INFO 2025-06-26 15:49:53,369 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 15:49:53,369 process.py process_mission():434 [1] dorado_info[mission]["comment"] = ESP drifter missions out at station 67-70 with Flyer doing casts and ESP drifting south toward Davidson Seamount - no gulpers (Frederic sent me note about survey grouping) Faulty parosci lead to several mission depth aborts at beginning of this set of volume surveys - ctdToUse = ctd1 INFO 2025-06-26 15:49:53,369 process.py process_mission():449 [1] Processing AUVCTD mission 2010.258.06 by user docker_user on host eae60d30a712 INFO 2025-06-26 15:49:53,369 process.py download_process():165 [1] Download and processing steps for 2010.258.06 INFO 2025-06-26 15:49:53,369 logs2netcdfs.py download_process_logs():739 [1] src_dir = /Volumes/AUVCTD/missionlogs/2010/2010258/2010.258.06 INFO 2025-06-26 15:49:53,369 logs2netcdfs.py download_process_logs():768 [1] Rsyncing /Volumes/AUVCTD/missionlogs/2010/2010258/2010.258.06 to /data/auv_data/dorado/missionlogs/2010.258.06 INFO 2025-06-26 15:49:54,456 logs2netcdfs.py download_process_logs():779 [1] Processing mission: dorado 2010.258.06 INFO 2025-06-26 15:49:54,456 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/ctdDriver.log (1021643 bytes) INFO 2025-06-26 15:49:54,538 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/ctdDriver2.log (1021727 bytes) INFO 2025-06-26 15:49:54,616 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/gps.log (72356 bytes) INFO 2025-06-26 15:49:54,631 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/hydroscatlog.log (901510 bytes) INFO 2025-06-26 15:49:54,730 logs2netcdfs.py _process_log_file():687 [1] Non-monotonic increasing time indices in /data/auv_data/dorado/missionlogs/2010.258.06/hydroscatlog.log: [2122] INFO 2025-06-26 15:49:54,733 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/navigation.log (3118394 bytes) INFO 2025-06-26 15:49:54,965 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/isuslog.log (65493 bytes) INFO 2025-06-26 15:49:54,976 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/parosci.log (1046966 bytes) INFO 2025-06-26 15:49:55,073 logs2netcdfs.py download_process_logs():788 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/tailCone.log (643147 bytes) INFO 2025-06-26 15:49:55,159 logs2netcdfs.py download_process_logs():807 [1] Time to process: 0.70 seconds INFO 2025-06-26 15:49:55,159 process.py download_process():198 [1] Processing file /data/auv_data/dorado/missionlogs/2010.258.06/lopc.bin (4433000 bytes) INFO 2025-06-26 15:49:55,159 lopcToNetCDF.py main():2297 [1] Processing begun: Thu Jun 26 15:49:55 2025 INFO 2025-06-26 15:49:55,159 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2010.258.06/parosci.nc INFO 2025-06-26 15:49:55,159 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 15:49:55,159 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2010.258.06/parosci.nc INFO 2025-06-26 15:49:55,161 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1284576720.4, sensor_off_time = 1284579407.2 INFO 2025-06-26 15:49:55,162 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 2686 seconds. Expecting to read 5372 L frames from the lopc.bin file. INFO 2025-06-26 15:49:55,162 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 5372 records from the lopc.bin file. INFO 2025-06-26 15:49:55,193 lopcToNetCDF.py main():2321 [1] Examined sibling parosci.nc file to find startTime = 2010-09-15 18:52:00 Z and endTime = 2010-09-15 19:36:47 Z with 5372 records expected to be read from lopc.bin INFO 2025-06-26 15:49:55,193 lopcToNetCDF.py unpackLOPCbin():723 [1] >>> Unpacking LOPC data from /data/auv_data/dorado/missionlogs/2010.258.06/lopc.bin INFO 2025-06-26 15:49:55,193 lopcToNetCDF.py unpackLOPCbin():724 [1] >>> Will write to NetCDF file /data/auv_data/dorado/missionnetcdfs/2010.258.06/lopc.nc INFO 2025-06-26 15:49:55,194 lopcToNetCDF.py openNetCDFFile():1861 [1] Will output NetCDF file to /data/auv_data/dorado/missionnetcdfs/2010.258.06/lopc.nc INFO 2025-06-26 15:49:55,194 lopcToNetCDF.py openNetCDFFile():1887 [1] missionName = 2010.258.06 INFO 2025-06-26 15:49:55,194 lopcToNetCDF.py openNetCDFFile():1910 [1] Writing bin axis for len(self.dataStructure['binSizeList']) = 994 WARNING 2025-06-26 15:49:55,197 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = A0108555 WARNING 2025-06-26 15:49:55,197 lopcToNetCDF.py readCframeData():665 [1] Unable to parse a float from the string cstr[:70] = INFO 2025-06-26 15:49:55,253 lopcToNetCDF.py unpackLOPCbin():951 [1] L Frames sample M Frames ShortLFrame LBeforeMEnd MBeforeLEnd UnknownFrame Garbled L INFO 2025-06-26 15:49:55,254 lopcToNetCDF.py unpackLOPCbin():969 [1] Count Count Count Error Error Error Error Error INFO 2025-06-26 15:49:55,254 lopcToNetCDF.py unpackLOPCbin():987 [1] -------- -------- -------- ----------- ----------- ----------- ----------- ------------ ERROR 2025-06-26 15:49:55,761 lopcToNetCDF.py main():2340 [1] UnicodeDecodeError: 'utf-8' codec can't decode byte 0x9c in position 0: invalid start byte INFO 2025-06-26 15:49:55,761 lopcToNetCDF.py main():2341 [1] Failed to decode all of lopc.bin - resulting lopc.nc file likely incomplete INFO 2025-06-26 15:49:55,761 lopcToNetCDF.py constructTimestampList():1296 [1] parosci_nc = /data/auv_data/dorado/missionnetcdfs/2010.258.06/parosci.nc INFO 2025-06-26 15:49:55,761 lopcToNetCDF.py constructTimestampList():1297 [1] Using NetCDF4 to get start and end epoch seconds for this mission from this URL: INFO 2025-06-26 15:49:55,762 lopcToNetCDF.py constructTimestampList():1300 [1] /data/auv_data/dorado/missionnetcdfs/2010.258.06/parosci.nc