INFO 2025-10-20 23:03:08,336 process.py process_mission():429 [1] commandline = /src/data/process_i2map.py -v --noinput --start_year 2019 --end_year 2019 --start_yd 1 --end_yd 365 --num_cores 1 --clobber INFO 2025-10-20 23:03:08,337 process.py process_mission():449 [1] Processing i2map mission 2019.157.02 by user docker_user on host bc943cff5f21 INFO 2025-10-20 23:03:08,337 process.py download_process():165 [1] Download and processing steps for 2019.157.02 INFO 2025-10-20 23:03:08,337 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/M3/master/i2MAP/2019/06/20190606/2019.157.02 INFO 2025-10-20 23:03:08,337 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/M3/master/i2MAP/2019/06/20190606/2019.157.02 to /data/auv_data/i2map/missionlogs/2019.157.02 INFO 2025-10-20 23:03:10,107 logs2netcdfs.py download_process_logs():779 [1] Processing mission: i2map 2019.157.02 INFO 2025-10-20 23:03:10,108 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2019.157.02/gps.log (874652 bytes) INFO 2025-10-20 23:03:10,206 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2019.157.02/gps.log: [ 312 313 3556 5048 5049 8989] INFO 2025-10-20 23:03:10,209 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2019.157.02/navigation.log (148061324 bytes) INFO 2025-10-20 23:03:21,092 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2019.157.02/navigation.log: [ 10074 10075 10076 10077 10078 10079 10080 10081 10082 10083 10084 10085 10086 10087 10088 10089 23825 23826 23827 23828 23829 23830 23831 23832 23833 23834 37601 37602 37603 37604 37605 37606 37607 37608 37609 37610 51837 51838 51839 51840 51841 51842 51843 51844 51845 51846 65404 65405 65406 65407 65408 65409 65410 65411 65412 65413 65414 65415 84709 84710 84711 84712 84713 84714 84715 84716 84717 84718 97825 97826 97827 97828 97829 97830 97831 97832 97833 97834 97835 111401 111402 111403 111404 111405 111406 111407 111408 111409 111410 124952 124953 124954 124955 124956 124957 124958 124959 124960 124961 138458 138459 138460 138461 138462 138463 138464 138465 138466 138467 152694 152695 152696 152697 152698 152699 152700 152701 152702 152703 165675 165676 165677 165678 165679 165680 165681 165682 165683 165684 179226 179227 179228 179229 179230 179231 179232 179233 179234 179235 192867 192868 192869 192870 192871 192872 192873 192874 192875 192876 207113 207114 207115 207116 207117 207118 207119 207120 207121 207122 221309 221310 221311 221312 221313 221314 221315 221316 221317 221318 234990 234991 234992 234993 234994 234995 234996 234997 234998 234999 248056 248057 248058 248059 248060 248061 248062 248063 248064 248065 261602 261603 261604 261605 261606 261607 261608 261609 261610 261611 275948 275949 275950 275951 275952 275953 275954 275955 275956 275957 288574 288575 288576 288577 288578 288579 309885 309886 309887 309888 309889 309890 309891 309892 309893 309894 324061 324062 324063 324064 324065 324066 324067 324068 324069 324070 337897 337898 337899 337900 337901 337902 337903 337904 337905 337906 351443 351444 351445 351446 351447 351448 351449 351450 351451 351452 365729 365730 365731 365732 365733 365734 365735 365736 365737 365738 378670 378671 378672 378673 378674 378675 378676 378677 378678 378679 391993 391994 391995 391996 391997 391998 391999 392000 392001 392002 392003 392004 392005 417959 417960 417961 417962 417963] INFO 2025-10-20 23:03:21,854 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2019.157.02/parosci.log (41621318 bytes) INFO 2025-10-20 23:03:25,236 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2019.157.02/parosci.log: [ 20399 20400 20401 20402 20403 20404 20405 20406 20407 20408 20409 20410 20411 20412 20413 20414 20415 20416 20417 20418 20419 20420 20421 20422 20423 20424 20425 20426 20427 20428 20429 47770 47771 47772 47773 47774 47775 47776 47777 47778 47779 47780 47781 47782 47783 47784 47785 47786 47787 47788 47789 47790 75189 75190 75191 75192 75193 75194 75195 75196 75197 75198 75199 75200 75201 75202 75203 75204 75205 75206 75207 75208 75209 103523 103524 103525 103526 