2009-07-19 17:51:11,413 DEBUG root about to write control file parameters to --yearbase 2009 --pingtype nb --cfgbase pierside_Snug --cruisename pierside_Snug --instclass os --instname os38 --dbname a_km --datatype uhdas --datadir /home/data/pierside_Snug/raw/os38 --cfgpath /home/data/pierside_Snug/proc/os38nb/config --ens_len 300 --ping_headcorr --hcorr_inst posmv --use_topo4edit ## using jitter defaults ## not using matplotlib --delblks 1 --skip_avg --find_pflags --hidedisplay --top_plotbin 1 --quiet --auto --acc_heading_cutoff 0.018000 --npycalc all --mplplots all 2009-07-19 17:51:11,413 DEBUG quick_adcp sys.argv = /home/currents/programs/uhdas/scripts/run_quick.py -d os38nb --npycalc all --mplplots all 2009-07-19 17:51:11,416 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 2009-07-19 17:51:11,416 DEBUG quick_adcp progdir = /home/currents/programs 2009-07-19 17:51:11,417 DEBUG quick_adcp binos = lnx 2009-07-19 17:51:11,417 INFO quick_setup NOTE: proc_yearbase defaulting to yearbase. specify if different 2009-07-19 17:51:11,417 DEBUG quick_setup yearbase is 2009, proc_yearbase is 2009 2009-07-19 17:51:11,417 DEBUG quick_setup numpy calculations to run: refsm 2009-07-19 17:51:11,418 DEBUG quick_setup mplplots to run: temp, nav, refl, hcorr, wtcal, btcal 2009-07-19 17:51:11,418 DEBUG quick_setup processing data logged with uhdas: 2009-07-19 17:51:11,418 DEBUG quick_setup datatype is uhdas 2009-07-19 17:51:11,418 DEBUG quick_setup pingtype is nb 2009-07-19 17:51:11,418 DEBUG quick_setup instclass is os 2009-07-19 17:51:11,418 DEBUG quick_setup no post-processing heading correction will be used 2009-07-19 17:51:11,419 DEBUG quick_setup transducer depth set in *_cfg.m file 2009-07-19 17:51:11,437 DEBUG quick_subs matcfgstr is: % begin "matcfgstr" string, created by quick_adcp.py instclass = os; instname = 'os38'; pingtype = 'nb'; proc_yearbase = 2009; yearbase = 2009; cfg =get_uhdascfg('cfgbase' , 'pierside_Snug',... 'cfgpath' , '/home/data/pierside_Snug/proc/os38nb/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 2009-07-19 17:51:11,437 DEBUG quick_setup ------- starting Matlab engine ------- 2009-07-19 17:51:11,437 DEBUG quick_setup ['/home/currents/programs/matlab'] 2009-07-19 17:51:11,441 DEBUG call_matlab starting to wait for initial prompt 2009-07-19 17:51:12,333 DEBUG call_matlab received initial prompt 2009-07-19 17:51:12,543 DEBUG quick_adcp cwd is /home/data/pierside_Snug/proc/os38nb 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 2009-07-19 17:51:12,543 DEBUG quick_adcp original fix file is a_km.gps 2009-07-19 17:51:12,543 DEBUG quick_adcp smoothed nav file is a_km_refsm.asc 2009-07-19 17:51:12,544 DEBUG quick_asect extracting matlab files for os38, nb pings 2009-07-19 17:51:12,550 DEBUG quick_subs found 25 files using wildcard expansion from "/home/data/pierside_Snug/raw/os38/*.raw" 2009-07-19 17:51:12,550 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/pierside_Snug/raw/os38/km2009_197_64220.raw /home/data/pierside_Snug/raw/os38/km2009_197_64800.raw /home/data/pierside_Snug/raw/os38/km2009_197_72000.raw /home/data/pierside_Snug/raw/os38/km2009_197_79200.raw /home/data/pierside_Snug/raw/os38/km2009_198_00000.raw /home/data/pierside_Snug/raw/os38/km2009_198_07200.raw /home/data/pierside_Snug/raw/os38/km2009_198_14400.raw /home/data/pierside_Snug/raw/os38/km2009_198_21600.raw /home/data/pierside_Snug/raw/os38/km2009_198_28800.raw /home/data/pierside_Snug/raw/os38/km2009_198_36000.raw /home/data/pierside_Snug/raw/os38/km2009_198_43200.raw /home/data/pierside_Snug/raw/os38/km2009_198_50400.raw /home/data/pierside_Snug/raw/os38/km2009_198_57600.raw /home/data/pierside_Snug/raw/os38/km2009_198_64800.raw /home/data/pierside_Snug/raw/os38/km2009_198_72000.raw /home/data/pierside_Snug/raw/os38/km2009_198_79200.raw /home/data/pierside_Snug/raw/os38/km2009_199_00000.raw /home/data/pierside_Snug/raw/os38/km2009_199_07200.raw /home/data/pierside_Snug/raw/os38/km2009_199_14400.raw /home/data/pierside_Snug/raw/os38/km2009_199_21600.raw /home/data/pierside_Snug/raw/os38/km2009_199_28800.raw /home/data/pierside_Snug/raw/os38/km2009_199_36000.raw /home/data/pierside_Snug/raw/os38/km2009_199_43200.raw /home/data/pierside_Snug/raw/os38/km2009_199_50400.raw /home/data/pierside_Snug/raw/os38/km2009_199_57600.raw 2009-07-19 17:51:12,550 DEBUG quick_adcp LASTFILES invoked. using only 25 files from end of filelist 2009-07-19 17:51:12,551 DEBUG quick_adcp using delblks = 1 2009-07-19 17:51:12,551 DEBUG quick_adcp using data files (as seen from scan/ or load/ directory): /home/data/pierside_Snug/raw/os38/km2009_197_64220.raw /home/data/pierside_Snug/raw/os38/km2009_197_64800.raw /home/data/pierside_Snug/raw/os38/km2009_197_72000.raw /home/data/pierside_Snug/raw/os38/km2009_197_79200.raw /home/data/pierside_Snug/raw/os38/km2009_198_00000.raw /home/data/pierside_Snug/raw/os38/km2009_198_07200.raw /home/data/pierside_Snug/raw/os38/km2009_198_14400.raw /home/data/pierside_Snug/raw/os38/km2009_198_21600.raw /home/data/pierside_Snug/raw/os38/km2009_198_28800.raw /home/data/pierside_Snug/raw/os38/km2009_198_36000.raw /home/data/pierside_Snug/raw/os38/km2009_198_43200.raw /home/data/pierside_Snug/raw/os38/km2009_198_50400.raw /home/data/pierside_Snug/raw/os38/km2009_198_57600.raw /home/data/pierside_Snug/raw/os38/km2009_198_64800.raw /home/data/pierside_Snug/raw/os38/km2009_198_72000.raw /home/data/pierside_Snug/raw/os38/km2009_198_79200.raw /home/data/pierside_Snug/raw/os38/km2009_199_00000.raw /home/data/pierside_Snug/raw/os38/km2009_199_07200.raw /home/data/pierside_Snug/raw/os38/km2009_199_14400.raw /home/data/pierside_Snug/raw/os38/km2009_199_21600.raw /home/data/pierside_Snug/raw/os38/km2009_199_28800.raw /home/data/pierside_Snug/raw/os38/km2009_199_36000.raw /home/data/pierside_Snug/raw/os38/km2009_199_43200.raw /home/data/pierside_Snug/raw/os38/km2009_199_50400.raw /home/data/pierside_Snug/raw/os38/km2009_199_57600.raw 2009-07-19 17:51:12,552 DEBUG quick_adcp Sun Jul 19 17:51:12 2009 running quick_adcp.py as follows: --cntfile /home/data/pierside_Snug/proc/os38nb/os38nb_qpy.cnt ----- adcpsect variables ------ afilebase a_km cbasename contour dbname a_km dbpath ../adcpdb deeper_boundaries [100, 150, 200, 250, 300, 350, 400, 450, 500, 550, 600, 650, 700, 750, 800, 850, 900, 950, 1000, 1050, 1100, 1150, 1200, 1250, 1300, 1350, 1400, 1450, 1500, 1550, 1600] firstdepth 46 gridnum 80 increment 20 loaded_time_range all numbins 128 outdir . pgmin 50 prefix allbins_ proc_yearbase 2009 rl_endbin 20 rl_startbin 2 ss_string separate timegrid 60 vbasename vector ----- quick_adcp.py variables and current values ------ M acc_heading_cutoff 0.018 adjust_time 1 afilebase a_km allow_reload True auto True beamangle 30 bindir /home/currents/programs/codas3/bin/lnx binos lnx btrk_step 1 cfgbase pierside_Snug cfgpath /home/data/pierside_Snug/proc/os38nb/config cntfile /home/data/pierside_Snug/proc/os38nb/os38nb_qpy.cnt commands None cruisename pierside_Snug data_def vmadcp.def datadir /home/data/pierside_Snug/raw/os38 datafile_glob *.raw datatype uhdas dbname a_km 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/pierside_Snug/raw/os38/km2009_197_64220.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_64800.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_72000.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_79200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_00000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_07200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_14400.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_21600.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_28800.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_36000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_43200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_50400.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_57600.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_64800.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_72000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_79200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_00000.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_07200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_14400.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_21600.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_28800.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_36000.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_43200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_50400.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_57600.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 46 fixfile a_km.gps hcorr_inst posmv head_func None help False hidedisplay True howto_lta False howto_ping False incremental False instclass os instname os38 jitter 15 lastfiles False matcfgstr % begin "matcfgstr" string, created by quick_adcp.py instclass = os; instname = 'os38'; pingtype = 'nb'; proc_yearbase = 2009; yearbase = 2009; cfg =get_uhdascfg('cfgbase' , 'pierside_Snug',... 'cfgpath' , '/home/data/pierside_Snug/proc/os38nb/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_km.gps overview False pgmin 50 ping_headcorr True pingtype nb post_headcorr False printformats png proc_yearbase 2009 procdir os38nb 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/pierside_Snug/raw/os38/km2009_197_64220.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_64800.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_72000.raw', '/home/data/pierside_Snug/raw/os38/km2009_197_79200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_00000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_07200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_14400.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_21600.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_28800.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_36000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_43200.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_50400.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_57600.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_64800.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_72000.raw', '/home/data/pierside_Snug/raw/os38/km2009_198_79200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_00000.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_07200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_14400.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_21600.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_28800.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_36000.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_43200.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_50400.raw', '/home/data/pierside_Snug/raw/os38/km2009_199_57600.raw'] setup_info False skip_avg True smfile a_km_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 True vardoc False varvals False wtrk_step 7 xducer_dx False xducer_dy False yearbase 2009 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 2009-07-19 17:51:12,553 DEBUG quick_run ------------ step 1: scan data (create .scn file) ------------- 2009-07-19 17:51:12,553 DEBUG quick_run scanning files for time ranges... 