INFO 2025-06-26 15:49:55,763 lopcToNetCDF.py constructTimestampList():1317 [1] From associated parosci.nc file: sensor_on_time = 1284576720.4, sensor_off_time = 1284579407.2 INFO 2025-06-26 15:49:55,764 lopcToNetCDF.py constructTimestampList():1322 [1] Duration is 2686 seconds. Expecting to read 5372 L frames from the lopc.bin file. INFO 2025-06-26 15:49:55,764 lopcToNetCDF.py constructTimestampList():1330 [1] recCount not passed in, assuming we'll have 5372 records from the lopc.bin file. INFO 2025-06-26 15:49:55,764 lopcToNetCDF.py constructTimestampList():1340 [1] Calling correctSampleCountList() with sampleCountList[0] = 11217 and len(sampleCountList) = 541 INFO 2025-06-26 15:49:55,764 lopcToNetCDF.py correctSampleCountList():1737 [1] Found overflows at indices: [] INFO 2025-06-26 15:49:55,764 lopcToNetCDF.py correctSampleCountList():1745 [1] Original sampleCountList = [11217 11218 11219 11560 11561 11562 11563 11564 11565 11566 11567 11568 11569 11570 11571 11572 11573 11574 11575 11576 11577 11578 11579 11580 11581 11582 11583 11584 11585 11586 11587 11588 11589 11590 11591 11592 11593 11594 11595 11596 11597 11598 11599 11600 11601 11602 11603 11604 11605 11606 11607 11608 11609 11610 11611 11612 11613 11614 11615 11616 11617 11618 11619 11620 11621 11622 11623 11624 11625 11626 11627 11628 11629 11630 11631 11632 11633 11634 11635 11636 11637 11638 11639 11640 11641 11642 11643 11644 11645 11646 11647 11648 11649 11650 11651 11652 11653 11654 11655 11656 11657 11658 11659 11660 11661 11662 11663 11664 11665 11666 11667 11668 11669 11670 11671 11672 11673 11674 11675 11676 11677 11678 11679 11680 11681 11682 11683 11684 11685 11686 11687 11688 11689 11690 11691 11692 11693 11694 11695 11696 11697 11698 11699 11700 11701 11702 11703 11704 11705 11706 11707 11708 11709 11710 11711 11712 11713 11714 11715 11716 11717 11718 11719 11720 11721 11722 11723 11724 11725 11726 11727 11728 11729 11730 11731 11732 11733 11734 11735 11736 11737 11738 11739 11740 11741 11742 11743 11744 11745 11746 11747 11748 11749 11750 11751 11752 11753 11754 11755 11756 11757 11758 11759 11760 11761 11762 11763 11764 11765 11766 11767 11768 11769 11770 11771 11772 11773 11774 11775 11776 11777 11778 11779 11780 11781 11782 11783 11784 11785 11786 11787 11788 11789 11790 11791 11792 11793 11794 11795 11796 11797 11798 11799 11800 11801 11802 11803 11804 11805 11806 11807 11808 11809 11810 11811 11812 11813 11814 11815 11816 11817 11818 11819 11820 11821 11822 11823 11824 11825 11826 11827 11828 11829 11830 11831 11832 11833 11834 11835 11836 11837 11838 11839 11840 11841 11842 11843 11844 11845 11846 11847 11848 11849 11850 11851 11852 11853 11854 11855 11856 11857 11858 11859 11860 11861 11862 11863 11864 11865 11866 11867 11868 11869 11870 11871 11872 11873 11874 11875 11876 11877 11878 11879 11880 11881 11882 11883 11884 11885 11886 11887 11888 11889 11890 11891 11892 11893 11894 11895 11896 11897 11898 11899 11900 11901 11902 11903 11904 11905 11906 11907 11908 11909 11910 11911 11912 11913 11914 11915 11916 11917 11918 11919 11920 11921 11922 11923 11924 11925 11926 11927 11928 11929 11930 11931 11932 11933 11934 11935 11936 11937 11938 11939 11940 11941 11942 11943 11944 11945 11946 11947 11948 11949 11950 11951 11952 11953 11954 11955 11956 11957 11958 11959 11960 11961 11962 11963 11964 11965 11966 11967 11968 11969 11970 11971 11972 11973 11974 11975 11976 11977 11978 11979 11980 11981 11982 11983 11984 11985 11986 11987 11988 11989 11990 11991 11992 11993 11994 11995 11996 11997 11998 11999 12000 12001 12002 12003 12004 12005 12006 12007 12008 12009 12010 12011 12012 12013 12014 12015 12016 12017 12018 12019 12020 12021 12022 12023 12024 12025 12026 12027 12028 12029 12030 12031 12032 12033 12034 12035 12036 12037 12038 12039 12040 12041 12042 12043 12044 12045 12046 12047 12048 12049 12050 12051 12052 12053 12054 12055 12056 12057 12058 12059 12060 12061 12062 12063 12064 12065 12066 12067 12068 12069 12070 12071 12072 12073 12074 12075 12076 12077 12078 12079 12080 12081 12082 12083 12084 12085 12086 12087 12088 12089 12090 12091 12092 12093 12094 12095 12096 12097] INFO 2025-06-26 15:49:55,766 lopcToNetCDF.py correctSampleCountList():1746 [1] Found 0 0 values at indices: [] INFO 2025-06-26 15:49:55,766 lopcToNetCDF.py correctSampleCountList():1779 [1] Found 0 stuck values at indices: [] INFO 2025-06-26 15:49:55,766 lopcToNetCDF.py deSpike():1588 [1] d_sampleCountList = [ 1 1 341 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1] INFO 2025-06-26 15:49:55,768 lopcToNetCDF.py deSpike():1590 [1] Found 1 spike indicators at indices: [3] INFO 2025-06-26 15:49:55,768 lopcToNetCDF.py deSpike():1595 [1] Identifying nature of spike value = 11560 at index = 3 INFO 2025-06-26 15:49:55,768 lopcToNetCDF.py deSpike():1714 [1] This is the last element in spike_indx. No need to deSpike(). INFO 2025-06-26 15:49:55,768 lopcToNetCDF.py correctSampleCountList():1805 [1] After despike() sampleCountList = [11217 11218 11219 11560 11561 11562 11563 11564 11565 11566 11567 11568 11569 11570 11571 11572 11573 11574 11575 11576 11577 11578 11579 11580 11581 11582 11583 11584 11585 11586 11587 11588 11589 11590 11591 11592 11593 11594 11595 11596 11597 11598 11599 11600 11601 11602 11603 11604 11605 11606 11607 11608 11609 11610 11611 11612 11613 11614 11615 11616 11617 11618 11619 11620 11621 11622 11623 11624 11625 11626 11627 11628 11629 11630 11631 11632 11633 11634 11635 11636 11637 11638 11639 11640 11641 11642 11643 11644 11645 11646 11647 11648 11649 11650 11651 11652 11653 11654 11655 11656 11657 11658 11659 11660 