2010-06-15 15:40:26,322 DEBUG root about to write control file parameters to --yearbase 2010 --pingtype nb --cfgbase oc463 --cruisename oc463 --instclass os --instname os75 --dbname a_oc --datatype uhdas --datadir /home/data/oc463/raw/os75 --cfgpath /home/data/oc463/proc/os75nb/config --ens_len 300 --ping_headcorr --hcorr_inst ashtech ## not using topo for editing ## using jitter defaults ## not using matplotlib --delblks 1 --skip_avg --find_pflags --hidedisplay --top_plotbin 1 --quiet --auto --npycalc all --mplplots all 2010-06-15 15:40:26,322 DEBUG quick_adcp sys.argv = /home/currents/programs/uhdas/scripts/run_quick.py -d os75nb --npycalc all --mplplots all 2010-06-15 15:40:26,325 DEBUG quick_adcp ------processor dictionary:------ __doc__ __init__ __module__ adcpcal aedit aflagit_setup as_cont as_nav as_vect asetup ashrot btcaluv catnav check_opts cleanup copy_ensfile ddtime def_qlist get_asvars get_cmd_timerange get_data2load_timerange get_filelist get_gyrodh get_headcorrstats get_lstblk_tr get_matcfgstr get_remaining_times get_seapath11dh get_time_range getmat ldcodas list2matcell llgrid loadens loadhdss loadlta loadping loaduh lst_btrk lst_conf lst_hdg lst_temp mpltest opts overlapping plot_lastensq plotbtcal_mpl plothcorr_mpl plotnav_mpl plotrefl_mpl plottemp plottemp_mpl plotwtcal_mpl print_attlog putnav refabs refabsbt refplot refsm rotate rotated run_adcpsect run_applyedit run_calc run_calib run_editsetup run_findpflags run_getheadcorr run_getnav run_listblocks run_loaddata run_lstconfig run_lsttemp run_matfiles run_plotter run_putnav run_rawsetup run_refabs run_refplots run_refsm run_refsm_npy run_rotate run_scandata run_setflags run_smoothr run_updategbin run_xducerxy scanping scanraw setflags smoothr startmatlab timegrid timslip ubprint update_gbin user_defined_headfunc xducerxy zapsetup 2010-06-15 15:40:26,326 DEBUG quick_adcp progdir = /home/currents/programs 2010-06-15 15:40:26,326 DEBUG quick_adcp binos = lnx 2010-06-15 15:40:26,327 INFO quick_setup NOTE: proc_yearbase defaulting to yearbase. specify if different 2010-06-15 15:40:26,327 DEBUG quick_setup yearbase is 2010, proc_yearbase is 2010 2010-06-15 15:40:26,327 DEBUG quick_setup numpy calculations to run: refsm 2010-06-15 15:40:26,327 DEBUG quick_setup mplplots to run: temp, nav, refl, hcorr, wtcal, btcal 2010-06-15 15:40:26,327 DEBUG quick_setup processing data logged with uhdas: 2010-06-15 15:40:26,328 DEBUG quick_setup datatype is uhdas 2010-06-15 15:40:26,328 DEBUG quick_setup pingtype is nb 2010-06-15 15:40:26,329 DEBUG quick_setup instclass is os 2010-06-15 15:40:26,329 DEBUG quick_setup no post-processing heading correction will be used 2010-06-15 15:40:26,329 DEBUG quick_setup transducer depth set in *_cfg.m file 2010-06-15 15:40:26,329 DEBUG quick_subs matcfgstr is: % begin "matcfgstr" string, created by quick_adcp.py instclass = os; instname = 'os75'; pingtype = 'nb'; proc_yearbase = 2010; yearbase = 2010; cfg =get_uhdascfg('cfgbase' , 'oc463',... 'cfgpath' , '/home/data/oc463/proc/os75nb/config',... 'instclass', instclass,... 'instname' , instname,... 'proc_yearbase', proc_yearbase,... 'yearbase', yearbase,... 'pingtype' , pingtype); gbindirbase = cfg.gbindirbase; allparams = cfg.allparams; % end "matcfgstr" string, created by quick_adcp.py 2010-06-15 15:40:26,330 DEBUG quick_setup ------- starting Matlab engine ------- 2010-06-15 15:40:26,330 DEBUG quick_setup ['/home/currents/programs/matlab'] 2010-06-15 15:40:26,335 DEBUG call_matlab starting to wait for initial prompt 2010-06-15 15:40:27,490 DEBUG call_matlab received initial prompt 2010-06-15 15:40:27,787 DEBUG quick_adcp cwd is /home/data/oc463/proc/os75nb about to run these steps:editsetup scandata loaddata setflags getnav get_headcorr rotate adcpsect refabs smoothnav putnav refplots find_pflags apply_edit navsteps lst_temp calib matfiles 2010-06-15 15:40:27,787 DEBUG quick_adcp original fix file is a_oc.gps 2010-06-15 15:40:27,788 DEBUG quick_adcp smoothed nav file is a_oc_refsm.asc 2010-06-15 15:40:27,789 DEBUG quick_asect extracting matlab files for os75, nb pings 2010-06-15 15:40:27,789 DEBUG quick_asect cannot determine top_plotbin. reverting to firstdepth 2010-06-15 15:40:27,790 DEBUG quick_subs found 2 files using wildcard expansion from "/home/data/oc463/raw/os75/*.raw" 2010-06-15 15:40:27,790 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/oc463/raw/os75/oc2010_161_53243.raw /home/data/oc463/raw/os75/oc2010_165_54619.raw 2010-06-15 15:40:27,791 DEBUG quick_adcp LASTFILES invoked. using only 2 files from end of filelist 2010-06-15 15:40:27,791 DEBUG quick_adcp using delblks = 1 2010-06-15 15:40:27,791 DEBUG quick_adcp using data files (as seen from scan/ or load/ directory): /home/data/oc463/raw/os75/oc2010_161_53243.raw /home/data/oc463/raw/os75/oc2010_165_54619.raw 2010-06-15 15:40:27,792 DEBUG quick_adcp Tue Jun 15 15:40:27 2010 running quick_adcp.py as follows: --cntfile /home/data/oc463/proc/os75nb/os75nb_qpy.cnt ----- adcpsect variables ------ afilebase a_oc cbasename contour dbname a_oc dbpath ../adcpdb deeper_boundaries [50, 75, 100, 125, 150, 175, 200, 225, 250, 275, 300, 325, 350, 375, 400, 425, 450, 475, 500, 525, 550, 575, 600, 625, 650, 675, 700, 725, 750, 775] firstdepth 30 gridnum 80 increment 10 loaded_time_range all numbins 128 outdir . pgmin 50 prefix allbins_ proc_yearbase 2010 rl_endbin 20 rl_startbin 2 ss_string separate timegrid 60 vbasename vector ----- quick_adcp.py variables and current values ------ M acc_heading_cutoff 0.065 adjust_time 1 afilebase a_oc allow_reload True auto True beamangle 30 bindir /home/currents/programs/codas3/bin/lnx binos lnx btrk_step 1 cfgbase oc463 cfgpath /home/data/oc463/proc/os75nb/config cntfile /home/data/oc463/proc/os75nb/os75nb_qpy.cnt commands None cruisename oc463 data_def vmadcp.def datadir /home/data/oc463/raw/os75 datafile_glob *.raw datatype uhdas dbname a_oc dday_bailout None debug False delblks 1 diarystr %% no diary written %% displaystr set(0,'defaultfigureposition',[0 0 300 400]) set(0,'defaultfiguremenubar','none') set(0,'defaultfiguretoolbar','none') ducer_depth 0 editcfg_file override_editcfg enddday_file None ens_halign None ens_len 300 ensgyrorbin False expert None filelist ['/home/data/oc463/raw/os75/oc2010_161_53243.raw', '/home/data/oc463/raw/os75/oc2010_165_54619.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 30 fixfile a_oc.gps hcorr_inst ashtech head_func None help False hidedisplay True howto_lta False howto_ping False incremental False instclass os instname os75 jitter 15 lastfiles False matcfgstr % begin "matcfgstr" string, created by quick_adcp.py instclass = os; instname = 'os75'; pingtype = 'nb'; proc_yearbase = 2010; yearbase = 2010; cfg =get_uhdascfg('cfgbase' , 'oc463',... 'cfgpath' , '/home/data/oc463/proc/os75nb/config',... 'instclass', instclass,... 'instname' , instname,... 'proc_yearbase', proc_yearbase,... 'yearbase', yearbase,... 'pingtype' , pingtype); gbindirbase = cfg.gbindirbase; allparams = cfg.allparams; % end "matcfgstr" string, created by quick_adcp.py max_BLKprofiles 399 maxrunsecs None min_filter_fraction 0.5 mplplots ['temp', 'nav', 'refl', 'hcorr', 'wtcal', 'btcal'] nosave_editcfg 0 npycalc ['refsm'] num_persistence 24 numbins 128 orig_fixfile a_oc.gps overview False pgmin 50 ping_headcorr True pingtype nb post_headcorr False printformats png proc_yearbase 2010 procdir os75nb progdir /home/currents/programs quiet True rawstd_cutoff None rl_endbin 20 rl_startbin 2 rotate_amplitude 1 rotate_angle 0 rotate_file None save_editcfg 1 save_lastens 0 scanfilelist ['/home/data/oc463/raw/os75/oc2010_161_53243.raw', '/home/data/oc463/raw/os75/oc2010_165_54619.raw'] setup_info False skip_avg True smfile a_oc_refsm.asc steps2rerun time_angle_base ens_hcorr time_angle_file ens_hcorr.ang timeout_secs 86400 tips False tktail False top_plotbin 1 ub_type 1920 update_gbin False use_refsm True use_smoothr False use_topo4edit 0 vardoc False varvals False wtrk_step 7 xducer_dx False xducer_dy False yearbase 2010 configured to run the following steps: editsetup scandata loaddata setflags getnav get_headcorr rotate adcpsect refabs smoothnav putnav refplots find_pflags apply_edit navsteps lst_temp calib matfiles 2010-06-15 15:40:27,793 DEBUG quick_run ------------ step 1: scan data (create .scn file) ------------- 2010-06-15 15:40:27,793 DEBUG quick_run scanning files for time ranges... 