2009-07-19 17:51:12,553 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb/scan 2009-07-19 17:51:12,553 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/scan 2009-07-19 17:51:12,553 DEBUG quick_setup running python command "scanraw" 2009-07-19 17:51:12,554 DEBUG call_matlab --> clear all 2009-07-19 17:51:12,558 DEBUG call_matlab <-- >> 2009-07-19 17:51:12,559 DEBUG call_matlab --> close all 2009-07-19 17:51:12,618 DEBUG call_matlab <-- >> 2009-07-19 17:51:12,618 DEBUG call_matlab --> cd /home/data/pierside_Snug/proc/os38nb/scan 2009-07-19 17:51:12,621 DEBUG call_matlab <-- >> 2009-07-19 17:51:12,621 DEBUG call_matlab --> scan_tmp 2009-07-19 17:51:13,462 DEBUG call_matlab <-- getting config files from "/home/data/pierside_Snug/proc/os38nb/config" running "pierside_Snug_cfg.m" running "pierside_Snug_proc.m" writing scan info to a_km.scn >> 2009-07-19 17:51:13,463 DEBUG quick_run writing time range from a_km.scn to a_km.tr 2009-07-19 17:51:13,463 DEBUG quick_run getting scan time range 2009-07-19 17:51:13,463 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,463 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/scan 2009-07-19 17:51:13,463 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,464 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,465 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,466 DEBUG quick_subs start_end_time 2009/07/17 17:50:26 to 2009/07/19 17:46:47 2009-07-19 17:51:13,466 DEBUG quick_subs dd0: 197.743356 dd1: 199.740822 2009-07-19 17:51:13,467 DEBUG quick_adcp in quick_adcp.py: after scan, about to look for database timesin /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,467 DEBUG quick_adcp looking for database with adcpdb/a_km*.blk 2009-07-19 17:51:13,468 DEBUG quick_adcp database found: listing blocks 2009-07-19 17:51:13,468 DEBUG quick_subs removing a_kmdir.blk 2009-07-19 17:51:13,468 DEBUG quick_subs about to run mkblkdir 2009-07-19 17:51:13,468 DEBUG quick_subs database still exists; rerunning mkdirblk 2009-07-19 17:51:13,469 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2009-07-19 17:51:13,479 DEBUG quick_subs database passes. 2009-07-19 17:51:13,479 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,480 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,480 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,480 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,480 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,481 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,481 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,481 DEBUG quick_subs dd0: 197.746898 dd1: 199.719514 2009-07-19 17:51:13,481 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,482 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,482 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,482 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,482 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,483 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,483 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,483 DEBUG quick_subs dd0: 197.746898 dd1: 199.719514 2009-07-19 17:51:13,483 DEBUG quick_adcp in quick_adcp.py: before load, just looked for database times 2009-07-19 17:51:13,484 DEBUG quick_adcp origdb_time_range is 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,484 DEBUG quick_adcp (197.746898 to 199.719514) 2009-07-19 17:51:13,484 DEBUG quick_run ------------ step 2: load data into codas database ------------- 2009-07-19 17:51:13,484 DEBUG quick_subs getting current (remaining after deletion) database times 2009-07-19 17:51:13,485 DEBUG quick_subs ['adcpdb/a_km003.blk', 'adcpdb/a_kmdir.blk', 'adcpdb/a_km002.blk', 'adcpdb/a_km001.blk', 'adcpdb/a_km004.blk'] 2009-07-19 17:51:13,485 DEBUG quick_subs length is 5 2009-07-19 17:51:13,485 DEBUG quick_subs removing a_kmdir.blk 2009-07-19 17:51:13,485 DEBUG quick_subs about to run mkblkdir 2009-07-19 17:51:13,486 DEBUG quick_subs database still exists; rerunning mkdirblk 2009-07-19 17:51:13,486 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2009-07-19 17:51:13,495 DEBUG quick_subs database passes. 2009-07-19 17:51:13,496 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,496 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,496 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,497 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,497 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,497 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,498 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,498 DEBUG quick_subs dd0: 197.746898 dd1: 199.719514 2009-07-19 17:51:13,498 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,498 DEBUG quick_subs reading time range 2009-07-19 17:51:13,499 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,499 DEBUG quick_subs dd0: 197.746898 dd1: 199.719514 2009-07-19 17:51:13,499 INFO quick_subs Sun Jul 19 17:51:13 2009 2009-07-19 17:51:13,499 INFO quick_subs checking database time range by listblk 2009-07-19 17:51:13,500 DEBUG quick_subs removing a_kmdir.blk 2009-07-19 17:51:13,500 DEBUG quick_subs about to run mkblkdir 2009-07-19 17:51:13,500 DEBUG quick_subs database still exists; rerunning mkdirblk 2009-07-19 17:51:13,500 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2009-07-19 17:51:13,510 DEBUG quick_subs database passes. 