11661 11662 11663 11664 11665 11666 11667 11668 11669 11670 11671 11672 11673 11674 11675 11676 11677 11678 11679 11680 11681 11682 11683 11684 11685 11686 11687 11688 11689 11690 11691 11692 11693 11694 11695 11696 11697 11698 11699 11700 11701 11702 11703 11704 11705 11706 11707 11708 11709 11710 11711 11712 11713 11714 11715 11716 11717 11718 11719 11720 11721 11722 11723 11724 11725 11726 11727 11728 11729 11730 11731 11732 11733 11734 11735 11736 11737 11738 11739 11740 11741 11742 11743 11744 11745 11746 11747 11748 11749 11750 11751 11752 11753 11754 11755 11756 11757 11758 11759 11760 11761 11762 11763 11764 11765 11766 11767 11768 11769 11770 11771 11772 11773 11774 11775 11776 11777 11778 11779 11780 11781 11782 11783 11784 11785 11786 11787 11788 11789 11790 11791 11792 11793 11794 11795 11796 11797 11798 11799 11800 11801 11802 11803 11804 11805 11806 11807 11808 11809 11810 11811 11812 11813 11814 11815 11816 11817 11818 11819 11820 11821 11822 11823 11824 11825 11826 11827 11828 11829 11830 11831 11832 11833 11834 11835 11836 11837 11838 11839 11840 11841 11842 11843 11844 11845 11846 11847 11848 11849 11850 11851 11852 11853 11854 11855 11856 11857 11858 11859 11860 11861 11862 11863 11864 11865 11866 11867 11868 11869 11870 11871 11872 11873 11874 11875 11876 11877 11878 11879 11880 11881 11882 11883 11884 11885 11886 11887 11888 11889 11890 11891 11892 11893 11894 11895 11896 11897 11898 11899 11900 11901 11902 11903 11904 11905 11906 11907 11908 11909 11910 11911 11912 11913 11914 11915 11916 11917 11918 11919 11920 11921 11922 11923 11924 11925 11926 11927 11928 11929 11930 11931 11932 11933 11934 11935 11936 11937 11938 11939 11940 11941 11942 11943 11944 11945 11946 11947 11948 11949 11950 11951 11952 11953 11954 11955 11956 11957 11958 11959 11960 11961 11962 11963 11964 11965 11966 11967 11968 11969 11970 11971 11972 11973 11974 11975 11976 11977 11978 11979 11980 11981 11982 11983 11984 11985 11986 11987 11988 11989 11990 11991 11992 11993 11994 11995 11996 11997 11998 11999 12000 12001 12002 12003 12004 12005 12006 12007 12008 12009 12010 12011 12012 12013 12014 12015 12016 12017 12018 12019 12020 12021 12022 12023 12024 12025 12026 12027 12028 12029 12030 12031 12032 12033 12034 12035 12036 12037 12038 12039 12040 12041 12042 12043 12044 12045 12046 12047 12048 12049 12050 12051 12052 12053 12054 12055 12056 12057 12058 12059 12060 12061 12062 12063 12064 12065 12066 12067 12068 12069 12070 12071 12072 12073 12074 12075 12076 12077 12078 12079 12080 12081 12082 12083 12084 12085 12086 12087 12088 12089 12090 12091 12092 12093 12094 12095 12096 12097] INFO 2025-06-26 15:49:55,770 lopcToNetCDF.py constructTimestampList():1347 [1] correctSampleCountList() returned correctedSampleCountList = [11217 11218 11219 11560 11561 11562 11563 11564 11565 11566 11567 11568 11569 11570 11571 11572 11573 11574 11575 11576 11577 11578 11579 11580 11581 11582 11583 11584 11585 11586 11587 11588 11589 11590 11591 11592 11593 11594 11595 11596 11597 11598 11599 11600 11601 11602 11603 11604 11605 11606 11607 11608 11609 11610 11611 11612 11613 11614 11615 11616 11617 11618 11619 11620 11621 11622 11623 11624 11625 11626 11627 11628 11629 11630 11631 11632 11633 11634 11635 11636 11637 11638 11639 11640 11641 11642 11643 11644 11645 11646 11647 11648 11649 11650 11651 11652 11653 11654 11655 11656 11657 11658 11659 11660 11661 11662 11663 11664 11665 11666 11667 11668 11669 11670 11671 11672 11673 11674 11675 11676 11677 11678 11679 11680 11681 11682 11683 11684 11685 11686 11687 11688 11689 11690 11691 11692 11693 11694 11695 11696 11697 11698 11699 11700 11701 11702 11703 11704 11705 11706 11707 11708 11709 11710 11711 11712 11713 11714 11715 11716 11717 11718 11719 11720 11721 11722 11723 11724 11725 11726 11727 11728 11729 11730 11731 11732 11733 11734 11735 11736 11737 11738 11739 11740 11741 11742 11743 11744 11745 11746 11747 11748 11749 11750 11751 11752 11753 11754 11755 11756 11757 11758 11759 11760 11761 11762 11763 11764 11765 11766 11767 11768 11769 11770 11771 11772 11773 11774 11775 11776 11777 11778 11779 11780 11781 11782 11783 11784 11785 11786 11787 11788 11789 11790 11791 11792 11793 11794 11795 11796 11797 11798 11799 11800 11801 11802 11803 11804 11805 11806 11807 11808 11809 11810 11811 11812 11813 11814 11815 11816 11817 11818 11819 11820 11821 11822 11823 11824 11825 11826 11827 11828 11829 11830 11831 11832 11833 11834 11835 11836 11837 11838 11839 11840 11841 11842 11843 11844 11845 11846 11847 11848 11849 11850 11851 11852 11853 11854 11855 11856 11857 11858 11859 11860 11861 11862 11863 11864 11865 11866 11867 11868 11869 11870 11871 11872 11873 11874 11875 11876 11877 11878 11879 11880 11881 11882 11883 11884 11885 11886 11887 11888 11889 11890 11891 11892 11893 11894 11895 11896 11897 11898 11899 11900 11901 11902 11903 11904 11905 11906 11907 11908 11909 11910 11911 11912 11913 11914 11915 11916 11917 11918 11919 11920 11921 11922 11923 11924 11925 11926 11927 11928 11929 11930 11931 11932 11933 11934 11935 11936 11937 11938 11939 11940 11941 11942 11943 11944 11945 11946 11947 11948 11949 11950 11951 11952 11953 11954 11955 11956 11957 11958 11959 11960 11961 11962 11963 11964 11965 11966 11967 11968 11969 11970 11971 11972 11973 11974 11975 11976 11977 11978 11979 11980 11981 11982 11983 11984 11985 11986 11987 11988 11989 11990 11991 11992 11993 11994 11995 11996 11997 11998 11999 12000 12001 12002 12003 12004 12005 12006 12007 12008 12009 12010 12011 12012 12013 12014 12015 12016 12017 12018 12019 12020 12021 12022 12023 12024 12025 12026 12027 12028 12029 12030 