2010-06-15 15:40:27,793 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb/scan 2010-06-15 15:40:27,793 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/scan 2010-06-15 15:40:27,794 DEBUG quick_setup running python command "scanraw" 2010-06-15 15:40:27,794 DEBUG call_matlab --> clear all 2010-06-15 15:40:27,800 DEBUG call_matlab <-- >> 2010-06-15 15:40:27,800 DEBUG call_matlab --> close all 2010-06-15 15:40:27,870 DEBUG call_matlab <-- >> 2010-06-15 15:40:27,870 DEBUG call_matlab --> cd /home/data/oc463/proc/os75nb/scan 2010-06-15 15:40:27,873 DEBUG call_matlab <-- >> 2010-06-15 15:40:27,873 DEBUG call_matlab --> scan_tmp 2010-06-15 15:40:28,889 DEBUG call_matlab <-- getting config files from "/home/data/oc463/proc/os75nb/config" running "oc463_cfg.m" running "oc463_proc.m" writing scan info to a_oc.scn >> 2010-06-15 15:40:28,890 DEBUG quick_run writing time range from a_oc.scn to a_oc.tr 2010-06-15 15:40:28,890 DEBUG quick_run getting scan time range 2010-06-15 15:40:28,890 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,891 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/scan 2010-06-15 15:40:28,891 DEBUG quick_setup running python command "get_time_range" 2010-06-15 15:40:28,891 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2010-06-15 15:40:28,892 DEBUG quick_subs extracting time range 2010-06-15 15:40:28,894 DEBUG quick_subs start_end_time 2010/06/11 14:47:26 to 2010/06/15 15:35:42 2010-06-15 15:40:28,894 DEBUG quick_subs dd0: 161.616273 dd1: 165.649792 2010-06-15 15:40:28,894 DEBUG quick_adcp in quick_adcp.py: after scan, about to look for database timesin /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,895 DEBUG quick_adcp looking for database with adcpdb/a_oc*.blk 2010-06-15 15:40:28,896 DEBUG quick_adcp no database found 2010-06-15 15:40:28,896 DEBUG quick_adcp in quick_adcp.py: before load, just looked for database times 2010-06-15 15:40:28,896 DEBUG quick_adcp origdb_time_range is 1970/01/01 01:00:00 to 1970/01/01 01:01:01 2010-06-15 15:40:28,896 DEBUG quick_adcp (-10000.000000 to -10001.000000) 2010-06-15 15:40:28,897 DEBUG quick_run ------------ step 2: load data into codas database ------------- 2010-06-15 15:40:28,897 DEBUG quick_subs getting current (remaining after deletion) database times 2010-06-15 15:40:28,897 DEBUG quick_subs [] 2010-06-15 15:40:28,897 DEBUG quick_subs length is 0 2010-06-15 15:40:28,898 DEBUG quick_subs getting current (remaining after deletion) database times 2010-06-15 15:40:28,898 DEBUG quick_subs [] 2010-06-15 15:40:28,898 DEBUG quick_subs length is 0 2010-06-15 15:40:28,899 DEBUG quick_subs codas database currently goes from 1970/01/01 01:00:00 to 1970/01/01 01:01:01 2010-06-15 15:40:28,899 DEBUG quick_subs (-10000.000000 to -10001.000000) 2010-06-15 15:40:28,899 DEBUG quick_subs 2010-06-15 15:40:28,900 DEBUG quick_subs found existing ens_blk files: 001 2010-06-15 15:40:28,900 DEBUG quick_subs checked: loaded blkstrs: [] 2010-06-15 15:40:28,900 DEBUG quick_subs checked: unloaded blkstrs: ['001'] 2010-06-15 15:40:28,901 DEBUG quick_subs first unloaded file is load/ens_blk001.cmd 2010-06-15 15:40:28,901 DEBUG quick_subs data goes from 2010/06/15 15:15:23 to 2010/06/15 15:35:42 2010-06-15 15:40:28,901 DEBUG quick_subs (165.635683 to 165.649792) 2010-06-15 15:40:28,902 DEBUG quick_run using data files (as seen from scan/ or load/ directory): /home/data/oc463/raw/os75/oc2010_161_53243.raw /home/data/oc463/raw/os75/oc2010_165_54619.raw 2010-06-15 15:40:28,902 INFO quick_run Tue Jun 15 15:40:28 2010 2010-06-15 15:40:28,902 INFO quick_run about to load uhdas files 2010-06-15 15:40:28,902 INFO quick_run /home/data/oc463/raw/os75/oc2010_161_53243.raw /home/data/oc463/raw/os75/oc2010_165_54619.raw 2010-06-15 15:40:28,902 DEBUG quick_setup making load/ldcodas.tmp 2010-06-15 15:40:28,903 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,903 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/load 2010-06-15 15:40:28,903 DEBUG quick_setup running python command "ldcodas" 2010-06-15 15:40:28,903 DEBUG quick_subs in /home/data/oc463/proc/os75nb/load 2010-06-15 15:40:28,904 DEBUG quick_subs found block strings: [] 2010-06-15 15:40:28,904 DEBUG quick_subs found cmd blk strings: ['001'] 2010-06-15 15:40:28,904 DEBUG quick_subs starttime is 2010/06/15 15:15:23 2010-06-15 15:40:28,905 DEBUG quick_subs RESETTING thisload_time_range 2010-06-15 15:40:28,905 DEBUG quick_subs time range of data