INFO 2025-06-26 11:35:57,461 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 11:35:57,462 process.py process_mission():434 [1] dorado_info[mission]["comment"] = AUVCTD mission - as part of MB06 - Chavez survey for MB06 to fill in spots where glider's aren't going - ctdToUse = ctd1 INFO 2025-06-26 11:35:57,462 process.py process_mission():449 [1] Processing AUVCTD mission 2006.220.00 by user docker_user on host eae60d30a712 INFO 2025-06-26 11:35:57,462 process.py download_process():165 [1] Download and processing steps for 2006.220.00 INFO 2025-06-26 11:35:57,462 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2006/2006220/2006.220.00 INFO 2025-06-26 11:35:57,462 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2006/2006220/2006.220.00 to /data/auv_data/dorado/missionlogs/2006.220.00 INFO 2025-06-26 11:36:04,496 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2006.220.00 INFO 2025-06-26 11:36:04,496 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/ctdDriver.log (24856875 bytes) INFO 2025-06-26 11:36:06,246 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.220.00/ctdDriver.log: [ 835 1011 5225 11981 16486 19012 24300 28912 60071 96682 126179 138416 160447 178760 221485 245315] INFO 2025-06-26 11:36:06,320 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/ctdDriver2.log (24856693 bytes) INFO 2025-06-26 11:36:08,105 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.220.00/ctdDriver2.log: [ 2707 5291 5570 6378 11141 43408 63838 99390 114921 115466 144551 149164 183286 190431 212918 220266 234487 250402] INFO 2025-06-26 11:36:08,192 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/gps.log (81068 bytes) INFO 2025-06-26 11:36:08,209 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/hydroscatlog.log (16945094 bytes) INFO 2025-06-26 11:36:10,214 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.220.00/hydroscatlog.log: [ 834 2388 4158 4398 5307 9449 11622 27468 32212 35154 35461 56784 93992 146446 215124 221462 239101 239585 251329] INFO 2025-06-26 11:36:10,268 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/navigation.log (83311666 bytes) INFO 2025-06-26 11:36:16,298 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/isuslog.log (1696245 bytes) INFO 2025-06-26 11:36:16,463 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.220.00/isuslog.log: [1 2 3 5 6 7 8 9] INFO 2025-06-26 11:36:16,468 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/parosci.log (36302390 bytes) INFO 2025-06-26 11:36:19,414 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2006.220.00/parosci.log: [ 16 17 18 56 288 289 363 364 635 1381 1497 1743 2588 2747 2975 3284 4112 4293 6427 6748 6749 6750 7824 9232 9233 10107 10829 11135 11157 11601 11800 12211 13840 15155 16241 19762 24286 24660 26264 28176 31120 31121 32272 32288 34064 36401 36402 43112 44332 48360 49019 56862 68462 73509 73510 74351 81777 81778 82699 82700 108535 117200 118101 123818 136557 141882 146613 148645 151952 160891 167638 204581 210171 213669 228850 228851 247062 248272 248920 251545 251546 258840 266495 266496 269004 285149 292752 298421 298422 307705 323259 329246 335653 337829 337872 337873 341327 369416 377672 379344 379345 386814 387083 392127 397176 409592 423035 454296 454297 456585 456586 465512 466725 466726 473051 478736 485829 485830 489933 489934 494688 494689 510417 510728 527589 554107 566810 570880 576217 579545 596689 600870 649736 670614 674128 685179 704106 715907] INFO 2025-06-26 11:36:19,515 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/tailCone.log (16937563 bytes) INFO 2025-06-26 11:36:21,612 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2006.220.00/biolume.log (19219116 bytes) INFO 2025-06-26 11:36:23,426 logs2netcdfs.py write_variables():575 [1] Expanding original timeTag to time60Hz variable for raw data INFO 2025-06-26 11:36:24,414 logs2netcdfs.py download_process_logs():807 [1] Time to process: 19.92 seconds WARNING 2025-06-26 11:36:24,414 process.py download_process():196 [1] No lopc.bin file for 2006.220.00 INFO 2025-06-26 11:36:24,414 process.py calibrate():227 [1] Calibration steps for 2006.220.00 INFO 2025-06-26 11:36:24,933 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 11:36:24,935 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 11:36:25,512 calibrate.py _nudge_pos():1806 [1] 70: 0.170 -0.0014571 0.0000069 3830 12.80 -16.815 0.100 2006-08-08T21:12:30.162834432 INFO 2025-06-26 11:36:26,085 calibrate.py _nudge_pos():1806 [1] 123: 0.170 -0.0037015 0.0029040 12961 43.23 -12.647 12.448 2006-08-08T21:56:36.161571072 INFO 2025-06-26 11:36:26,368 calibrate.py _nudge_pos():1806 [1] 150: 0.170 -0.0039217 0.0025752 12857 42.86 -13.518 11.133 2006-08-08T22:39:54.163596032 INFO 2025-06-26 11:36:26,496 calibrate.py _nudge_pos():1806 [1] 162: 0.170 -0.0000285 0.0000070 15 0.05 -90.102 27.826 2006-08-08T22:40:08.162636800 INFO 2025-06-26 11:36:26,849 calibrate.py _nudge_pos():1806 [1] 196: 0.180 -0.0045448 0.0028212 13980 46.61 -14.410 11.215 2006-08-08T23:27:18.158768896 INFO 2025-06-26 11:36:27,206 calibrate.py _nudge_pos():1806 [1] 230: 0.170 -0.0045604 0.0024214 12662 42.21 -15.971 10.629 2006-08-09T00:10:06.162848512 INFO 2025-06-26 11:36:27,355 calibrate.py _nudge_pos():1806 [1] 244: 0.180 -0.0001811 0.0000363 45 0.15 -182.584 45.904 2006-08-09T00:10:28.161341440 INFO 2025-06-26 11:36:27,501 calibrate.py _nudge_pos():1806 [1] 258: 0.170 -0.0037699 0.0017145 9713 32.38 -17.215 9.811 2006-08-09T00:43:05.167277312 INFO 2025-06-26 11:36:27,898 calibrate.py _nudge_pos():1806 [1] 296: 0.180 -0.0036314 -0.0001882 16466 54.90 -9.785 -0.635 2006-08-09T01:38:36.159088896 INFO 2025-06-26 11:36:28,300 calibrate.py _nudge_pos():1806 [1] 334: 0.190 -0.0032926 0.0005385 16071 53.58 -9.093 1.862 2006-08-09T02:32:48.166310912 INFO 2025-06-26 11:36:28,699 calibrate.py _nudge_pos():1806 [1] 371: 0.180 -0.0016372 0.0015436 8578 28.60 -8.473 10.002 2006-08-09T03:02:00.166290688 INFO 2025-06-26 11:36:28,874 calibrate.py _nudge_pos():1806 [1] 387: 0.190 -0.0000183 0.0000357 20 0.06 -42.676 104.348 2006-08-09T03:02:22.164783616 INFO 2025-06-26 11:36:29,118 calibrate.py _nudge_pos():1806 [1] 409: 0.180 -0.0029685 0.0014766 11549 38.50 -11.415 7.107 2006-08-09T03:41:13.165099264 INFO 2025-06-26 11:36:29,172 calibrate.py _nudge_pos():1806 [1] 414: 0.180 -0.0000557 0.0000232 40 0.13 -63.417 33.138 2006-08-09T03:41:25.164277248 INFO 2025-06-26 11:36:29,637 calibrate.py _nudge_pos():1806 [1] 457: 0.200 0.0004730 0.0021574 19121 63.74 1.099 6.271 2006-08-09T04:45:52.159369984 INFO 2025-06-26 11:36:29,649 calibrate.py _nudge_pos():1806 [1] 458: 0.190 -0.0000335 0.0000781 304 1.01 -4.908 14.320 2006-08-09T04:46:53.165190912 INFO 2025-06-26 11:36:30,044 calibrate.py _nudge_pos():1806 [1] 494: 0.180 0.0027292 0.0014038 12311 41.05 9.849 6.337 2006-08-09T05:28:31.164066304 INFO 2025-06-26 11:36:30,440 calibrate.py _nudge_pos():1806 [1] 530: 0.190 0.0049046 0.0008885 13769 45.90 15.832 3.587 2006-08-09T06:15:00.163006720 INFO 2025-06-26 11:36:30,768 calibrate.py _nudge_pos():1806 [1] 560: 0.200 0.0047930 -0.0000840 12813 42.71 16.630 -0.365 2006-08-09T06:58:12.165442560 INFO 2025-06-26 11:36:31,298 calibrate.py _nudge_pos():1806 [1] 608: 0.010 0.0065768 -0.0013408 13883 46.28 21.065 -5.368 2006-08-09T07:45:18.361834752 INFO 2025-06-26 11:36:31,710 calibrate.py _nudge_pos():1806 [1] 646: 0.200 0.0064265 -0.0019730 12053 40.18 23.717 -9.099 2006-08-09T08:26:06.164148736 INFO 2025-06-26 11:36:32,071 calibrate.py _nudge_pos():1806 [1] 678: 0.190 0.0056219 -0.0029669 12228 40.76 20.458 -13.488 2006-08-09T09:07:23.164462592 INFO 2025-06-26 11:36:32,462 calibrate.py _nudge_pos():1806 [1] 714: 0.200 0.0045994 -0.0035851 11797 39.33 17.351 -16.892 2006-08-09T09:47:18.160394240 INFO 2025-06-26 11:36:32,828 calibrate.py _nudge_pos():1806 [1] 748: 0.190 0.0018651 -0.0025352 6224 20.75 13.339 -22.644 2006-08-09T10:08:36.162844928 INFO 2025-06-26 11:36:33,192 calibrate.py _nudge_pos():1806 [1] 781: 0.190 0.0014421 -0.0036011 9078 30.26 7.073 -22.051 2006-08-09T10:39:24.166248192 INFO 2025-06-26 11:36:33,617 calibrate.py _nudge_pos():1806 [1] 820: 0.010 0.0008418 -0.0025339 17867 59.56 2.097 -7.883 2006-08-09T11:39:36.358795776 INFO 2025-06-26 11:36:34,047 calibrate.py _nudge_pos():1806 [1] 859: 0.010 0.0038423 -0.0045108 14987 49.96 11.407 -16.729 2006-08-09T12:30:12.360815616 INFO 2025-06-26 11:36:34,419 calibrate.py _nudge_pos():1806 [1] 893: 0.010 0.0006287 -0.0054716 17772 59.25 1.573 -17.112 2006-08-09T13:30:00.365020160 INFO 2025-06-26 11:36:34,940 calibrate.py _nudge_pos():1806 [1] 940: 0.010 -0.0027349 0.0022726 15008 50.03 -8.102 8.417 2006-08-09T14:20:48.366217984 INFO 2025-06-26 11:36:35,364 calibrate.py _nudge_pos():1806 [1] 978: 0.010 -0.0026231 0.0027792 11991 39.98 -9.722 12.881 2006-08-09T15:01:24.359341056 INFO 2025-06-26 11:36:35,854 calibrate.py _nudge_pos():1806 [1] 1022: 0.020 -0.0011417 0.0015241 6893 22.98 -7.361 12.290 2006-08-09T15:25:06.361927168 INFO 2025-06-26 11:36:36,359 calibrate.py _nudge_pos():1806 [1] 1067: 0.010 -0.0015337 0.0012852 6679 22.26 -10.205 10.697 2006-08-09T15:48:06.367390464 INFO 2025-06-26 11:36:36,746 calibrate.py _nudge_pos():1806 [1] 1102: 0.010 -0.0009771 -0.0007414 14109 47.03 -3.079 -2.921 2006-08-09T16:35:42.361741312 INFO 2025-06-26 11:36:36,876 calibrate.py _nudge_pos():1862 [1] 1093: - - - 1 0.00 - - INFO 2025-06-26 11:36:36,877 calibrate.py _nudge_pos():1868 [1] Points in final series = 352757 WARNING 2025-06-26 11:36:49,129 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 11.11 Hz INFO 2025-06-26 11:37:26,765 