12031 12032 12033 12034 12035 12036 12037 12038 12039 12040 12041 12042 12043 12044 12045 12046 12047 12048 12049 12050 12051 12052 12053 12054 12055 12056 12057 12058 12059 12060 12061 12062 12063 12064 12065 12066 12067 12068 12069 12070 12071 12072 12073 12074 12075 12076 12077 12078 12079 12080 12081 12082 12083 12084 12085 12086 12087 12088 12089 12090 12091 12092 12093 12094 12095 12096 12097] with len(correctedSampleCountList) = 541 INFO 2025-06-26 15:49:55,772 lopcToNetCDF.py constructTimestampList():1358 [1] Subtracting 11217 from all values of correctedSampleCountList INFO 2025-06-26 15:49:55,772 lopcToNetCDF.py constructTimestampList():1363 [1] Constructing timestampArray from instrument corrected sampleCount and constant deltaT = 0.500000 INFO 2025-06-26 15:49:55,772 lopcToNetCDF.py constructTimestampList():1368 [1] New re-zeroed correctedSampleCountList = [ 0. 0.5 1. 171.5 172. 172.5 173. 173.5 174. 174.5 175. 175.5 176. 176.5 177. 177.5 178. 178.5 179. 179.5 180. 180.5 181. 181.5 182. 182.5 183. 183.5 184. 184.5 185. 185.5 186. 186.5 187. 187.5 188. 188.5 189. 189.5 190. 190.5 191. 191.5 192. 192.5 193. 193.5 194. 194.5 195. 195.5 196. 196.5 197. 197.5 198. 198.5 199. 199.5 200. 200.5 201. 201.5 202. 202.5 203. 203.5 204. 204.5 205. 205.5 206. 206.5 207. 207.5 208. 208.5 209. 209.5 210. 210.5 211. 211.5 212. 212.5 213. 213.5 214. 214.5 215. 215.5 216. 216.5 217. 217.5 218. 218.5 219. 219.5 220. 220.5 221. 221.5 222. 222.5 223. 223.5 224. 224.5 225. 225.5 226. 226.5 227. 227.5 228. 228.5 229. 229.5 230. 230.5 231. 231.5 232. 232.5 233. 233.5 234. 234.5 235. 235.5 236. 236.5 237. 237.5 238. 238.5 239. 239.5 240. 240.5 241. 241.5 242. 242.5 243. 243.5 244. 244.5 245. 245.5 246. 246.5 247. 247.5 248. 248.5 249. 249.5 250. 250.5 251. 251.5 252. 252.5 253. 253.5 254. 254.5 255. 255.5 256. 256.5 257. 257.5 258. 258.5 259. 259.5 260. 260.5 261. 261.5 262. 262.5 263. 263.5 264. 264.5 265. 265.5 266. 266.5 267. 267.5 268. 268.5 269. 269.5 270. 270.5 271. 271.5 272. 272.5 273. 273.5 274. 274.5 275. 275.5 276. 276.5 277. 277.5 278. 278.5 279. 279.5 280. 280.5 281. 281.5 282. 282.5 283. 283.5 284. 284.5 285. 285.5 286. 286.5 287. 287.5 288. 288.5 289. 289.5 290. 290.5 291. 291.5 292. 292.5 293. 293.5 294. 294.5 295. 295.5 296. 296.5 297. 297.5 298. 298.5 299. 299.5 300. 300.5 301. 301.5 302. 302.5 303. 303.5 304. 304.5 305. 305.5 306. 306.5 307. 307.5 308. 308.5 309. 309.5 310. 310.5 311. 311.5 312. 312.5 313. 313.5 314. 314.5 315. 315.5 316. 316.5 317. 317.5 318. 318.5 319. 319.5 320. 320.5 321. 321.5 322. 322.5 323. 323.5 324. 324.5 325. 325.5 326. 326.5 327. 327.5 328. 328.5 329. 329.5 330. 330.5 331. 331.5 332. 332.5 333. 333.5 334. 334.5 335. 335.5 336. 336.5 337. 337.5 338. 338.5 339. 339.5 340. 340.5 341. 341.5 342. 342.5 343. 343.5 344. 344.5 345. 345.5 346. 346.5 347. 347.5 348. 348.5 349. 349.5 350. 350.5 351. 351.5 352. 352.5 353. 353.5 354. 354.5 355. 355.5 356. 356.5 357. 357.5 358. 358.5 359. 359.5 360. 360.5 361. 361.5 362. 362.5 363. 363.5 364. 364.5 365. 365.5 366. 366.5 367. 367.5 368. 368.5 369. 369.5 370. 370.5 371. 371.5 372. 372.5 373. 373.5 374. 374.5 375. 375.5 376. 376.5 377. 377.5 378. 378.5 379. 379.5 380. 380.5 381. 381.5 382. 382.5 383. 383.5 384. 384.5 385. 385.5 386. 386.5 387. 387.5 388. 388.5 389. 389.5 390. 390.5 391. 391.5 392. 392.5 393. 393.5 394. 394.5 395. 395.5 396. 396.5 397. 397.5 398. 398.5 399. 399.5 400. 400.5 401. 401.5 402. 402.5 403. 403.5 404. 404.5 405. 405.5 406. 406.5 407. 407.5 408. 408.5 409. 409.5 410. 410.5 411. 411.5 412. 412.5 413. 413.5 414. 414.5 415. 415.5 416. 416.5 417. 417.5 418. 418.5 419. 419.5 420. 420.5 421. 421.5 422. 422.5 423. 423.5 424. 424.5 425. 425.5 426. 426.5 427. 427.5 428. 428.5 429. 429.5 430. 430.5 431. 431.5 432. 432.5 433. 433.5 434. 434.5 435. 435.5 436. 436.5 437. 437.5 438. 438.5 439. 439.5 440. ] INFO 2025-06-26 15:49:55,776 lopcToNetCDF.py constructTimestampList():1379 [1] timestampArray = [1.28457672e+09 1.28457672e+09 1.28457672e+09 1.28457689e+09 1.28457689e+09 1.28457689e+09 1.28457689e+09 1.28457689e+09 1.28457689e+09 1.28457689e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457690e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457691e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457692e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457693e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457694e+09 1.28457695e+09 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1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457711e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457712e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457713e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457714e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457715e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09 1.28457716e+09] INFO 2025-06-26 15:49:55,781 lopcToNetCDF.py constructTimestampList():1380 [1] timestampArray[:2] = [1284576720.4 1284576720.9, ..., timestampArray[-2:] = 1284577159.9 1284577160.4] INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1389 [1] timestampList[:2] = [np.float64(1284576720.4446168), np.float64(1284576720.9446168)], ..., timestampList[-2:] = [np.float64(1284577159.9446168), np.float64(1284577160.4446168)]] INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1394 [1] Subsampling correctedSampleCountList (len = 541) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1399 [1] lFrameCountWrittenList[:2] = [20, 41], ... lFrameCountWrittenList[-2:] = [503, 524] INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1420 [1] len(subSampledCorrectedSampleCountList) = 