to be loaded: 2010/06/15 15:15:23 to 2010/06/15 15:35:42 2010-06-15 15:40:28,905 DEBUG quick_subs data startdd 165.635683 data enddd 165.649792 2010-06-15 15:40:28,905 DEBUG quick_subs about to load from these cmd files ['ens_blk001.cmd'] 2010-06-15 15:40:28,906 DEBUG quick_subs DATABASE_NAME: ../adcpdb/a_oc DEFINITION_FILE: vmadcp.def LOG_FILE: load.log YEAR_BASE: 2010 cmd_file_list /* use only if specifying cmd paths, not "@" */ END ./ens_blk001.cmd 2010-06-15 15:40:28,906 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/ldcodas ldcodas.tmp 2010-06-15 15:40:28,949 DEBUG quick_subs removing a_ocdir.blk 2010-06-15 15:40:28,950 DEBUG quick_subs about to run mkblkdir 2010-06-15 15:40:28,950 DEBUG quick_subs database still exists; rerunning mkdirblk 2010-06-15 15:40:28,950 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2010-06-15 15:40:28,981 DEBUG quick_subs database passes. 2010-06-15 15:40:28,981 DEBUG quick_subs writing time range from a_oc.lst to a_oc.tr 2010-06-15 15:40:28,981 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,982 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/adcpdb 2010-06-15 15:40:28,982 DEBUG quick_setup running python command "get_time_range" 2010-06-15 15:40:28,982 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2010-06-15 15:40:28,982 DEBUG quick_subs extracting time range 2010-06-15 15:40:28,983 DEBUG quick_subs start_end_time 2010/06/15 15:15:23 to 2010/06/15 15:35:26 2010-06-15 15:40:28,983 DEBUG quick_subs dd0: 165.635683 dd1: 165.649606 2010-06-15 15:40:28,983 DEBUG quick_subs writing time range from a_oc.lst to a_oc.tr 2010-06-15 15:40:28,984 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,984 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/adcpdb 2010-06-15 15:40:28,984 DEBUG quick_setup running python command "get_time_range" 2010-06-15 15:40:28,984 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2010-06-15 15:40:28,985 DEBUG quick_subs extracting time range 2010-06-15 15:40:28,985 DEBUG quick_subs start_end_time 2010/06/15 15:15:23 to 2010/06/15 15:35:26 2010-06-15 15:40:28,985 DEBUG quick_subs dd0: 165.635683 dd1: 165.649606 2010-06-15 15:40:28,986 DEBUG quick_adcp loaded_time_range is 2010/06/15 15:15:23 to 2010/06/15 15:35:26 2010-06-15 15:40:28,986 DEBUG quick_adcp (165.635683 to 165.649606) 2010-06-15 15:40:28,986 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:28,986 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/adcpdb 2010-06-15 15:40:28,987 DEBUG quick_setup running python command "lst_conf" 2010-06-15 15:40:28,987 DEBUG quick_subs dbname: a_oc output: a_oc.cnh time_ranges: all 2010-06-15 15:40:28,987 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_conf lst_conf.tmp 2010-06-15 15:40:28,999 DEBUG quick_run ------------ step 3 (create suitable setup files for editing) ------------- 2010-06-15 15:40:28,999 DEBUG quick_run executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,000 DEBUG quick_run setup.m exists. not replacing 2010-06-15 15:40:29,000 DEBUG quick_run making asetup.m 2010-06-15 15:40:29,000 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,000 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,001 DEBUG quick_setup running python command "asetup" 2010-06-15 15:40:29,014 DEBUG quick_run making aflagit_setup.m 2010-06-15 15:40:29,014 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,015 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,015 DEBUG quick_setup running python command "aflagit_setup" 2010-06-15 15:40:29,018 DEBUG quick_run ------------ step 4: run setflags ------------- 2010-06-15 15:40:29,018 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:29,019 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:29,019 DEBUG quick_setup running python command "setflags" 2010-06-15 15:40:29,019 DEBUG quick_subs dbname: ../adcpdb/a_oc pg_min: 50 set_range_bit time_ranges: all 2010-06-15 15:40:29,020 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2010-06-15 15:40:29,035 DEBUG quick_run ------------ step 5: get fixes from load/*.gps2 files ------------- 2010-06-15 15:40:29,036 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:29,036 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:29,036 DEBUG quick_setup running python command "catnav" 2010-06-15 