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 4 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:37:46,716 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:37:48,846 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 26 seconds, d_end_time_diff: 0 seconds INFO 2025-06-26 11:37:48,851 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2006.220.00/ctd1.nc INFO 2025-06-26 11:37:48,852 calibrate.py _range_qc_combined_nc():898 [1] Setting 24 ctd1_salinity values to NaN INFO 2025-06-26 11:37:48,853 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd1_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:37:48,853 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 11:38:04,456 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:38:06,573 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 26 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 11:38:06,578 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2006.220.00/ctd2.nc INFO 2025-06-26 11:38:06,579 calibrate.py _range_qc_combined_nc():898 [1] Setting 19 ctd2_salinity values to NaN INFO 2025-06-26 11:38:06,580 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('ctd2_salinity', Range(min=30, max=40))] INFO 2025-06-26 11:38:06,580 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 INFO 2025-06-26 11:38:09,100 calibrate.py _biolume_process():3128 [1] Checking for non-monotonic increasing time60hz INFO 2025-06-26 11:38:12,369 calibrate.py _biolume_process():3131 [1] Removing non-monotonic increasing time60hz at indices: [ 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 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3176521 3176522 3199320 3199321 3199322 3199323 3199324 3199325 3229140 3229141 3229142 3229143 3229144 3229145 3229146 3324240 3324241 3324242 3324243 3324244 3324245 3324246 3324247 3324248 3324249 3324250 3324251 3324252 3324253 3324254 3324255 3324256 3324257 3380460 3380461 3380462 3380463 3380464 3380465 3380466 3380467 3380468 3420720 3420721 3420722 3420723 3420724 3420725 3420726 3420727 3420728 3420729 3420730 3420731 3420732 3420733 3420734 3420735 3420736 3420737 3502680 3549480 3549481 3549482 3549483 3625980 3625981 3625982 3625983 3625984 3625985 3625986 3625987 3625988 3625989 3625990 3625991 3625992 3625993 3625994 3625995 3640980 3640981 3640982 3640983 3640984 3640985 3640986 3640987 3640988 3640989 3640990 3640991 3640992 3640993 3640994 3640995 3681720 3681721 3681722 3681723 3681724 3681725 3681726 3681727 3681728 3681729 3681730 3839340 3889980 3889981 3889982 3889983 3889984 3889985 3889986 3889987 3889988 3982980 3982981 3982982 3982983 3982984 3982985 3982986 3982987 3982988 3982989 3982990 3982991 3982992 3982993 3982994 3982995 4058940 4058941 4058942 4058943 4058944 4058945 4058946 4084980 4084981 4084982 4084983 4084984 4084985 4148100 4148101 4148102 4148103 4148104 4148105 4148106 4148107 4159320 4159321 4159322 4159323 4159324 4159325 4159326 4159327 4159328 4159329 4159330 4159331 4159332 4159333 4188240 4238580] INFO 2025-06-26 11:38:13,134 calibrate.py _geometric_depth_correction():3423 [1] biolume: d_beg_time_diff: -1 seconds, d_end_time_diff: -1 seconds ERROR 2025-06-26 11:38:13,141 calibrate.py process_logs():3548 [1] Error processing biolume: missing variable "No variable named 'avg_biolume'. Variables on the dataset include ['time', 'rrr', 'cal_striing', 'pump', 'flow', 'humidity', 'temperature', 'time60hz', 'raw']" ERROR 2025-06-26 11:38:13,143 calibrate.py process_logs():3542 [1] Error processing lopc: lopc has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.220.00 ERROR 2025-06-26 11:38:13,143 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2006.220.00 INFO 2025-06-26 11:38:13,484 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_cal.nc INFO 2025-06-26 11:38:35,440 calibrate.py write_netcdf():3512 [1] Data variables written: biolume_depth, biolume_flow, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_posx, navigation_posy, navigation_roll, navigation_time, navigation_yaw, nudged_latitude, nudged_longitude, tailcone_propRpm, tailcone_time, time INFO 2025-06-26 11:38:35,444 process.py align():251 [1] Alignment steps for 2006.220.00 INFO 2025-06-26 11:38:35,492 align.py process_cal():139 [1] Processing dorado_2006.220.00_cal.nc from /data/auv_data/dorado/missionnetcdfs/2006.220.00 INFO 2025-06-26 11:38:35,581 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:38:35,590 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:38:35,812 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:38:35,825 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:38:36,043 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:38:36,055 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:38:36,187 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 