25 INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1439 [1] len(timestampList) = 541 INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1440 [1] timestampList[:2] = [np.float64(1284576720.4446168), np.float64(1284576720.9446168)], ..., timestampList[-2:] = [np.float64(1284577159.9446168), np.float64(1284577160.4446168)]] INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1446 [1] Subsampling timestampList (len = 541) according to what got written to the netCDF file by the binning interval INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1457 [1] Taking indices [[np.int32(19), np.int32(40)] ... [np.int32(502), np.int32(523)]] from timestampList to create subSampledTimestampList INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1463 [1] len(subSampledTimestampList) = 25 INFO 2025-06-26 15:49:55,782 lopcToNetCDF.py constructTimestampList():1477 [1] Finding elements of cFrameEsecsList that != -9999 INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2096 [1] Writing time axis for len(tsList) = 25 INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2099 [1] tsList[:1] = [np.float64(1284576899.9446168)], ..., tsList[-2:] = [np.float64(1284577141.4446168), np.float64(1284577151.9446168)] INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2100 [1] Begin time = 2010-09-15 18:54:59 Z INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2103 [1] End time = 2010-09-15 18:59:11 Z INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2107 [1] Writing time axis for len(cFrameEsecsList) = 25 INFO 2025-06-26 15:49:55,784 lopcToNetCDF.py closeNetCDFFile():2111 [1] cFrameEsecsList[:1] = [1.28457698e+09], ..., cFrameEsecsList[-2:] = [1.28457698e+09 1.28457698e+09] INFO 2025-06-26 15:49:55,785 lopcToNetCDF.py closeNetCDFFile():2116 [1] Begin time = 2010-09-15 18:56:24 Z INFO 2025-06-26 15:49:55,785 lopcToNetCDF.py closeNetCDFFile():2120 [1] End time = 2010-09-15 18:56:24 Z INFO 2025-06-26 15:49:55,788 lopcToNetCDF.py main():2381 [1] Created file: /data/auv_data/dorado/missionnetcdfs/2010.258.06/lopc.nc INFO 2025-06-26 15:49:55,788 lopcToNetCDF.py main():2384 [1] Processing finished: Thu Jun 26 15:49:55 2025 Elapsed processing time from start of processing = 0 seconds INFO 2025-06-26 15:49:55,789 process.py calibrate():227 [1] Calibration steps for 2010.258.06 INFO 2025-06-26 15:49:55,864 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 15:49:55,865 calibrate.py _nudge_pos():1711 [1] - - - 0 0.00 - - - INFO 2025-06-26 15:49:56,364 calibrate.py _nudge_pos():1806 [1] 92: 0.050 0.0000353 0.0000265 25 0.08 65.948 61.293 2010-09-15T18:53:31.828356608 INFO 2025-06-26 15:49:57,544 calibrate.py _nudge_pos():1806 [1] 218: 0.060 0.0030540 -0.0005291 8476 28.26 16.158 -3.469 2010-09-15T19:23:52.823609856 INFO 2025-06-26 15:50:04,858 calibrate.py _nudge_pos():1862 [1] 944: - - - 1 0.00 - - INFO 2025-06-26 15:50:04,858 calibrate.py _nudge_pos():1868 [1] Points in final series = 13203 WARNING 2025-06-26 15:50:04,880 calibrate.py _depth_process():2193 [1] Expected sample_rate to be 10 Hz, instead it's 8.33 Hz INFO 2025-06-26 15:50:06,331 calibrate.py _geometric_depth_correction():3423 [1] hs2: d_beg_time_diff: 5 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:50:06,451 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:50:06,536 calibrate.py _geometric_depth_correction():3423 [1] ctd1: d_beg_time_diff: 28 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:50:06,537 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd1_salinity'] in 2010.258.06/ctd1.nc INFO 2025-06-26 15:50:06,539 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd1_salinity values to NaN INFO 2025-06-26 15:50:06,539 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 15:50:06,539 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd1 INFO 2025-06-26 15:50:06,649 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:50:06,731 calibrate.py _geometric_depth_correction():3423 [1] ctd2: d_beg_time_diff: 27 seconds, d_end_time_diff: -1 seconds INFO 2025-06-26 15:50:06,733 calibrate.py _ctd_process():2919 [1] Performing range checking of ['ctd2_salinity'] in 2010.258.06/ctd2.nc INFO 2025-06-26 15:50:06,734 calibrate.py _range_qc_combined_nc():898 [1] Setting 0 ctd2_salinity values to NaN INFO 2025-06-26 15:50:06,735 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 15:50:06,735 calibrate.py _range_qc_combined_nc():936 [1] Done range checking ctd2 ERROR 2025-06-26 15:50:06,742 calibrate.py process_logs():3542 [1] Error processing biolume: biolume has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.258.06 ERROR 2025-06-26 15:50:06,751 calibrate.py process_logs():3542 [1] Error processing ecopuck: ecopuck has no orig_data - likely a missing or zero-sized .log file in missionlogs/2010.258.06 INFO 2025-06-26 15:50:06,765 calibrate.py write_netcdf():3508 [1] Writing calibrated instrument data to /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_cal.nc INFO 2025-06-26 15:50:06,816 calibrate.py write_netcdf():3512 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, depth_filtdepth, depth_filtpres, depth_time, gps_latitude, gps_longitude, gps_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_time, isus_nitrate, isus_quality, isus_temp, isus_time, lopc_LCcount, lopc_countListSum, lopc_flowSpeed, lopc_nonTransCount, lopc_time, lopc_transCount, 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 15:50:06,821 process.py align():251 [1] Alignment steps for 2010.258.06 INFO 2025-06-26 15:50:06,846 align.py process_cal():139 [1] Processing dorado_2010.258.06_cal.nc from /data/auv_data/dorado/missionnetcdfs/2010.258.06 