103527 103528 103529 103530 103531 103532 103533 103534 103535 103536 103537 103538 103539 103540 103541 103542 103543 130526 130527 130528 130529 130530 130531 130532 130533 130534 130535 130536 130537 130538 130539 130540 130541 130542 130543 130544 130545 130546 130547 130548 130549 168952 168953 168954 168955 168956 168957 168958 168959 168960 168961 168962 168963 168964 168965 168966 168967 168968 168969 168970 168971 168972 195058 195059 195060 195061 195062 195063 195064 195065 195066 195067 195068 195069 195070 195071 195072 195073 195074 195075 195076 195077 195078 222079 222080 222081 222082 222083 222084 222085 222086 222087 222088 222089 222090 222091 222092 222093 222094 222095 222096 222097 222098 222099 249050 249051 249052 249053 249054 249055 249056 249057 249058 249059 249060 249061 249062 249063 249064 249065 249066 249067 249068 249069 249070 275931 275932 275933 275934 275935 275936 275937 275938 275939 275940 275941 275942 275943 275944 275945 275946 275947 275948 275949 275950 275951 304267 304268 304269 304270 304271 304272 304273 304274 304275 304276 304277 304278 304279 304280 304281 304282 304283 304284 304285 304286 304287 330105 330106 330107 330108 330109 330110 330111 330112 330113 330114 330115 330116 330117 330118 330119 330120 330121 330122 330123 330124 330125 357076 357077 357078 357079 357080 357081 357082 357083 357084 357085 357086 357087 357088 357089 357090 357091 357092 357093 357094 357095 357096 384226 384227 384228 384229 384230 384231 384232 384233 384234 384235 384236 384237 384238 384239 384240 384241 384242 384243 384244 384245 384246 412579 412580 412581 412582 412583 412584 412585 412586 412587 412588 412589 412590 412591 412592 412593 412594 412595 412596 412597 412598 412599 440836 440837 440838 440839 440840 440841 440842 440843 440844 440845 440846 440847 440848 440849 440850 440851 440852 440853 440854 440855 440856 468067 468068 468069 468070 468071 468072 468073 468074 468075 468076 468077 468078 468079 468080 468081 468082 468083 468084 468085 468086 468087 494074 494075 494076 494077 494078 494079 494080 494081 494082 494083 494084 494085 494086 494087 494088 494089 494090 494091 494092 494093 494094 521037 521038 521039 521040 521041 521042 521043 521044 521045 521046 521047 521048 521049 521050 521051 521052 521053 521054 521055 521056 521057 549592 549593 549594 549595 549596 549597 549598 549599 549600 549601 549602 549603 549604 549605 549606 549607 549608 549609 549610 549611 549612 574725 574726 574727 574728 574729 574730 574731 574732 574733 574734 574735 574736 617144 617145 617146 617147 617148 617149 617150 617151 617152 617153 617154 617155 617156 617157 617158 617159 617160 617161 617162 617163 617164 645359 645360 645361 645362 645363 645364 645365 645366 645367 645368 645369 645370 645371 645372 645373 645374 645375 645376 645377 645378 645379 672898 672899 672900 672901 672902 672903 672904 672905 672906 672907 672908 672909 672910 672911 672912 672913 672914 672915 672916 672917 672918 699858 699859 699860 699861 699862 699863 699864 699865 699866 699867 699868 699869 699870 699871 699872 699873 699874 699875 699876 699877 699878 728294 728295 728296 728297 728298 728299 728300 728301 728302 728303 728304 728305 728306 728307 728308 728309 728310 728311 728312 728313 728314 754053 754054 754055 754056 754057 754058 754059 754060 754061 754062 754063 754064 754065 754066 754067 754068 754069 754070 754071 754072 754073 780572 780573 780574 780575 780576 780577 780578 780579 780580 780581 780582 780583 780584 780585 780586 780587 780588 780589 780590 780591 780592 780593 780594 780595 780596 780597 832166 832257 832258 832259 832260 832261 832262 832263 832264 832265 832266 832267] INFO 2025-10-20 23:03:25,345 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2019.157.02/seabird25p.log (4489090 bytes) INFO 2025-10-20 23:03:25,648 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2019.157.02/seabird25p.log: [ 1 16308 16309 16310 16311 16312 16313 16314 16315 16316 16317 16318 16319 16320 