 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:13:21,681 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 12:13:21,826 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 12:13:21,975 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.99 INFO 2025-06-26 12:13:22,100 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_align.nc INFO 2025-06-26 12:13:22,252 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 12:13:22,255 process.py resample():273 [1] Resampling steps for 2006.291.04 INFO 2025-06-26 12:13:22,255 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 12:13:22,289 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_align.nc mission netCDF file INFO 2025-06-26 12:13:22,298 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_align.nc mission netCDF file INFO 2025-06-26 12:13:22,300 resample.py get_mission_start_end():1145 [1] navigation: 2006-10-18T21:09:07.541971456 to 2006-10-19T14:28:06.751443200 (0 days 00:00:00.009999104 before mission_end) INFO 2025-06-26 12:13:22,303 resample.py get_mission_start_end():1145 [1] hs2 : 2006-10-18T21:08:53.542930432 to 2006-10-19T14:28:06.731444480 (0 days 00:00:00.029997824 before mission_end) INFO 2025-06-26 12:13:22,305 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-10-18T21:09:42.039608320 to 2006-10-19T14:28:06.761442304 (0 days 00:00:00 before mission_end) INFO 2025-06-26 12:13:22,307 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-10-18T21:09:18.121246720 to 2006-10-19T14:28:06.721445120 (0 days 00:00:00.039997184 before mission_end) INFO 2025-06-26 12:13:22,309 resample.py get_mission_start_end():1145 [1] isus : 2006-10-18T21:10:13.447456512 to 2006-10-19T14:28:05.611521280 (0 days 00:00:01.149921024 before mission_end) INFO 2025-06-26 12:13:22,311 resample.py get_mission_start_end():1145 [1] biolume : 2006-10-18T21:08:44.943485184 to 2006-10-19T14:28:05.341505280 (0 days 00:00:01.419937024 before mission_end) INFO 2025-06-26 12:13:22,313 resample.py get_mission_start_end():1145 [1] tailcone : 2006-10-18T21:08:46.253430016 to 2006-10-19T14:28:06.631451392 (0 days 00:00:00.129990912 before mission_end) INFO 2025-06-26 12:13:22,314 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_align.nc mission netCDF file INFO 2025-06-26 12:13:22,315 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:22,944 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,044 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,140 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,236 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,319 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,402 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,484 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,565 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,644 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,741 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,819 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,897 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:23,975 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,053 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,132 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,210 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,291 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,374 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,454 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,534 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,615 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,696 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,728 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,755 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,780 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,810 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:24,906 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 12:13:25,359 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_1S.nc INFO 2025-06-26 12:13:27,719 create_products.py gulper_odv():401 [1] No gulper times found for 2006.291.04 INFO 2025-06-26 12:13:27,719 process.py archive():337 [1] Archiving steps for 2006.291.04 INFO 2025-06-26 12:13:27,719 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04, BASE_PATH = /data/auv_data INFO 2025-06-26 12:13:27,722 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 12:13:27,723 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.291.04_1S.nc INFO 2025-06-26 12:13:27,767 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:13:27,768 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.291.04_cal.nc INFO 2025-06-26 12:13:28,014 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:13:28,015 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.291.04_align.nc INFO 2025-06-26 12:13:28,224 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 12:13:28,286 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,340 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,346 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,386 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,563 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,573 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,660 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,708 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,859 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006291/2006.291.04 done. INFO 2025-06-26 12:13:28,859 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 12:13:28,859 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.291.04/dorado_2006.291.04_processing.log /Volumes/AUVCTD/surveys/2006/netcdf