INFO 2025-06-26 15:50:06,854 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:50:06,856 align.py process_cal():249 [1] navigation_roll: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:50:06,874 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:50:06,876 align.py process_cal():249 [1] navigation_pitch: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:50:06,892 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:50:06,894 align.py process_cal():249 [1] navigation_yaw: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:50:06,903 align.py process_cal():161 [1] Skipping navigation_posx INFO 2025-06-26 15:50:06,903 align.py process_cal():161 [1] Skipping navigation_posy INFO 2025-06-26 15:50:06,910 align.py process_cal():206 [1] Using pitch corrected navigation_depth: mDepth from navigation.nc INFO 2025-06-26 15:50:06,912 align.py process_cal():249 [1] navigation_mWaterSpeed: instrument_sample_rate_hz = 5.00 INFO 2025-06-26 15:50:06,927 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:06,929 align.py process_cal():249 [1] hs2_bbp420: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:06,945 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:06,947 align.py process_cal():249 [1] hs2_bbp700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:06,962 align.py process_cal():206 [1] Using pitch corrected hs2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to hs2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:06,964 align.py process_cal():249 [1] hs2_fl700: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:06,980 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:06,982 align.py process_cal():249 [1] ctd1_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:06,997 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:06,999 align.py process_cal():249 [1] ctd1_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,015 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,017 align.py process_cal():249 [1] ctd1_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,032 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,034 align.py process_cal():249 [1] ctd1_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,050 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,052 align.py process_cal():249 [1] ctd1_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,068 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,070 align.py process_cal():249 [1] ctd1_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,085 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,088 align.py process_cal():249 [1] ctd1_dissolvedO2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,104 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,106 align.py process_cal():249 [1] ctd1_oxygen_mll: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,121 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,124 align.py process_cal():249 [1] ctd1_oxygen_umolkg: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,139 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,141 align.py process_cal():249 [1] ctd1_flow1: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,157 align.py process_cal():206 [1] Using pitch corrected ctd1_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd1_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,159 align.py process_cal():249 [1] ctd1_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,175 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,177 align.py process_cal():249 [1] ctd2_temperature: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,193 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,195 align.py process_cal():249 [1] ctd2_conductivity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,211 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,213 align.py process_cal():249 [1] ctd2_salinity: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,229 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,231 align.py process_cal():249 [1] ctd2_temperature_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,247 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,249 align.py process_cal():249 [1] ctd2_conductivity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,266 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,269 align.py process_cal():249 [1] ctd2_salinity_onboard: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,285 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,287 align.py process_cal():249 [1] ctd2_flow2: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,303 align.py process_cal():206 [1] Using pitch corrected ctd2_depth: Variable depth_filtdepth from dorado_2010.258.06_cal.nc linearly interpolated to ctd2_time and corrected for pitch using SensorOffset(x=4.5, y=0.0) INFO 2025-06-26 15:50:07,305 align.py process_cal():249 [1] ctd2_depth: instrument_sample_rate_hz = 4.00 INFO 2025-06-26 15:50:07,325 align.py process_cal():249 [1] isus_nitrate: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:50:07,342 align.py process_cal():249 [1] isus_temp: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:50:07,358 align.py process_cal():249 [1] isus_quality: instrument_sample_rate_hz = 0.78 INFO 2025-06-26 15:50:07,375 align.py process_cal():249 [1] lopc_countListSum: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 15:50:07,391 align.py process_cal():249 [1] lopc_transCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 15:50:07,407 align.py process_cal():249 [1] lopc_nonTransCount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 15:50:07,423 align.py process_cal():249 [1] lopc_LCcount: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 15:50:07,440 align.py process_cal():249 [1] lopc_flowSpeed: instrument_sample_rate_hz = 0.10 INFO 2025-06-26 15:50:07,457 align.py process_cal():249 [1] tailcone_propRpm: instrument_sample_rate_hz = 4.98 INFO 2025-06-26 15:50:07,473 align.py write_netcdf():337 [1] Writing aligned data to /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_align.nc INFO 2025-06-26 15:50:07,525 align.py write_netcdf():342 [1] Data variables written: ctd1_conductivity, ctd1_conductivity_onboard, ctd1_depth, ctd1_dissolvedO2, ctd1_flow1, ctd1_latitude, ctd1_longitude, ctd1_oxygen_mll, ctd1_oxygen_umolkg, ctd1_salinity, ctd1_salinity_onboard, ctd1_temperature, ctd1_temperature_onboard, ctd1_time, ctd2_conductivity, ctd2_conductivity_onboard, ctd2_depth, ctd2_flow2, ctd2_latitude, ctd2_longitude, ctd2_salinity, ctd2_salinity_onboard, ctd2_temperature, ctd2_temperature_onboard, ctd2_time, hs2_bbp420, hs2_bbp700, hs2_depth, hs2_fl700, hs2_latitude, hs2_longitude, hs2_time, isus_depth, isus_latitude, isus_longitude, isus_nitrate, isus_quality, isus_temp, isus_time, lopc_LCcount, lopc_countListSum, lopc_depth, lopc_flowSpeed, lopc_latitude, lopc_longitude, lopc_nonTransCount, lopc_time, lopc_transCount, 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 15:50:07,527 process.py resample():273 [1] Resampling steps for 2010.258.06 INFO 2025-06-26 15:50:07,528 resample.py resample_mission():1185 [1] Using depth_threshold = 10.00 m INFO 2025-06-26 15:50:07,553 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_align.nc mission netCDF file INFO 2025-06-26 15:50:07,558 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_align.nc mission netCDF file INFO 2025-06-26 15:50:07,559 resample.py get_mission_start_end():1145 [1] navigation: 2010-09-15T18:52:45.241548032 to 2010-09-15T19:36:47.030573056 (0 days 00:00:00.159988992 before mission_end) INFO 2025-06-26 15:50:07,561 resample.py get_mission_start_end():1145 [1] hs2 : 2010-09-15T18:52:06.204222208 to 2010-09-15T19:36:47.070570240 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 15:50:07,562 resample.py get_mission_start_end():1145 [1] ctd1 : 2010-09-15T18:52:28.632685824 to 2010-09-15T19:36:47.070570240 (0 days 00:00:00.119991808 before mission_end) INFO 2025-06-26 15:50:07,564 resample.py get_mission_start_end():1145 [1] ctd2 : 2010-09-15T18:52:28.312707584 to 2010-09-15T19:36:46.990575872 (0 days 00:00:00.199986176 before mission_end) INFO 2025-06-26 15:50:07,565 resample.py get_mission_start_end():1145 [1] isus : 2010-09-15T18:53:16.449410304 to 2010-09-15T19:36:46.500609280 (0 days 00:00:00.689952768 before mission_end) INFO 2025-06-26 15:50:07,566 resample.py get_mission_start_end():1145 [1] lopc : 2010-09-15T18:54:59.944616704 to 2010-09-15T18:59:11.944616704 (0 days 00:37:35.245945344 before mission_end) WARNING 2025-06-26 15:50:07,567 resample.py get_mission_start_end():1156 [1] Instrument lopc has a gap > 5 minutes at the end of the mission: 0 days 00:37:35.245945344 INFO 2025-06-26 15:50:07,568 resample.py get_mission_start_end():1145 [1] tailcone : 2010-09-15T18:52:00.364622336 to 2010-09-15T19:36:47.190562048 (0 days 00:00:00 before mission_end) INFO 2025-06-26 15:50:07,569 resample.py instruments_variables():235 [1] Reading variables from /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_align.nc mission netCDF file INFO 2025-06-26 15:50:07,569 resample.py resample_coordinates():249 [1] Resampling coordinates depth, latitude and longitude with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,624 resample.py resample_variable():1031 [1] Resampling navigation_roll with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,636 resample.py resample_variable():1031 [1] Resampling navigation_pitch with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,648 resample.py resample_variable():1031 [1] Resampling navigation_yaw with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,660 resample.py resample_variable():1031 [1] Resampling navigation_mWaterSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,671 resample.py resample_variable():1031 [1] Resampling hs2_bbp420 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,683 resample.py resample_variable():1031 [1] Resampling hs2_bbp700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,694 resample.py resample_variable():1031 [1] Resampling hs2_fl700 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,704 resample.py resample_variable():1031 [1] Resampling ctd1_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,714 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,724 resample.py resample_variable():1031 [1] Resampling ctd1_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,733 resample.py resample_variable():1031 [1] Resampling ctd1_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,743 resample.py resample_variable():1031 [1] Resampling ctd1_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,752 resample.py resample_variable():1031 [1] Resampling ctd1_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,762 resample.py resample_variable():1031 [1] Resampling ctd1_dissolvedO2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,771 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_mll with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,781 resample.py resample_variable():1031 [1] Resampling ctd1_oxygen_umolkg with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,791 resample.py resample_variable():1031 [1] Resampling ctd1_flow1 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,802 resample.py