15:40:29,037 DEBUG quick_run ------------ step 6: get heading correction (if applicable) ------------- 2010-06-15 15:40:29,038 DEBUG quick_run hcorr_inst is ashtech 2010-06-15 15:40:29,038 DEBUG quick_setup making cal/rotate/lst_hdg.tmp 2010-06-15 15:40:29,038 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:29,038 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/rotate 2010-06-15 15:40:29,039 DEBUG quick_setup running python command "lst_hdg" 2010-06-15 15:40:29,039 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: scn.hdg step_size= 1 year_base= 2010 time_ranges: all 2010-06-15 15:40:29,039 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_hdg lst_hdg.tmp 2010-06-15 15:40:29,047 DEBUG quick_mpl Starting plot: hcorr 2010-06-15 15:40:29,054 DEBUG quick_mplplots found 0.013928 days of data 2010-06-15 15:40:29,055 DEBUG quick_mplplots figures with 4 panels per page, 1.000000 days per panel 2010-06-15 15:40:29,055 DEBUG quick_mplplots printing 1 pages 2010-06-15 15:40:30,022 DEBUG quick_mpl Ending plot: hcorr 2010-06-15 15:40:30,022 DEBUG quick_run ------------ step 7: rotate ------------- 2010-06-15 15:40:30,022 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,022 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/rotate 2010-06-15 15:40:30,023 DEBUG quick_setup running python command "rotated" 2010-06-15 15:40:30,023 DEBUG quick_subs No existing file: rotate.log 2010-06-15 15:40:30,023 DEBUG quick_setup making cal/rotate/rotate.tmp 2010-06-15 15:40:30,024 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,024 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/rotate 2010-06-15 15:40:30,024 DEBUG quick_setup running python command "rotate" 2010-06-15 15:40:30,024 DEBUG quick_subs DB_NAME: ../../adcpdb/a_oc LOG_FILE: rotate.log TIME_RANGE: 2010/06/15 15:15:23 to 2010/06/15 15:35:42 /* only from scanned files */ OPTION_LIST: water_and_bottom_track: year_base= 2010 /* time_angle_file: (NOT USED -- rotation is done in ensembles) */ amplitude= 1 angle_0= 0 end end 2010-06-15 15:40:30,025 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/rotate rotate.tmp 2010-06-15 15:40:30,035 DEBUG quick_run ------------ step 8: run adcpsect (for calib) ------------- 2010-06-15 15:40:30,035 DEBUG quick_setup making nav/as_nav.tmp 2010-06-15 15:40:30,035 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,036 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:30,036 DEBUG quick_setup running python command "as_nav" 2010-06-15 15:40:30,036 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc step_size: 1 ndepth: 20 time_ranges: separate year_base= 2010 option_list: pg_min= 50 navigation: reference_bins 2 to 20 end statistics: mean units= 0.01 /* cm/s instead of default m/s */ end flag_mask: ALL_BITS end end 2010/06/15 15:15:23 to 2010/06/15 15:35:26 /* the whole time range */ 2010-06-15 15:40:30,037 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2010-06-15 15:40:30,072 DEBUG quick_run ------------ step 9: run refabs (for calib) ------------- 2010-06-15 15:40:30,072 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,072 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:30,073 DEBUG quick_setup running python command "refabs" 2010-06-15 15:40:30,073 DEBUG quick_subs fix_file_type: simple reference_file: a_oc.nav fix_file: a_oc.gps output: a_oc.ref year_base= 2010 ensemble_length= 300 gap_tolerance= 10 2010-06-15 15:40:30,073 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2010-06-15 15:40:30,081 DEBUG quick_run ------------ step 10: get smoothed navigation (for calib) ------------- 2010-06-15 15:40:30,082 DEBUG quick_setup making nav/smoothr.tmp 2010-06-15 15:40:30,082 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,082 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:30,082 DEBUG quick_setup running python command "smoothr" 2010-06-15 15:40:30,083 DEBUG quick_subs reference_file: a_oc.nav refabs_output: a_oc.ref output: a_oc.sm filter_hwidth= 0.0208 min_filter_fraction= 0.5 max_gap_ratio= 0.05 max_gap_distance= 50 max_gap_time= 30 /* 0.5 minutes */ ensemble_time= 300 max_speed= 5.0 min_speed= 1.0 iterations= 5 fix_to_dr_limit= 0.00050 2010-06-15 15:40:30,083 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2010-06-15 15:40:30,092 DEBUG quick_adcp