16321 16322 16323 16324 16325 16326 16327 16328 16329 16330 16331 16332] INFO 2025-10-20 23:03:25,664 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/i2map/missionlogs/2019.157.02/tailCone.log (20911531 bytes) INFO 2025-10-20 23:03:28,148 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/i2map/missionlogs/2019.157.02/tailCone.log: [ 10256 10257 10258 10259 10260 10261 10262 10263 10264 10265 10266 10267 10268 10269 10270 10271 24007 24008 24009 24010 24011 24012 24013 24014 24015 24016 37783 37784 37785 37786 37787 37788 37789 37790 37791 37792 52018 52019 52020 52021 52022 52023 52024 52025 52026 52027 65586 65587 65588 65589 65590 65591 65592 65593 65594 65595 65596 65597 84891 84892 84893 84894 84895 84896 84897 84898 84899 84900 98007 98008 98009 98010 98011 98012 98013 98014 98015 98016 111582 111583 111584 111585 111586 111587 111588 111589 111590 111591 125132 125133 125134 125135 125136 125137 125138 125139 125140 125141 125142 138638 138639 138640 138641 138642 138643 138644 138645 138646 138647 152874 152875 152876 152877 152878 152879 152880 152881 152882 152883 165855 165856 165857 165858 165859 165860 165861 165862 165863 165864 179406 179407 179408 179409 179410 179411 179412 179413 179414 179415 193047 193048 193049 193050 193051 193052 193053 193054 193055 193056 207293 207294 207295 207296 207297 207298 207299 207300 207301 207302 221489 221490 221491 221492 221493 221494 221495 221496 221497 221498 221499 235170 235171 235172 235173 235174 235175 235176 235177 235178 235179 235180 248236 248237 248238 248239 248240 248241 248242 248243 248244 248245 261782 261783 261784 261785 261786 261787 261788 261789 261790 261791 276128 276129 276130 276131 276132 276133 276134 276135 276136 276137 288755 288756 288757 288758 288759 288760 310066 310067 310068 310069 310070 310071 310072 310073 310074 310075 324242 324243 324244 324245 324246 324247 324248 324249 324250 324251 338078 338079 338080 338081 338082 338083 338084 338085 338086 338087 351624 351625 351626 351627 351628 351629 351630 351631 351632 351633 365909 365910 365911 365912 365913 365914 365915 365916 365917 365918 365919 378850 378851 378852 378853 378854 378855 378856 378857 378858 378859 392173 392174 392175 392176 392177 392178 392179 392180 392181 392182 392183 392184 392185 418094 418139 418140 418141 418142 418143] INFO 2025-10-20 23:03:28,187 logs2netcdfs.py download_process_logs():807 [1] Time to process: 18.08 seconds INFO 2025-10-20 23:03:28,187 process.py calibrate():227 [1] Calibration steps for 2019.157.02 INFO 2025-10-20 23:04:37,589 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 2025-10-20 23:04:37,591 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-10-20 23:04:39,353 calibrate.py _nudge_pos():1806 [1] 198: 0.030 -0.0056300 -0.0165649 64004 213.48 -3.919 -14.378 2019-06-06T18:47:19.542330368 INFO 2025-10-20 23:04:42,919 calibrate.py _nudge_pos():1806 [1] 531: 0.100 -0.0005912 0.0006083 6260 20.87 -4.210 5.402 2019-06-06T19:13:43.275456512 INFO 2025-10-20 23:04:45,540 calibrate.py _nudge_pos():1806 [1] 770: 0.020 -0.0004417 -0.0011431 6335 21.11 -3.108 -10.033 2019-06-06T19:38:48.472343552 INFO 2025-10-20 23:04:46,777 calibrate.py _nudge_pos():1806 [1] 886: 0.040 -0.0092594 -0.0153730 56154 187.30 -7.347 -15.209 2019-06-06T22:48:01.504663808 INFO 2025-10-20 23:04:47,414 calibrate.py _nudge_pos():1806 [1] 943: 0.120 0.0007614 -0.0030835 6311 21.06 5.372 -27.127 2019-06-06T23:10:01.309282048 INFO 2025-10-20 23:04:48,180 calibrate.py _nudge_pos():1806 [1] 1013: 0.010 0.0006990 -0.0030209 6291 20.97 4.953 -26.698 2019-06-06T23:32:08.508362496 INFO 2025-10-20 23:04:48,888 calibrate.py _nudge_pos():1806 [1] 1076: 0.040 -0.0073531 -0.0158370 57149 190.64 -5.732 -15.393 2019-06-07T02:43:49.331071488 INFO 2025-10-20 23:04:49,662 calibrate.py _nudge_pos():1806 [1] 1144: 0.110 -0.0015688 -0.0027095 6315 21.05 -11.077 -23.855 2019-06-07T03:05:59.329960704 INFO 2025-10-20 23:04:51,425 calibrate.py _nudge_pos():1806 [1] 1301: 0.030 -0.0015261 -0.0022249 6285 20.98 -10.810 -19.653 2019-06-07T03:29:34.337510912 INFO 2025-10-20 23:04:52,885 calibrate.py _nudge_pos():1806 [1] 1429: 0.120 -0.0000567 0.0000034 16 0.05 -168.579 12.549 2019-06-07T03:31:44.338604800 INFO 2025-10-20 23:04:52,975 calibrate.py _nudge_pos():1806 [1] 1437: 0.080 -0.0006956 -0.0013121 2830 9.43 -10.960 -25.783 2019-06-07T03:41:17.339351808 INFO 2025-10-20 23:04:53,438 calibrate.py _nudge_pos():1806 [1] 1478: 0.110 -0.0003406 -0.0006104 875 2.91 -17.373 -38.827 2019-06-07T03:44:52.334623488 INFO 2025-10-20 23:04:54,216 calibrate.py _nudge_pos():1806 [1] 1547: 0.110 -0.0002057 -0.0003120 775 2.58 -11.845 -22.408 2019-06-07T03:48:35.339346688 INFO 2025-10-20 23:04:55,332 calibrate.py _nudge_pos():1806 [1] 1646: 0.020 -0.0019386 -0.0023659 42203 140.76 -2.046 -3.114 2019-06-07T06:10:59.356052480 INFO 2025-10-20 23:04:56,760 calibrate.py _nudge_pos():1806 [1] 1768: 0.060 -0.0017682 -0.0009191 3874 12.91 -20.350 -13.192 2019-06-07T06:25:55.364671488 INFO 2025-10-20 23:04:59,797 calibrate.py _nudge_pos():1806 [1] 2036: 0.020 -0.0014113 -0.0002314 1860 6.23 -33.674 -6.886 2019-06-07T06:36:36.367299840 INFO 2025-10-20 23:05:01,292 calibrate.py _nudge_pos():1806 [1] 2168: 0.030 -0.0008111 -0.0005440 1490 4.96 -24.279 -20.310 2019-06-07T06:43:46.367842560 INFO 2025-10-20 23:05:07,072 calibrate.py _nudge_pos():1806 [1] 2657: 0.180 -0.0010255 -0.0005582 1850 6.16 -24.721 -16.781 2019-06-07T06:58:04.369065472 INFO 2025-10-20 23:05:20,785 calibrate.py _nudge_pos():1806 [1] 3773: 0.090 -0.0006959 -0.0004812 914 3.04 -33.974 -29.297 2019-06-07T07:19:43.933013760 INFO 2025-10-20 23:05:21,509 calibrate.py _nudge_pos():1806 [1] 3836: 0.140 -0.0005462 -0.0003470 975 3.25 -24.996 -19.804 2019-06-07T07:24:01.925340160 INFO 2025-10-20 23:05:23,232 calibrate.py _nudge_pos():1806 [1] 3982: 0.180 -0.0060712 -0.0104313 60819 202.85 -4.448 -9.529 2019-06-07T10:49:19.292852224 INFO 2025-10-20 23:05:24,020 calibrate.py _nudge_pos():1806 [1] 4050: 0.190 -0.0037521 0.0005907 6295 20.98 -26.572 5.217 2019-06-07T11:11:25.292014848 INFO 2025-10-20 23:05:24,676 calibrate.py _nudge_pos():1806 [1] 4107: 0.140 -0.0034356 0.0008253 20606 68.74 -7.424 2.225 2019-06-07T12:21:07.308535040 INFO 2025-10-20 23:05:25,143 calibrate.py _nudge_pos():1806 [1] 4147: 0.060 -0.0012106 0.0007316 6296 20.98 -8.569 6.461 2019-06-07T12:42:45.299616768 INFO 2025-10-20 23:06:08,780 calibrate.py _nudge_pos():1806 [1] 7868: 0.110 0.0001823 0.0006257 6265 20.88 1.297 5.553 2019-06-07T14:05:38.271441152 INFO 2025-10-20 23:06:28,274 calibrate.py _nudge_pos():1806 [1] 9387: 0.140 0.0002359 -0.0000707 405 1.35 26.020 -9.729 2019-06-07T14:32:17.107726848 INFO 2025-10-20 23:06:52,299 calibrate.py _nudge_pos():1806 [1] 11277: 0.040 0.0000363 -0.0000034 16 0.05 107.866 -12.631 2019-06-07T15:03:49.308102400 INFO 2025-10-20 23:06:52,325 calibrate.py _nudge_pos():1806 [1] 11279: 0.050 0.0000201 0.0000247 30 0.10 30.904 47.371 2019-06-07T15:03:56.307622912 INFO 2025-10-20 23:06:54,854 calibrate.py _nudge_pos():1806 [1] 11484: 0.080 0.0001203 -0.0001612 1340 4.46 4.002 -6.694 2019-06-07T15:11:48.315288064 INFO 2025-10-20 23:07:02,874 calibrate.py _nudge_pos():1862 [1] 12093: - - - 1 0.00 - - INFO 2025-10-20 23:07:02,874 calibrate.py _nudge_pos():1868 [1] Points in final series = 434668 INFO 2025-10-20 23:07:20,920 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 2935 on port side INFO 2025-10-20 23:07:20,922 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "2935" INFO 2025-10-20 23:07:21,148 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2014_Nov 2021_Mar 2022_Apr WARNING 2025-10-20 23:07:21,153 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2014_Nov INFO 2025-10-20 23:07:21,153 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} WARNING 2025-10-20 23:07:21,157 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2021_Mar INFO 2025-10-20 23:07:21,157 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} WARNING 2025-10-20 23:07:21,161 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2022_Apr INFO 2025-10-20 