2009-07-19 17:51:13,510 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,511 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,511 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,511 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,511 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,512 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,512 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:16:06 2009-07-19 17:51:13,512 DEBUG quick_subs dd0: 197.746898 dd1: 199.719514 2009-07-19 17:51:13,514 INFO quick_subs found line /* 0 n= 146 a_km001.blk */ 2009/07/17 17:55:32 to 2009/07/18 06:25:12 2009-07-19 17:51:13,514 INFO quick_subs found line /* 1 n= 146 a_km002.blk */ 2009/07/18 06:30:18 to 2009/07/18 18:49:46 2009-07-19 17:51:13,515 INFO quick_subs found line /* 2 n= 146 a_km003.blk */ 2009/07/18 18:54:52 to 2009/07/19 07:14:19 2009-07-19 17:51:13,515 INFO quick_subs found line /* 3 n= 118 a_km004.blk */ 2009/07/19 07:19:25 to 2009/07/19 17:16:06 2009-07-19 17:51:13,515 INFO quick_subs scan data start at 197.7433565 2009-07-19 17:51:13,515 INFO quick_subs scan time range: 2009/07/17 17:50:26 to 2009/07/19 17:46:47 2009-07-19 17:51:13,515 INFO quick_subs codasdb ends at 199.7195139 (2009/07/19 17:16:06) 2009-07-19 17:51:13,516 DEBUG quick_subs ... changed dirs, in /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,516 DEBUG quick_subs deleting these files: ['a_km004.blk'] 2009-07-19 17:51:13,517 DEBUG quick_subs getting current (remaining after deletion) database times 2009-07-19 17:51:13,517 DEBUG quick_subs ['adcpdb/a_km003.blk', 'adcpdb/a_km002.blk', 'adcpdb/a_km001.blk'] 2009-07-19 17:51:13,517 DEBUG quick_subs length is 3 2009-07-19 17:51:13,517 DEBUG quick_subs about to run mkblkdir 2009-07-19 17:51:13,518 DEBUG quick_subs database still exists; rerunning mkdirblk 2009-07-19 17:51:13,518 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2009-07-19 17:51:13,528 DEBUG quick_subs database passes. 2009-07-19 17:51:13,528 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,528 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,528 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,529 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,529 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,529 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,530 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 07:14:19 2009-07-19 17:51:13,530 DEBUG quick_subs dd0: 197.746898 dd1: 199.301609 2009-07-19 17:51:13,530 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,530 DEBUG quick_subs reading time range 2009-07-19 17:51:13,531 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 07:14:19 2009-07-19 17:51:13,531 DEBUG quick_subs dd0: 197.746898 dd1: 199.301609 2009-07-19 17:51:13,531 DEBUG quick_subs codas database currently goes from 2009/07/17 17:55:32 to 2009/07/19 07:14:19 2009-07-19 17:51:13,531 DEBUG quick_subs (197.746898 to 199.301609) 2009-07-19 17:51:13,532 DEBUG quick_subs 001found existing adcpdb blocks: %s 002found existing adcpdb blocks: %s 003 2009-07-19 17:51:13,532 DEBUG quick_subs found existing ens_blk files: 001 002 003 004 2009-07-19 17:51:13,533 DEBUG quick_subs checked: loaded blkstrs: ['001', '002', '003'] 2009-07-19 17:51:13,533 DEBUG quick_subs checked: unloaded blkstrs: ['004'] 2009-07-19 17:51:13,533 DEBUG quick_subs first unloaded file is load/ens_blk004.cmd 2009-07-19 17:51:13,534 DEBUG quick_subs data goes from 2009/07/19 07:19:25 to 2009/07/19 17:46:47 2009-07-19 17:51:13,534 DEBUG quick_subs (199.305150 to 199.740822) 2009-07-19 17:51:13,535 DEBUG quick_run using data files (as seen from scan/ or load/ directory): /home/data/pierside_Snug/raw/os38/km2009_197_64220.raw /home/data/pierside_Snug/raw/os38/km2009_197_64800.raw /home/data/pierside_Snug/raw/os38/km2009_197_72000.raw /home/data/pierside_Snug/raw/os38/km2009_197_79200.raw /home/data/pierside_Snug/raw/os38/km2009_198_00000.raw /home/data/pierside_Snug/raw/os38/km2009_198_07200.raw /home/data/pierside_Snug/raw/os38/km2009_198_14400.raw /home/data/pierside_Snug/raw/os38/km2009_198_21600.raw /home/data/pierside_Snug/raw/os38/km2009_198_28800.raw /home/data/pierside_Snug/raw/os38/km2009_198_36000.raw /home/data/pierside_Snug/raw/os38/km2009_198_43200.raw /home/data/pierside_Snug/raw/os38/km2009_198_50400.raw /home/data/pierside_Snug/raw/os38/km2009_198_57600.raw /home/data/pierside_Snug/raw/os38/km2009_198_64800.raw /home/data/pierside_Snug/raw/os38/km2009_198_72000.raw /home/data/pierside_Snug/raw/os38/km2009_198_79200.raw /home/data/pierside_Snug/raw/os38/km2009_199_00000.raw /home/data/pierside_Snug/raw/os38/km2009_199_07200.raw /home/data/pierside_Snug/raw/os38/km2009_199_14400.raw /home/data/pierside_Snug/raw/os38/km2009_199_21600.raw /home/data/pierside_Snug/raw/os38/km2009_199_28800.raw /home/data/pierside_Snug/raw/os38/km2009_199_36000.raw /home/data/pierside_Snug/raw/os38/km2009_199_43200.raw /home/data/pierside_Snug/raw/os38/km2009_199_50400.raw /home/data/pierside_Snug/raw/os38/km2009_199_57600.raw 2009-07-19 17:51:13,535 INFO quick_run Sun Jul 19 17:51:13 2009 2009-07-19 17:51:13,535 INFO quick_run about to load uhdas files 2009-07-19 17:51:13,535 INFO quick_run /home/data/pierside_Snug/raw/os38/km2009_197_64220.raw /home/data/pierside_Snug/raw/os38/km2009_197_64800.raw /home/data/pierside_Snug/raw/os38/km2009_197_72000.raw /home/data/pierside_Snug/raw/os38/km2009_197_79200.raw /home/data/pierside_Snug/raw/os38/km2009_198_00000.raw /home/data/pierside_Snug/raw/os38/km2009_198_07200.raw /home/data/pierside_Snug/raw/os38/km2009_198_14400.raw /home/data/pierside_Snug/raw/os38/km2009_198_21600.raw /home/data/pierside_Snug/raw/os38/km2009_198_28800.raw /home/data/pierside_Snug/raw/os38/km2009_198_36000.raw /home/data/pierside_Snug/raw/os38/km2009_198_43200.raw /home/data/pierside_Snug/raw/os38/km2009_198_50400.raw /home/data/pierside_Snug/raw/os38/km2009_198_57600.raw /home/data/pierside_Snug/raw/os38/km2009_198_64800.raw /home/data/pierside_Snug/raw/os38/km2009_198_72000.raw /home/data/pierside_Snug/raw/os38/km2009_198_79200.raw /home/data/pierside_Snug/raw/os38/km2009_199_00000.raw /home/data/pierside_Snug/raw/os38/km2009_199_07200.raw /home/data/pierside_Snug/raw/os38/km2009_199_14400.raw /home/data/pierside_Snug/raw/os38/km2009_199_21600.raw /home/data/pierside_Snug/raw/os38/km2009_199_28800.raw /home/data/pierside_Snug/raw/os38/km2009_199_36000.raw /home/data/pierside_Snug/raw/os38/km2009_199_43200.raw /home/data/pierside_Snug/raw/os38/km2009_199_50400.raw /home/data/pierside_Snug/raw/os38/km2009_199_57600.raw 2009-07-19 17:51:13,535 DEBUG quick_setup load/ldcodas.tmp exists 2009-07-19 17:51:13,536 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,536 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/load 2009-07-19 17:51:13,536 DEBUG quick_setup running python command "ldcodas" 2009-07-19 17:51:13,536 DEBUG quick_subs in /home/data/pierside_Snug/proc/os38nb/load 2009-07-19 17:51:13,537 DEBUG quick_subs found block strings: ['001', '002', '003'] 2009-07-19 17:51:13,537 DEBUG quick_subs found cmd blk strings: ['001', '002', '003', '004'] 2009-07-19 17:51:13,538 DEBUG quick_subs starttime is 2009/07/19 07:19:25 2009-07-19 17:51:13,538 DEBUG quick_subs RESETTING thisload_time_range 2009-07-19 17:51:13,538 DEBUG quick_subs time range of data to be loaded: 2009/07/19 07:19:25 to 2009/07/19 17:46:47 2009-07-19 17:51:13,539 DEBUG quick_subs data startdd 199.305150 data enddd 199.740822 2009-07-19 17:51:13,539 DEBUG quick_subs about to load from these cmd files ['ens_blk004.cmd'] 2009-07-19 17:51:13,539 DEBUG quick_subs DATABASE_NAME: ../adcpdb/a_km DEFINITION_FILE: vmadcp.def LOG_FILE: load.log YEAR_BASE: 2009 cmd_file_list /* use only if specifying cmd paths, not "@" */ END ./ens_blk004.cmd 2009-07-19 17:51:13,539 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/ldcodas ldcodas.tmp 2009-07-19 17:51:13,580 DEBUG quick_subs removing a_kmdir.blk 2009-07-19 17:51:13,581 DEBUG quick_subs about to run mkblkdir 2009-07-19 17:51:13,581 DEBUG quick_subs database still exists; rerunning mkdirblk 2009-07-19 17:51:13,582 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2009-07-19 17:51:13,592 DEBUG quick_subs database passes. 2009-07-19 17:51:13,593 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,593 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,593 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,594 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,594 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,594 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,595 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:46:41 2009-07-19 17:51:13,595 DEBUG quick_subs dd0: 197.746898 dd1: 199.740752 2009-07-19 17:51:13,595 DEBUG quick_subs writing time range from a_km.lst to a_km.tr 2009-07-19 17:51:13,595 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,595 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,596 DEBUG quick_setup running python command "get_time_range" 2009-07-19 17:51:13,596 DEBUG quick_subs about to set opts to proc.opts, in get_time_range... 2009-07-19 17:51:13,596 DEBUG quick_subs extracting time range 2009-07-19 17:51:13,596 DEBUG quick_subs start_end_time 2009/07/17 17:55:32 to 2009/07/19 17:46:41 2009-07-19 17:51:13,597 DEBUG quick_subs dd0: 197.746898 dd1: 199.740752 2009-07-19 17:51:13,597 DEBUG quick_adcp loaded_time_range is 2009/07/17 17:55:32 to 2009/07/19 17:46:41 2009-07-19 17:51:13,597 DEBUG quick_adcp (197.746898 to 199.740752) 2009-07-19 17:51:13,598 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,598 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/adcpdb 2009-07-19 17:51:13,598 DEBUG quick_setup running python command "lst_conf" 2009-07-19 17:51:13,598 DEBUG quick_subs dbname: a_km output: a_km.cnh time_ranges: all 2009-07-19 17:51:13,598 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_conf lst_conf.tmp 2009-07-19 17:51:13,610 DEBUG quick_run ------------ step 3 (create suitable setup files for editing) ------------- 2009-07-19 17:51:13,610 DEBUG quick_run executing commands from /home/data/pierside_Snug/proc/os38nb/edit 2009-07-19 17:51:13,611 DEBUG quick_run setup.m exists. not replacing 2009-07-19 17:51:13,611 DEBUG quick_run asetup.m exists. not replacing 2009-07-19 17:51:13,611 DEBUG quick_run aflagit_setup.m exists. not replacing 2009-07-19 17:51:13,611 DEBUG quick_run ------------ step 4: run setflags ------------- 2009-07-19 17:51:13,612 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,612 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/edit 2009-07-19 17:51:13,612 DEBUG quick_setup running python command "setflags" 2009-07-19 17:51:13,613 DEBUG quick_subs dbname: ../adcpdb/a_km pg_min: 50 set_range_bit time_ranges: all 2009-07-19 17:51:13,613 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2009-07-19 17:51:13,629 DEBUG quick_run ------------ step 5: get fixes from load/*.gps2 files ------------- 2009-07-19 17:51:13,630 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,630 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:13,630 DEBUG quick_setup running python command "catnav" 2009-07-19 17:51:13,632 DEBUG quick_run ------------ step 6: get heading correction (if applicable) ------------- 2009-07-19 17:51:13,632 DEBUG quick_run hcorr_inst is posmv 2009-07-19 17:51:13,632 DEBUG quick_setup cal/rotate/lst_hdg.tmp exists 2009-07-19 