about to run numpy refsm 2010-06-15 15:40:30,093 DEBUG quick_npy Starting: refsm 2010-06-15 15:40:30,109 INFO nav dtmin = -0.46 dtmax = 0.33 2010-06-15 15:40:30,207 DEBUG quick_npy Ending: refsm 2010-06-15 15:40:30,208 DEBUG quick_run ------------ step 11: put smoothed navigation back into database ------------- 2010-06-15 15:40:30,208 DEBUG quick_setup making nav/putnav.tmp 2010-06-15 15:40:30,208 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:30,208 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:30,209 DEBUG quick_setup running python command "putnav" 2010-06-15 15:40:30,209 DEBUG quick_subs dbname: ../adcpdb/a_oc position_file: a_oc_refsm.asc year_base= 2010 tolerance= 5 navigation_sources: gps end 2010-06-15 15:40:30,209 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2010-06-15 15:40:30,219 DEBUG quick_adcp plotting navigation 2010-06-15 15:40:30,222 DEBUG quick_mpl Starting plot: nav 2010-06-15 15:40:31,017 DEBUG quick_mpl Ending plot: nav 2010-06-15 15:40:31,018 DEBUG quick_mpl Starting plot: refl 2010-06-15 15:40:31,020 WARNING quick_mplplots No refabs data found 2010-06-15 15:40:31,033 DEBUG quick_mpl Ending plot: refl 2010-06-15 15:40:31,033 DEBUG quick_run ------------ step 13: automatically find profile flags ------------- 2010-06-15 15:40:31,033 DEBUG quick_run find profile flags ------------ *** ------------- 2010-06-15 15:40:31,034 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:31,034 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:31,034 DEBUG quick_setup running python command "aedit" 2010-06-15 15:40:32,555 DEBUG quick_run ------------ step 14: apply all profile flags to database ------------- 2010-06-15 15:40:32,556 DEBUG quick_run starting in: /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,556 DEBUG quick_run executing commands from: edit 2010-06-15 15:40:32,559 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/dbupdate ../adcpdb/a_oc abadprf_tmp.asc 2010-06-15 15:40:32,582 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/badbin ../adcpdb/a_oc abadbin_tmp.asc 2010-06-15 15:40:32,591 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/set_lgb ../adcpdb/a_oc 30 2010-06-15 15:40:32,606 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2010-06-15 15:40:32,613 DEBUG quick_run changing directories back to /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,613 DEBUG quick_adcp ------------ step 15: rerun nav steps, redo reflayer plots ------------- 2010-06-15 15:40:32,614 DEBUG quick_run ------------ step 8: run adcpsect (for calib) ------------- 2010-06-15 15:40:32,614 DEBUG quick_setup nav/as_nav.tmp exists 2010-06-15 15:40:32,614 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,614 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:32,615 DEBUG quick_setup running python command "as_nav" 2010-06-15 15:40:32,615 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc step_size: 1 ndepth: 20 time_ranges: separate year_base= 2010 option_list: pg_min= 50 navigation: reference_bins 2 to 20 end statistics: mean units= 0.01 /* cm/s instead of default m/s */ end flag_mask: ALL_BITS end end 2010/06/15 15:15:23 to 2010/06/15 15:35:26 /* the whole time range */ 2010-06-15 15:40:32,615 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2010-06-15 15:40:32,625 DEBUG quick_run ------------ step 9: run refabs (for calib) ------------- 2010-06-15 15:40:32,625 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,625 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:32,626 DEBUG quick_setup running python command "refabs" 2010-06-15 15:40:32,626 DEBUG quick_subs fix_file_type: simple reference_file: a_oc.nav fix_file: a_oc.gps output: a_oc.ref year_base= 2010 ensemble_length= 300 gap_tolerance= 10 2010-06-15 15:40:32,626 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2010-06-15 15:40:32,633 DEBUG quick_run ------------ step 10: get smoothed navigation (for calib) ------------- 2010-06-15 15:40:32,633 DEBUG quick_setup nav/smoothr.tmp exists 2010-06-15 15:40:32,633 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,634 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:32,634 DEBUG quick_setup running python command "smoothr" 2010-06-15 15:40:32,634 DEBUG quick_subs reference_file: a_oc.nav refabs_output: a_oc.ref