23:07:21,161 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} INFO 2025-10-20 23:07:21,171 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2022_Apr/Oxygen_SBE43_2935.xml has CalibrationDate 2022-03-22 00:00:00+00:00 INFO 2025-10-20 23:07:21,171 calibrate.py _read_oxy_coeffs():1253 [1] Breaking from loop as /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2022_Apr/Oxygen_SBE43_2935.xml is after 2019.157.02 with mission_start=2019-06-06T15:10:47.523816704 INFO 2025-10-20 23:07:21,171 calibrate.py _read_oxy_coeffs():1270 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2022_Apr/Oxygen_SBE43_2935.xml is the first calibration file, but is after 2019.157.02 with mission_start=2019-06-06T15:10:47.523816704 INFO 2025-10-20 23:07:21,918 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_port: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/2935/2022_Apr/Oxygen_SBE43_2935.xml file: {'Soc': 0.42595, 'offset': -0.5339, 'A': -0.0041113, 'B': 0.00020802, 'C': -3.0027e-06, 'D0': 2.5826, 'D1': 0.000192634, 'D2': -0.0464803, 'E': 0.036, 'Tau20': 1.09, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0} INFO 2025-10-20 23:07:21,922 calibrate.py _read_oxy_coeffs():1189 [1] Looking for calibration file for O2 sensor serial number 3488 on stbd side INFO 2025-10-20 23:07:21,922 calibrate.py _read_oxy_coeffs():1219 [1] Executing: find "/Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files" -name "3488" INFO 2025-10-20 23:07:22,093 calibrate.py _read_oxy_coeffs():1238 [1] Found calibration date dirs: 2016_dec 2021_mar 2022_Jan WARNING 2025-10-20 23:07:22,098 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2016_dec INFO 2025-10-20 23:07:22,098 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} WARNING 2025-10-20 23:07:22,103 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2021_mar INFO 2025-10-20 23:07:22,103 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} WARNING 2025-10-20 23:07:22,107 calibrate.py _cal_date_xml_files():1081 [1] Found 4 xml files in /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2022_Jan INFO 2025-10-20 23:07:22,107 calibrate.py _cal_date_xml_files():1087 [1] {xml_files} INFO 2025-10-20 23:07:22,113 calibrate.py _read_oxy_coeffs():1247 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2016_dec/43-3488.xml has CalibrationDate 2016-12-16 00:00:00+00:00 INFO 2025-10-20 23:07:22,113 calibrate.py _read_oxy_coeffs():1263 [1] File /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2016_dec/43-3488.xml is just before 2019.157.02 with mission_start=2019-06-06T15:10:47.523816704 INFO 2025-10-20 23:07:22,918 calibrate.py _calibrated_oxygen():2513 [1] dissolvedO2_stbd: parsed from /Volumes/DMO/MDUC_CORE_CTD_200103/Calibration Files/SBE-43/3488/2016_dec/43-3488.xml file: {'Soc': 0.44664, 'offset': -0.507, 'A': -0.0030812, 'B': 7.8442e-05, 'C': -9.0601e-07, 'D0': 2.5826, 'D1': 0.000192634, 'D2': -0.0464803, 'E': 0.036, 'Tau20': 1.44, 'H1': -0.033, 'H2': 5000.0, 'H3': 1450.0} INFO 2025-10-20 23:07:23,961 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 9 seconds, d_end_time_diff: -82434 seconds INFO 2025-10-20 23:07:24,337 calibrate.py _geometric_depth_correction():3423 [1] seabird25p: d_beg_time_diff: 9 seconds, d_end_time_diff: -82434 seconds INFO 2025-10-20 23:07:24,339 calibrate.py _ctd_process():2919 [1] Performing range checking of ['seabird25p_salinity'] in 2019.157.02/seabird25p.nc INFO 2025-10-20 23:07:24,340 calibrate.py _range_qc_combined_nc():898 [1] Setting 28 seabird25p_salinity values to NaN INFO 2025-10-20 23:07:24,340 calibrate.py _range_qc_combined_nc():910 [1] Checked for data outside of these variables and ranges: [('seabird25p_salinity', Range(min=30, max=40))] INFO 2025-10-20 23:07:24,340 calibrate.py _range_qc_combined_nc():936 [1] Done range checking seabird25p INFO 2025-10-20 23:07:32,575 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_cal.nc INFO 2025-10-20 23:07:35,330 calibrate.py write_netcdf():3512 [1] Data variables written: depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_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, seabird25p_beam_transmittance, seabird25p_conductivity, seabird25p_conductivity_onboard, seabird25p_depth, seabird25p_dissolvedO2_port, seabird25p_dissolvedO2_stbd, seabird25p_oxygen_mll_port, seabird25p_oxygen_mll_stbd, seabird25p_oxygen_umolkg_port, seabird25p_oxygen_umolkg_stbd, seabird25p_salinity, seabird25p_salinity_onboard, seabird25p_temperature, seabird25p_temperature_onboard, seabird25p_time, tailcone_propRpm, tailcone_time, time INFO 2025-10-20 23:07:35,337 process.py align():251 [1] Alignment steps for 2019.157.02 INFO 2025-10-20 23:07:35,373 align.py process_cal():139 [1] Processing i2map_2019.157.02_cal.nc from /data/auv_data/i2map/missionnetcdfs/2019.157.02 INFO 2025-10-20 23:07:35,483 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-10-20 23:07:35,493 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-10-20 23:07:35,799 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-10-20 23:07:35,820 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-10-20 23:07:36,085 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-10-20 23:07:36,100 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-10-20 23:07:36,271 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-10-20 23:07:36,271 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-10-20 23:07:36,401 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-10-20 23:07:36,419 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-10-20 23:07:36,654 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:36,660 align.py process_cal():249 [1] seabird25p_temperature: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:36,754 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:36,757 align.py process_cal():249 [1] seabird25p_conductivity: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:36,851 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:36,855 align.py process_cal():249 [1] seabird25p_salinity: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:36,948 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:36,951 align.py process_cal():249 [1] seabird25p_temperature_onboard: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,047 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,050 align.py process_cal():249 [1] seabird25p_conductivity_onboard: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,148 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,152 align.py process_cal():249 [1] seabird25p_salinity_onboard: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,247 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,250 align.py process_cal():249 [1] seabird25p_dissolvedO2_port: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,345 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,349 align.py process_cal():249 [1] seabird25p_oxygen_mll_port: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,442 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,446 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_port: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,538 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,541 align.py process_cal():249 [1] seabird25p_dissolvedO2_stbd: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,637 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,640 align.py process_cal():249 [1] seabird25p_oxygen_mll_stbd: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,732 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,736 align.py process_cal():249 [1] seabird25p_oxygen_umolkg_stbd: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,830 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,834 align.py process_cal():249 [1] seabird25p_beam_transmittance: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:37,929 align.py process_cal():206 [1] Using pitch corrected seabird25p_depth: Variable depth_filtdepth from i2map_2019.157.02_cal.nc linearly interpolated to seabird25p_time and corrected for pitch using SensorOffset(x=4.04, y=0.0) INFO 2025-10-20 23:07:37,931 