17:51:13,632 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:13,632 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/rotate 2009-07-19 17:51:13,633 DEBUG quick_setup running python command "lst_hdg" 2009-07-19 17:51:13,633 DEBUG quick_subs dbname: ../../adcpdb/a_km output: scn.hdg step_size= 1 year_base= 2009 time_ranges: all 2009-07-19 17:51:13,633 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_hdg lst_hdg.tmp 2009-07-19 17:51:13,644 DEBUG quick_mpl Starting plot: hcorr 2009-07-19 17:51:13,661 DEBUG quick_mplplots found 1.993856 days of data 2009-07-19 17:51:13,661 DEBUG quick_mplplots figures with 4 panels per page, 1.000000 days per panel 2009-07-19 17:51:13,661 DEBUG quick_mplplots printing 1 pages 2009-07-19 17:51:14,401 DEBUG quick_mpl Ending plot: hcorr 2009-07-19 17:51:14,402 DEBUG quick_run ------------ step 7: rotate ------------- 2009-07-19 17:51:14,402 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,402 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/rotate 2009-07-19 17:51:14,402 DEBUG quick_setup running python command "rotated" 2009-07-19 17:51:14,410 DEBUG quick_subs last rotated time from log file: 2009/07/19 17:16:30 2009-07-19 17:51:14,410 DEBUG quick_subs time range of currently loaded data: 2009/07/17 17:55:32 to 2009/07/19 17:46:41 2009-07-19 17:51:14,410 DEBUG quick_subs (197.746898 to 199.740752) 2009-07-19 17:51:14,410 DEBUG quick_setup cal/rotate/rotate.tmp exists 2009-07-19 17:51:14,411 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,411 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/rotate 2009-07-19 17:51:14,411 DEBUG quick_setup running python command "rotate" 2009-07-19 17:51:14,411 DEBUG quick_subs DB_NAME: ../../adcpdb/a_km LOG_FILE: rotate.log TIME_RANGE: 2009/07/19 07:19:25 to 2009/07/19 17:46:47 /* only from scanned files */ OPTION_LIST: water_and_bottom_track: year_base= 2009 /* time_angle_file: (NOT USED -- rotation is done in ensembles) */ amplitude= 1 angle_0= 0 end end 2009-07-19 17:51:14,411 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/rotate rotate.tmp 2009-07-19 17:51:14,419 DEBUG quick_run ------------ step 8: run adcpsect (for calib) ------------- 2009-07-19 17:51:14,420 DEBUG quick_setup nav/as_nav.tmp exists 2009-07-19 17:51:14,420 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,420 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:14,420 DEBUG quick_setup running python command "as_nav" 2009-07-19 17:51:14,421 DEBUG quick_subs dbname: ../adcpdb/a_km output: a_km step_size: 1 ndepth: 20 time_ranges: separate year_base= 2009 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 2009/07/17 17:55:32 to 2009/07/19 17:46:41 /* the whole time range */ 2009-07-19 17:51:14,421 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2009-07-19 17:51:14,444 DEBUG quick_run ------------ step 9: run refabs (for calib) ------------- 2009-07-19 17:51:14,444 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,445 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:14,445 DEBUG quick_setup running python command "refabs" 2009-07-19 17:51:14,445 DEBUG quick_subs fix_file_type: simple reference_file: a_km.nav fix_file: a_km.gps output: a_km.ref year_base= 2009 ensemble_length= 300 gap_tolerance= 10 2009-07-19 17:51:14,445 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2009-07-19 17:51:14,461 DEBUG quick_run ------------ step 10: get smoothed navigation (for calib) ------------- 2009-07-19 17:51:14,462 DEBUG quick_setup nav/smoothr.tmp exists 2009-07-19 17:51:14,462 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,462 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:14,462 DEBUG quick_setup running python command "smoothr" 2009-07-19 17:51:14,462 DEBUG quick_subs reference_file: a_km.nav refabs_output: a_km.ref output: a_km.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 2009-07-19 17:51:14,463 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2009-07-19 17:51:14,520 DEBUG quick_npy Starting: refsm 2009-07-19 17:51:14,566 INFO nav dtmin = -0.50 dtmax = 0.50 2009-07-19 17:51:14,700 DEBUG quick_npy Ending: refsm 2009-07-19 17:51:14,700 DEBUG quick_run ------------ step 11: put smoothed navigation back into database ------------- 2009-07-19 17:51:14,701 DEBUG quick_setup nav/putnav.tmp exists 2009-07-19 17:51:14,701 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:14,701 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:14,701 DEBUG quick_setup running python command "putnav" 2009-07-19 17:51:14,701 DEBUG quick_subs dbname: ../adcpdb/a_km position_file: a_km_refsm.asc year_base= 2009 tolerance= 5 navigation_sources: gps end 2009-07-19 17:51:14,702 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2009-07-19 17:51:14,724 DEBUG quick_mpl Starting plot: nav 2009-07-19 17:51:15,345 DEBUG quick_mpl Ending plot: nav 2009-07-19 17:51:15,345 DEBUG quick_mpl Starting plot: refl 2009-07-19 17:51:15,381 DEBUG quick_mplplots found 1.986773 days of data 2009-07-19 17:51:15,381 DEBUG quick_mplplots start day is 197.000000 2009-07-19 17:51:15,382 DEBUG quick_mplplots figures with 2.000000 days per page 2009-07-19 17:51:15,382 DEBUG quick_mplplots printing 2 pages 2009-07-19 17:51:15,382 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2009-07-19 17:51:15,382 INFO quick_mplplots startdd is 197.0 2009-07-19 17:51:15,382 INFO quick_mplplots dt is 2.0 2009-07-19 17:51:16,807 DEBUG quick_mpl Ending plot: refl 2009-07-19 17:51:16,807 DEBUG quick_run ------------ step 13: automatically find profile flags ------------- 2009-07-19 17:51:16,808 DEBUG quick_run find profile flags ------------ *** ------------- 2009-07-19 17:51:16,808 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:16,808 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/edit 2009-07-19 17:51:16,808 DEBUG quick_setup running python command "aedit" 2009-07-19 17:51:18,300 DEBUG quick_run ------------ step 14: apply all profile flags to database ------------- 2009-07-19 17:51:18,301 DEBUG quick_run starting in: /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,301 DEBUG quick_run executing commands from: edit 2009-07-19 17:51:18,304 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/dbupdate ../adcpdb/a_km abadprf_tmp.asc 2009-07-19 17:51:18,310 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/badbin ../adcpdb/a_km abadbin_tmp.asc 2009-07-19 17:51:18,321 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/set_lgb ../adcpdb/a_km 30 2009-07-19 17:51:18,327 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2009-07-19 17:51:18,344 DEBUG quick_run changing directories back to /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,344 DEBUG quick_adcp ------------ step 15: rerun nav steps, redo reflayer plots ------------- 2009-07-19 17:51:18,344 DEBUG quick_run ------------ step 8: run adcpsect (for calib) ------------- 2009-07-19 17:51:18,345 DEBUG quick_setup nav/as_nav.tmp exists 2009-07-19 17:51:18,345 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,345 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:18,345 DEBUG quick_setup running python command "as_nav" 2009-07-19 17:51:18,345 DEBUG quick_subs dbname: ../adcpdb/a_km output: a_km step_size: 1 ndepth: 20 time_ranges: separate year_base= 2009 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 2009/07/17 17:55:32 to 2009/07/19 17:46:41 /* the whole time range */ 2009-07-19 17:51:18,346 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2009-07-19 17:51:18,369 DEBUG quick_run ------------ step 9: run refabs (for calib) ------------- 2009-07-19 17:51:18,370 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,370 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:18,370 DEBUG quick_setup running python command "refabs" 2009-07-19 17:51:18,370 DEBUG quick_subs fix_file_type: simple reference_file: a_km.nav fix_file: a_km.gps output: a_km.ref year_base= 2009 ensemble_length= 300 gap_tolerance= 10 2009-07-19 17:51:18,371 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2009-07-19 17:51:18,387 DEBUG quick_run ------------ step 10: get smoothed navigation (for calib) ------------- 2009-07-19 17:51:18,387 DEBUG quick_setup nav/smoothr.tmp exists 2009-07-19 17:51:18,388 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,388 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:18,388 DEBUG quick_setup running python command "smoothr" 2009-07-19 17:51:18,388 DEBUG quick_subs reference_file: a_km.nav refabs_output: a_km.ref output: a_km.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 2009-07-19 17:51:18,388 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2009-07-19 17:51:18,447 DEBUG quick_npy Starting: refsm 2009-07-19 17:51:18,492 INFO nav dtmin = -0.50 dtmax = 0.50 2009-07-19 17:51:18,561 DEBUG quick_npy Ending: refsm 2009-07-19 17:51:18,561 DEBUG quick_run ------------ step 11: put smoothed navigation back into database ------------- 2009-07-19 17:51:18,561 DEBUG quick_setup nav/putnav.tmp exists 2009-07-19 17:51:18,562 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:18,562 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:18,562 DEBUG quick_setup running python command "putnav" 2009-07-19 17:51:18,562 DEBUG quick_subs dbname: ../adcpdb/a_km position_file: a_km_refsm.asc year_base= 2009 tolerance= 5 navigation_sources: gps end 2009-07-19 17:51:18,562 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2009-07-19 17:51:18,585 DEBUG quick_mpl Starting plot: nav 2009-07-19 17:51:19,209 DEBUG quick_mpl Ending plot: nav 2009-07-19 17:51:19,209 DEBUG quick_mpl Starting plot: refl 2009-07-19 17:51:19,245 DEBUG quick_mplplots found 1.986773 days of data 2009-07-19 17:51:19,245 DEBUG quick_mplplots start day is 197.000000 2009-07-19 17:51:19,246 DEBUG quick_mplplots figures with 2.000000 days per page 2009-07-19 17:51:19,246 DEBUG quick_mplplots printing 2 pages 2009-07-19 17:51:19,246 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2009-07-19 17:51:19,246 INFO quick_mplplots startdd is 197.0 2009-07-19 17:51:19,246 INFO quick_mplplots dt is 2.0 2009-07-19 17:51:20,669 DEBUG quick_mpl Ending plot: refl 2009-07-19 17:51:20,669 DEBUG quick_run ------------ step 16: list temperature and plot it ------------- 2009-07-19 17:51:20,669 DEBUG quick_setup edit/lst_temp.tmp exists 2009-07-19 17:51:20,670 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:20,670 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/edit 2009-07-19 17:51:20,670 DEBUG quick_setup running python command "lst_temp" 2009-07-19 17:51:20,670 DEBUG quick_subs dbname: ../adcpdb/a_km output: a_km.tem step_size= 1 year_base= 2009 time_ranges: all 2009-07-19 17:51:20,671 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_temp lst_temp.tmp 2009-07-19 17:51:20,684 DEBUG quick_mpl Starting plot: temp 2009-07-19 17:51:20,697 DEBUG quick_mplplots plotting 562 points 2009-07-19 17:51:21,176 DEBUG quick_mpl Ending plot: temp 2009-07-19 17:51:21,176 DEBUG quick_run ------------ step 17: bottom track and watertrack calibrations ------------- 2009-07-19 17:51:21,176 DEBUG quick_setup cal/botmtrk/lst_btrk.tmp exists 2009-07-19 17:51:21,177 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,177 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/botmtrk 