output: a_oc.sm filter_hwidth= 0.0208 min_filter_fraction= 0.5 max_gap_ratio= 0.05 max_gap_distance= 50 max_gap_time= 30 /* 0.5 minutes */ ensemble_time= 300 max_speed= 5.0 min_speed= 1.0 iterations= 5 fix_to_dr_limit= 0.00050 2010-06-15 15:40:32,635 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2010-06-15 15:40:32,669 DEBUG quick_adcp running refsm 2010-06-15 15:40:32,669 DEBUG quick_npy Starting: refsm 2010-06-15 15:40:32,697 INFO nav dtmin = -0.46 dtmax = 0.33 2010-06-15 15:40:32,737 DEBUG quick_npy Ending: refsm 2010-06-15 15:40:32,737 DEBUG quick_run ------------ step 11: put smoothed navigation back into database ------------- 2010-06-15 15:40:32,737 DEBUG quick_setup nav/putnav.tmp exists 2010-06-15 15:40:32,737 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:32,738 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:32,738 DEBUG quick_setup running python command "putnav" 2010-06-15 15:40:32,738 DEBUG quick_subs dbname: ../adcpdb/a_oc position_file: a_oc_refsm.asc year_base= 2010 tolerance= 5 navigation_sources: gps end 2010-06-15 15:40:32,738 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2010-06-15 15:40:32,745 DEBUG quick_mpl Starting plot: nav 2010-06-15 15:40:33,536 DEBUG quick_mpl Ending plot: nav 2010-06-15 15:40:33,536 DEBUG quick_mpl Starting plot: refl 2010-06-15 15:40:33,539 WARNING quick_mplplots No refabs data found 2010-06-15 15:40:33,539 DEBUG quick_mpl Ending plot: refl 2010-06-15 15:40:33,539 DEBUG quick_run ------------ step 16: list temperature and plot it ------------- 2010-06-15 15:40:33,540 DEBUG quick_setup making edit/lst_temp.tmp 2010-06-15 15:40:33,540 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:33,540 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/edit 2010-06-15 15:40:33,540 DEBUG quick_setup running python command "lst_temp" 2010-06-15 15:40:33,540 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc.tem step_size= 1 year_base= 2010 time_ranges: all 2010-06-15 15:40:33,541 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_temp lst_temp.tmp 2010-06-15 15:40:33,549 DEBUG quick_mpl Starting plot: temp 2010-06-15 15:40:33,552 DEBUG quick_mplplots plotting 5 points 2010-06-15 15:40:34,174 DEBUG quick_mpl Ending plot: temp 2010-06-15 15:40:34,174 DEBUG quick_run ------------ step 17: bottom track and watertrack calibrations ------------- 2010-06-15 15:40:34,174 DEBUG quick_setup making cal/botmtrk/lst_btrk.tmp 2010-06-15 15:40:34,175 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,175 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/botmtrk 2010-06-15 15:40:34,175 DEBUG quick_setup running python command "lst_btrk" 2010-06-15 15:40:34,175 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: a_oc.btm step_size= 1 year_base= 2010 time_ranges: 2010/06/15 15:15:23 to 2010/06/15 15:35:26 /* whole time range */ 2010-06-15 15:40:34,176 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_btrk lst_btrk.tmp 2010-06-15 15:40:34,190 DEBUG quick_setup making cal/botmtrk/refabsbt.tmp 2010-06-15 15:40:34,191 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,191 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/botmtrk 2010-06-15 15:40:34,191 DEBUG quick_setup running python command "refabsbt" 2010-06-15 15:40:34,191 DEBUG quick_subs fix_file_type: simple reference_file: a_oc.btm fix_file: ../../nav/a_oc.gps output: a_oc.ref year_base= 2010 ensemble_length= 300 gap_tolerance= 60 2010-06-15 15:40:34,192 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabsbt refabsbt.tmp 2010-06-15 15:40:34,199 DEBUG quick_mpl Starting plot: btcal 2010-06-15 15:40:34,201 DEBUG quick_mplplots No data in a_oc.btm 2010-06-15 15:40:34,201 DEBUG quick_mplplots Returning from Btplot with no output 2010-06-15 15:40:34,201 DEBUG quick_mpl Ending plot: btcal 2010-06-15 15:40:34,201 DEBUG quick_setup nav/as_nav.tmp exists 2010-06-15 15:40:34,202 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,202 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/nav 2010-06-15 15:40:34,202 DEBUG quick_setup running python command "as_nav" 2010-06-15 15:40:34,202 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc step_size: 1 ndepth: 20 time_ranges: separate year_base= 2010 option_list: pg_min= 50 navigation: reference_bins 2 to 20 end