align.py process_cal():249 [1] seabird25p_depth: instrument_sample_rate_hz = 7.99 INFO 2025-10-20 23:07:38,109 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 5.00 INFO 2025-10-20 23:07:38,294 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_align.nc INFO 2025-10-20 23:07:38,380 align.py write_netcdf():342 [1] Data variables written: navigation_depth, navigation_latitude, navigation_longitude, navigation_mWaterSpeed, navigation_pitch, navigation_roll, navigation_time, navigation_yaw, seabird25p_beam_transmittance, seabird25p_conductivity, seabird25p_conductivity_onboard, seabird25p_depth, seabird25p_dissolvedO2_port, seabird25p_dissolvedO2_stbd, seabird25p_latitude, seabird25p_longitude, seabird25p_oxygen_mll_port, seabird25p_oxygen_mll_stbd, seabird25p_oxygen_umolkg_port, seabird25p_oxygen_umolkg_stbd, seabird25p_salinity, seabird25p_salinity_onboard, seabird25p_temperature, seabird25p_temperature_onboard, seabird25p_time, tailcone_depth, tailcone_latitude, tailcone_longitude, tailcone_propRpm, tailcone_time INFO 2025-10-20 23:07:38,381 process.py resample():273 [1] Resampling steps for 2019.157.02 INFO 2025-10-20 23:07:38,382 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-10-20 23:07:38,403 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_align.nc mission netCDF file INFO 2025-10-20 23:07:38,410 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_align.nc mission netCDF file INFO 2025-10-20 23:07:38,412 resample.py get_mission_start_end():1145 [1] navigation: 2019-06-06T15:11:12.552102144 to 2019-06-07T15:22:39.310691840 (0 days 00:00:00 before mission_end) INFO 2025-10-20 23:07:38,414 resample.py get_mission_start_end():1145 [1] seabird25p: 2019-06-06T15:10:47.523816704 to 2019-06-06T16:28:45.689716736 (0 days 22:53:53.620975104 before mission_end) WARNING 2025-10-20 23:07:38,415 resample.py get_mission_start_end():1156 [1] Instrument seabird25p has a gap > 5 minutes at the end of the mission: 0 days 22:53:53.620975104 INFO 2025-10-20 23:07:38,419 resample.py get_mission_start_end():1145 [1] tailcone : 2019-06-06T15:10:36.104599040 to 2019-06-07T15:22:39.220697856 (0 days 00:00:00.089993984 before mission_end) INFO 2025-10-20 23:07:38,420 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_align.nc mission netCDF file INFO 2025-10-20 23:07:38,420 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,324 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,447 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,600 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,728 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,760 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,760 resample.py resample_variable():1038 [1] Padding seabird25p_temperature with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,786 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,787 resample.py resample_variable():1038 [1] Padding seabird25p_conductivity with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,809 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,809 resample.py resample_variable():1038 [1] Padding seabird25p_salinity with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,833 resample.py resample_variable():1031 [1] Resampling seabird25p_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,833 resample.py resample_variable():1038 [1] Padding seabird25p_temperature_onboard with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,856 resample.py resample_variable():1031 [1] Resampling seabird25p_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,856 resample.py resample_variable():1038 [1] Padding seabird25p_conductivity_onboard with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,879 resample.py resample_variable():1031 [1] Resampling seabird25p_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,879 resample.py resample_variable():1038 [1] Padding seabird25p_salinity_onboard with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,902 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_port