resample_variable():1031 [1] Resampling ctd2_temperature with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,813 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,824 resample.py resample_variable():1031 [1] Resampling ctd2_salinity with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,835 resample.py resample_variable():1031 [1] Resampling ctd2_temperature_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,846 resample.py resample_variable():1031 [1] Resampling ctd2_conductivity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,857 resample.py resample_variable():1031 [1] Resampling ctd2_salinity_onboard with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,867 resample.py resample_variable():1031 [1] Resampling ctd2_flow2 with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,877 resample.py resample_variable():1031 [1] Resampling isus_nitrate with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,886 resample.py resample_variable():1031 [1] Resampling isus_temp with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,894 resample.py resample_variable():1031 [1] Resampling isus_quality with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,903 resample.py resample_variable():1031 [1] Resampling lopc_countListSum with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,903 resample.py resample_variable():1038 [1] Padding lopc_countListSum with 0 days 00:37:35.245945344 of NaNs to the end of mission INFO 2025-06-26 15:50:07,912 resample.py resample_variable():1031 [1] Resampling lopc_transCount with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,912 resample.py resample_variable():1038 [1] Padding lopc_transCount with 0 days 00:37:35.245945344 of NaNs to the end of mission INFO 2025-06-26 15:50:07,920 resample.py resample_variable():1031 [1] Resampling lopc_nonTransCount with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,921 resample.py resample_variable():1038 [1] Padding lopc_nonTransCount with 0 days 00:37:35.245945344 of NaNs to the end of mission INFO 2025-06-26 15:50:07,929 resample.py resample_variable():1031 [1] Resampling lopc_LCcount with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,929 resample.py resample_variable():1038 [1] Padding lopc_LCcount with 0 days 00:37:35.245945344 of NaNs to the end of mission INFO 2025-06-26 15:50:07,938 resample.py resample_variable():1031 [1] Resampling lopc_flowSpeed with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:07,939 resample.py resample_variable():1038 [1] Padding lopc_flowSpeed with 0 days 00:37:35.245945344 of NaNs to the end of mission INFO 2025-06-26 15:50:07,952 resample.py resample_variable():1031 [1] Resampling tailcone_propRpm with frequency 1S following 3 point median filter INFO 2025-06-26 15:50:08,079 resample.py resample_mission():1297 [1] Saved resampled mission to /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_1S.nc INFO 2025-06-26 15:50:08,921 create_products.py gulper_odv():401 [1] No gulper times found for 2010.258.06 INFO 2025-06-26 15:50:08,921 process.py archive():337 [1] Archiving steps for 2010.258.06 INFO 2025-06-26 15:50:08,921 process.py archive():347 [1] nc_file_base = /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06, BASE_PATH = /data/auv_data INFO 2025-06-26 15:50:08,922 archive.py copy_to_AUVTCD():60 [1] Archiving /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06 files to /Volumes/AUVCTD/surveys/2010/netcdf INFO 2025-06-26 15:50:08,923 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.258.06_1S.nc INFO 2025-06-26 15:50:08,931 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_1S.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:50:08,932 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.258.06_cal.nc INFO 2025-06-26 15:50:08,948 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_cal.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:50:08,949 archive.py copy_to_AUVTCD():78 [1] Removing /Volumes/AUVCTD/surveys/2010/netcdf/dorado_2010.258.06_align.nc INFO 2025-06-26 15:50:08,964 archive.py copy_to_AUVTCD():82 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_align.nc /Volumes/AUVCTD/surveys/2010/netcdf done. INFO 2025-06-26 15:50:08,973 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/ctdDriver.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:08,981 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/ctdDriver2.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:08,986 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/gps.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:08,993 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/hydroscatlog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,005 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/navigation.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,010 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/isuslog.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,017 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/parosci.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,024 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/tailCone.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,031 archive.py copy_to_AUVTCD():108 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/lopc.nc /Volumes/AUVCTD/missionnetcdfs/2010/2010258/2010.258.06 done. INFO 2025-06-26 15:50:09,031 archive.py copy_to_AUVTCD():116 [1] Archiving product files INFO 2025-06-26 15:50:09,031 archive.py copy_to_AUVTCD():161 [1] copyfile /data/auv_data/dorado/missionnetcdfs/2010.258.06/dorado_2010.258.06_processing.log /Volumes/AUVCTD/surveys/2010/netcdf