statistics: mean units= 0.01 /* cm/s instead of default m/s */ end flag_mask: ALL_BITS end end 2010/06/15 15:15:23 to 2010/06/15 15:35:26 /* the whole time range */ 2010-06-15 15:40:34,203 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2010-06-15 15:40:34,210 DEBUG quick_setup making cal/watertrk/timslip.tmp 2010-06-15 15:40:34,211 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,211 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/cal/watertrk 2010-06-15 15:40:34,211 DEBUG quick_setup running python command "timslip" 2010-06-15 15:40:34,212 DEBUG quick_subs fix_file_type: simple fix_file: ../../nav/a_oc.gps reference_file: ../../nav/a_oc.nav output_file: a_oc_7.cal year_base= 2010 min_n_fixes= 7 /* 5 7 9 */ n_refs= 7 /* 5 7 9 */ i_ref_l0= 1 i_ref_l1= 2 /* 1 2 3 */ i_ref_r0= 5 /* 4 5 6 */ i_ref_r1= 6 /* 4 6 8 */ up_thresh= 3.0 /* m/s */ down_thresh= 3.0 /* m/s */ turn_speed= 2.0 /* m/s */ turn_thresh= 60 /* degrees */ dtmax= 360 /* seconds, for 300-second ensembles */ tolerance= 5.e-5 /* days, about 5 seconds */ grid: ensemble use_shifted_times? no 2010-06-15 15:40:34,212 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timslip timslip.tmp 2010-06-15 15:40:34,220 DEBUG quick_mpl Starting plot: wtcal 2010-06-15 15:40:34,222 DEBUG quick_mplplots No calibration points found 2010-06-15 15:40:34,222 DEBUG quick_mpl Ending plot: wtcal 2010-06-15 15:40:34,222 DEBUG quick_asect ------------ step 18: make matlab files for plotting ------------- 2010-06-15 15:40:34,223 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,223 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/vector 2010-06-15 15:40:34,223 DEBUG quick_setup running python command "timegrid" 2010-06-15 15:40:34,224 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2010-06-15 15:40:34,255 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,255 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/vector 2010-06-15 15:40:34,255 DEBUG quick_setup running python command "as_vect" 2010-06-15 15:40:34,256 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_vect.tmp 2010-06-15 15:40:34,271 DEBUG quick_asect done making vector matfiles 2010-06-15 15:40:34,273 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,273 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/contour 2010-06-15 15:40:34,274 DEBUG quick_setup running python command "timegrid" 2010-06-15 15:40:34,274 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2010-06-15 15:40:34,290 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,291 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/contour 2010-06-15 15:40:34,291 DEBUG quick_setup running python command "as_cont" 2010-06-15 15:40:34,292 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_cont.tmp 2010-06-15 15:40:34,325 DEBUG quick_setup starting in /home/data/oc463/proc/os75nb 2010-06-15 15:40:34,326 DEBUG quick_setup executing commands from /home/data/oc463/proc/os75nb/contour 2010-06-15 15:40:34,326 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_oc 2010-06-15 15:40:34,344 DEBUG quick_asect done running getmat with "allbins" 2010-06-15 15:40:34,406 INFO root copying NOFIG to /home/adcp/www/figures/os75nb_hcorr_plot.png 2010-06-15 15:40:34,407 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/os75nb_hcorr_plot_thumb.png 2010-06-15 15:40:34,407 DEBUG root matfile is contour/contour_uv.mat 2010-06-15 15:40:34,408 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/os75nb_cont_uv.mat 2010-06-15 15:40:34,408 DEBUG root matfile is vector/vector_uv.mat 2010-06-15 15:40:34,409 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/os75nb_vect_uv.mat 2010-06-15 15:40:34,409 DEBUG root matfile is contour/contour_xy.mat 2010-06-15 15:40:34,409 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/os75nb_cont_xy.mat 2010-06-15 15:40:34,410 DEBUG root matfile is vector/vector_xy.mat 2010-06-15 15:40:34,410 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/os75nb_vect_xy.mat 2010-06-15 15:40:34,411 DEBUG root about to copy file edit/a_oc.tem to /home/adcp/www/data/os75nb_temp.asc 2010-06-15 15:40:34,411 INFO root copying edit/a_oc.tem to /home/adcp/www/data/os75nb_temp.asc 2010-06-15 15:40:34,411 INFO root Ending quick_adcp.py 2010-06-15 15:40:34,484 DEBUG quick_setup killed matlab engine