with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,902 resample.py resample_variable():1038 [1] Padding seabird25p_dissolvedO2_port with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,924 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_port with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,924 resample.py resample_variable():1038 [1] Padding seabird25p_oxygen_mll_port with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,947 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_port with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,947 resample.py resample_variable():1038 [1] Padding seabird25p_oxygen_umolkg_port with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,971 resample.py resample_variable():1031 [1] Resampling seabird25p_dissolvedO2_stbd with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,972 resample.py resample_variable():1038 [1] Padding seabird25p_dissolvedO2_stbd with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:39,995 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_mll_stbd with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:39,995 resample.py resample_variable():1038 [1] Padding seabird25p_oxygen_mll_stbd with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:40,020 resample.py resample_variable():1031 [1] Resampling seabird25p_oxygen_umolkg_stbd with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:40,020 resample.py resample_variable():1038 [1] Padding seabird25p_oxygen_umolkg_stbd with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:40,042 resample.py resample_variable():1031 [1] Resampling seabird25p_beam_transmittance with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:40,043 resample.py resample_variable():1038 [1] Padding seabird25p_beam_transmittance with 0 days 22:53:53.620975104 of NaNs to the end of mission INFO 2025-10-20 23:07:40,163 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-10-20 23:07:40,712 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_1S.nc INFO 2025-10-20 23:07:40,713 process.py archive():337 [1] Archiving steps for 2019.157.02 INFO 2025-10-20 23:07:40,713 process.py archive():347 [1] nc_file_base = /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02, BASE_PATH = /data/auv_data INFO 2025-10-20 23:07:40,715 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02 files to /Volumes/AUVCTD/surveys/2019/netcdf INFO 2025-10-20 23:07:40,716 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2019/netcdf/i2map_2019.157.02_1S.nc INFO 2025-10-20 23:07:40,762 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_1S.nc /Volumes/AUVCTD/surveys/2019/netcdf done. INFO 2025-10-20 23:07:40,763 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2019/netcdf/i2map_2019.157.02_cal.nc INFO 2025-10-20 23:07:40,959 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_cal.nc /Volumes/AUVCTD/surveys/2019/netcdf done. INFO 2025-10-20 23:07:40,960 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2019/netcdf/i2map_2019.157.02_align.nc INFO 2025-10-20 23:07:41,087 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_align.nc /Volumes/AUVCTD/surveys/2019/netcdf done. INFO 2025-10-20 23:07:41,098 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/gps.nc /Volumes/AUVCTD/missionnetcdfs/2019/2019157/2019.157.02 done. INFO 2025-10-20 23:07:41,454 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2019/2019157/2019.157.02 done. INFO 2025-10-20 23:07:41,570 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2019/2019157/2019.157.02 done. INFO 2025-10-20 23:07:41,587 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/seabird25p.nc /Volumes/AUVCTD/missionnetcdfs/2019/2019157/2019.157.02 done. INFO 2025-10-20 23:07:41,660 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2019/2019157/2019.157.02 done. INFO 2025-10-20 23:07:41,661 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-10-20 23:07:41,661 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/i2map/missionnetcdfs/2019.157.02/i2map_2019.157.02_processing.log /Volumes/AUVCTD/surveys/2019/netcdf