2009-07-19 17:51:21,177 DEBUG quick_setup running python command "lst_btrk" 2009-07-19 17:51:21,177 DEBUG quick_subs dbname: ../../adcpdb/a_km output: a_km.btm step_size= 1 year_base= 2009 time_ranges: 2009/07/17 17:55:32 to 2009/07/19 17:46:41 /* whole time range */ 2009-07-19 17:51:21,178 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_btrk lst_btrk.tmp 2009-07-19 17:51:21,186 DEBUG quick_setup cal/botmtrk/refabsbt.tmp exists 2009-07-19 17:51:21,187 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,187 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/botmtrk 2009-07-19 17:51:21,187 DEBUG quick_setup running python command "refabsbt" 2009-07-19 17:51:21,187 DEBUG quick_subs fix_file_type: simple reference_file: a_km.btm fix_file: ../../nav/a_km.gps output: a_km.ref year_base= 2009 ensemble_length= 300 gap_tolerance= 60 2009-07-19 17:51:21,188 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabsbt refabsbt.tmp 2009-07-19 17:51:21,194 DEBUG quick_mpl Starting plot: btcal 2009-07-19 17:51:21,195 DEBUG quick_mplplots No data in a_km.btm 2009-07-19 17:51:21,195 DEBUG quick_mplplots Returning from Btplot with no output 2009-07-19 17:51:21,195 DEBUG quick_mpl Ending plot: btcal 2009-07-19 17:51:21,196 DEBUG quick_setup nav/as_nav.tmp exists 2009-07-19 17:51:21,196 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,196 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/nav 2009-07-19 17:51:21,196 DEBUG quick_setup running python command "as_nav" 2009-07-19 17:51:21,196 DEBUG quick_subs dbname: ../adcpdb/a_km output: a_km step_size: 1 ndepth: 20 time_ranges: separate year_base= 2009 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 2009/07/17 17:55:32 to 2009/07/19 17:46:41 /* the whole time range */ 2009-07-19 17:51:21,197 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2009-07-19 17:51:21,221 DEBUG quick_setup cal/watertrk/timslip.tmp exists 2009-07-19 17:51:21,222 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,222 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/cal/watertrk 2009-07-19 17:51:21,222 DEBUG quick_setup running python command "timslip" 2009-07-19 17:51:21,222 DEBUG quick_subs fix_file_type: simple fix_file: ../../nav/a_km.gps reference_file: ../../nav/a_km.nav output_file: a_km_7.cal year_base= 2009 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 2009-07-19 17:51:21,223 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timslip timslip.tmp 2009-07-19 17:51:21,231 DEBUG quick_mpl Starting plot: wtcal 2009-07-19 17:51:21,233 DEBUG quick_mplplots No calibration points found 2009-07-19 17:51:21,233 DEBUG quick_mpl Ending plot: wtcal 2009-07-19 17:51:21,233 DEBUG quick_asect ------------ step 18: make matlab files for plotting ------------- 2009-07-19 17:51:21,234 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,234 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/vector 2009-07-19 17:51:21,234 DEBUG quick_setup running python command "timegrid" 2009-07-19 17:51:21,234 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_km.tmp 2009-07-19 17:51:21,241 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,242 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/vector 2009-07-19 17:51:21,242 DEBUG quick_setup running python command "as_vect" 2009-07-19 17:51:21,242 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_vect.tmp 2009-07-19 17:51:21,266 DEBUG quick_asect done making vector matfiles 2009-07-19 17:51:21,266 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,266 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/contour 2009-07-19 17:51:21,267 DEBUG quick_setup running python command "timegrid" 2009-07-19 17:51:21,267 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_km.tmp 2009-07-19 17:51:21,274 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,274 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/contour 2009-07-19 17:51:21,275 DEBUG quick_setup running python command "as_cont" 2009-07-19 17:51:21,275 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_cont.tmp 2009-07-19 17:51:21,307 DEBUG quick_setup starting in /home/data/pierside_Snug/proc/os38nb 2009-07-19 17:51:21,307 DEBUG quick_setup executing commands from /home/data/pierside_Snug/proc/os38nb/contour 2009-07-19 17:51:21,308 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_km 2009-07-19 17:51:21,387 DEBUG quick_asect done running getmat with "allbins" 2009-07-19 17:51:21,439 INFO root copying NOFIG to /home/adcp/www/figures/os38nb_hcorr_plot.png 2009-07-19 17:51:21,439 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/os38nb_hcorr_plot_thumb.png 2009-07-19 17:51:21,440 DEBUG root matfile is contour/contour_uv.mat 2009-07-19 17:51:21,441 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/os38nb_cont_uv.mat 2009-07-19 17:51:21,442 DEBUG root matfile is vector/vector_uv.mat 2009-07-19 17:51:21,442 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/os38nb_vect_uv.mat 2009-07-19 17:51:21,442 DEBUG root matfile is contour/contour_xy.mat 2009-07-19 17:51:21,443 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/os38nb_cont_xy.mat 2009-07-19 17:51:21,443 DEBUG root matfile is vector/vector_xy.mat 2009-07-19 17:51:21,443 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/os38nb_vect_xy.mat 2009-07-19 17:51:21,444 DEBUG root about to copy file edit/a_km.tem to /home/adcp/www/data/os38nb_temp.asc 2009-07-19 17:51:21,444 INFO root copying edit/a_km.tem to /home/adcp/www/data/os38nb_temp.asc 2009-07-19 17:51:21,444 INFO root Ending quick_adcp.py 2009-07-19 17:51:21,493 DEBUG quick_setup killed matlab engine