11:38:36,188 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 11:38:36,275 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 11:38:36,287 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:38:36,496 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:38:36,507 align.py process_cal():249 [1] hs2_bbp470: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:36,692 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:38:36,702 align.py process_cal():249 [1] hs2_bbp676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:36,889 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=0.1397, y=-0.2794) INFO 2025-06-26 11:38:36,900 align.py process_cal():249 [1] hs2_fl676: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:37,085 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:37,095 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:37,283 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:37,294 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:37,481 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:37,491 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:37,680 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:37,690 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:37,875 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:37,884 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:38,071 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:38,081 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:38,266 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:38,276 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:38,474 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:38,484 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:38,667 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:38,677 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:38,862 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:38,872 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:39,057 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:39,067 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:39,256 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:39,266 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:39,450 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:39,462 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:39,649 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:39,659 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:39,842 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:39,852 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:40,042 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:40,054 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:40,243 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2006.220.00_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=1.003, y=0.0001) INFO 2025-06-26 11:38:40,252 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 11:38:40,497 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:38:40,649 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:38:40,801 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.75 INFO 2025-06-26 11:38:40,961 align.py process_cal():249 [1] biolume_flow: instrument_sample_rate_hz = 1.00 INFO 2025-06-26 11:38:41,129 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 11:38:41,269 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_align.nc INFO 2025-06-26 11:38:41,433 align.py write_netcdf():342 [1] Data variables written: biolume_depth, biolume_flow, biolume_latitude, biolume_longitude, biolume_time, ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp470, hs2_bbp676, hs2_depth, hs2_fl676, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-06-26 11:38:41,435 process.py resample():273 [1] Resampling steps for 2006.220.00 INFO 2025-06-26 11:38:41,436 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 11:38:41,471 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_align.nc mission netCDF file INFO 2025-06-26 11:38:41,480 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_align.nc mission netCDF file INFO 2025-06-26 11:38:41,483 resample.py get_mission_start_end():1145 [1] navigation: 2006-08-08T20:58:55.058672896 to 2006-08-09T16:35:53.560974080 (0 days 00:00:00.039997440 before mission_end) INFO 2025-06-26 11:38:41,485 resample.py get_mission_start_end():1145 [1] hs2 : 2006-08-08T20:58:40.229688832 to 2006-08-09T16:35:53.460980992 (0 days 00:00:00.139990528 before mission_end) INFO 2025-06-26 11:38:41,488 resample.py get_mission_start_end():1145 [1] ctd1 : 2006-08-08T20:59:01.288246272 to 2006-08-09T16:35:53.600971520 (0 days 00:00:00 before mission_end) INFO 2025-06-26 11:38:41,491 resample.py get_mission_start_end():1145 [1] ctd2 : 2006-08-08T20:59:01.698217984 to 2006-08-09T16:35:53.540975616 (0 days 00:00:00.059995904 before mission_end) INFO 2025-06-26 11:38:41,492 resample.py get_mission_start_end():1145 [1] isus : 2006-08-08T20:59:35.475904256 to 2006-08-09T16:35:53.141003008 (0 days 00:00:00.459968512 before mission_end) INFO 2025-06-26 11:38:41,494 resample.py get_mission_start_end():1145 [1] biolume : 2006-08-08T20:58:34.740030464 to 2006-08-09T16:35:52.820990464 (0 days 00:00:00.779981056 before mission_end) INFO 2025-06-26 11:38:41,496 resample.py get_mission_start_end():1145 [1] tailcone : 2006-08-08T20:58:33.510149120 to 2006-08-09T16:35:53.460980992 (0 days 00:00:00.139990528 before mission_end) INFO 2025-06-26 11:38:41,497 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_align.nc mission netCDF file INFO 2025-06-26 11:38:41,498 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,210 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,327 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,439 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,552 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,649 resample.py resample_variable():1031 [1] Resampling hs2_bbp470 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,747 resample.py resample_variable():1031 [1] Resampling hs2_bbp676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,840 resample.py resample_variable():1031 [1] Resampling hs2_fl676 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:42,932 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,022 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,112 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,201 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,289 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,378 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,466 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,557 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,645 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,738 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,835 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:43,929 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,023 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,116 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,210 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,247 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,277 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,305 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,338 resample.py resample_variable():1031 [1] Resampling biolume_flow with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,457 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 11:38:44,957 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_1S.nc INFO 2025-06-26 11:38:47,468 create_products.py gulper_odv():401 [1] No gulper times found for 2006.220.00 INFO 2025-06-26 11:38:47,468 process.py archive():337 [1] Archiving steps for 2006.220.00 INFO 2025-06-26 11:38:47,469 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00, BASE_PATH = /data/auv_data INFO 2025-06-26 11:38:47,470 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00 files to /Volumes/AUVCTD/surveys/2006/netcdf INFO 2025-06-26 11:38:47,471 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.220.00_1S.nc INFO 2025-06-26 11:38:47,525 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_1S.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:38:47,526 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.220.00_cal.nc INFO 2025-06-26 11:38:47,856 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_cal.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:38:47,857 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2006/netcdf/dorado_2006.220.00_align.nc INFO 2025-06-26 11:38:48,153 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_align.nc /Volumes/AUVCTD/surveys/2006/netcdf done. INFO 2025-06-26 11:38:48,229 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,350 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,376 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/gps.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,428 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,659 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,670 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,783 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:48,841 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:49,022 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/biolume.nc /Volumes/AUVCTD/missionnetcdfs/2006/2006220/2006.220.00 done. INFO 2025-06-26 11:38:49,022 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 11:38:49,022 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2006.220.00/dorado_2006.220.00_processing.log /Volumes/AUVCTD/surveys/2006/netcdf