2012-06-17 11:21:55,209 DEBUG root about to write control file parameters to --yearbase 2012 --cruisename at21_02 --configtype python --sonar os75nb --dbname a_at --datatype uhdas --cfgpath /home/data/at21_02/proc/os75nb/config --ens_len 300 #--update_gbin ## python gbins: run by "run_lastensq.py" at sea --skip_avg ## see above --max_search_depth 1000 --proc_engine python --incremental --find_pflags --hidedisplay --top_plotbin 1 --auto 2012-06-17 11:21:55,210 DEBUG quick_adcp sys.argv = /home/currents/programs/uhdas/scripts/run_quick.py -d os75nb 2012-06-17 11:21:55,212 DEBUG quick_adcp progdir = /home/currents/programs 2012-06-17 11:21:55,213 DEBUG quick_adcp binos = lnx 2012-06-17 11:21:55,216 DEBUG quick_setup found cruise_info.hcorr (phins, hdg, 0) 2012-06-17 11:21:55,219 INFO quick_adcp importing numpy 2012-06-17 11:21:55,255 INFO quick_adcp importing matplotlib 2012-06-17 11:21:55,431 DEBUG quick_mpl in Q_mpl 2012-06-17 11:21:55,432 DEBUG quick_adcp ------processor dictionary:------ __doc__ __init__ __module__ aflagit_setup as_cont as_nav as_vect asetup catnav check_beamangle check_dbinfo check_headcorr check_opts check_uhdascfg clearflags ddtime def_qlist del_overlapping fill_thisload_timerange get_asvars get_cmd_timerange get_nodb_times get_time_range getmat ldcodas listblocks llgrid loadping lst_btrk lst_conf lst_hdg lst_temp mpltest norotate opts plotbtcal_mpl plothcorr_mpl plotnav_mpl plotrefl_mpl plottemp_mpl plotwtcal_mpl putnav refabs refabsbt rotate rotated run_adcpsect run_applyedit run_autoedit_npy run_calc run_calib run_editsetup run_findpflags run_getheadcorr run_getnav run_guess_xducerxy run_guess_xducerxy_npy run_loaddb run_loadlta_npy run_loadping run_lstconfig run_lsthdg run_lsttemp run_matbincmd run_matfiles run_pingavg_npy run_plotter run_putnav run_py_codaseditsetup run_py_findpflags run_py_pingeditsetup run_pybincmd_lta run_pybincmd_uhdas run_pygbin_npy run_refabs run_refplots run_refsm run_refsm_npy run_rotate run_scanbin_npy run_scandata run_scanlta_npy run_scanping_npy run_setflags run_smoothr run_updategbin run_updatepygbin run_xducerxy run_xducerxy_npy scanping setflags smoothr timegrid timslip ubprint write_codas_editdefaults write_ping_editdefaults write_timerange_file zapsetup 2012-06-17 11:21:55,432 INFO quick_adcp cwd is /home/data/at21_02/proc/os75nb about to run these steps: - editsetup - scandata - avg_and_load - setflags - getnav - get_headcorr - rotate - adcpsect - refabs - smoothnav - putnav - refplots - find_pflags - apply_edit - navsteps - lst_temp - calib - matfiles - find_pflags 2012-06-17 11:21:55,432 INFO quick_adcp original fix file is a_at.gps 2012-06-17 11:21:55,433 INFO quick_adcp smoothed nav file is a_at_refsm.asc 2012-06-17 11:21:55,433 DEBUG quick_asect extracting matlab files for os75, nb pings 2012-06-17 11:21:55,473 DEBUG quick_setup data directory: /home/data/at21_02/raw/os75 2012-06-17 11:21:55,477 INFO quick_setup found 193 files using wildcard expansion relative to scan directory wildcard string was: "/home/data/at21_02/raw/os75/*.raw" 2012-06-17 11:21:55,479 DEBUG quick_setup found 193 files from original filelist 2012-06-17 11:21:55,480 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/at21_02/raw/os75/at2012_151_62215.raw ... 2012-06-17 11:21:55,482 DEBUG quick_adcp Sun Jun 17 11:21:55 2012 running quick_adcp.py as follows: --cntfile /home/data/at21_02/proc/os75nb/os75nb_qpy.cnt ----- adcpsect variables ------ cbasename contour dbname a_at 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 28 gridnum 80 increment 10 loaded_time_range all numbins 128 outdir . pgmin 50 prefix allbins_ proc_yearbase 2012 rl_endbin 20 rl_startbin 2 ss_string separate timegrid 60 vbasename vector ----- quick_adcp.py variables and current values ------ adjust_time 1 auto True badbeam None beamangle 30 best_loggerdday_name unix_dday best_utcdday_name dday bindir /home/currents/programs/codas3/bin/lnx binos lnx btrk_step 1 cfgpath /home/data/at21_02/proc/os75nb/config cntfile /home/data/at21_02/proc/os75nb/os75nb_qpy.cnt commands None configtype python cruisename at21_02 data_def vmadcp.def datadir /home/data/at21_02/raw/os75 datafile_glob *.raw datatype uhdas dbname a_at dday_bailout None debug False diarystr %% no diary written %% displaystr set(0,'defaultfigureposition',[0 0 300 400]) set(0,'defaultfiguremenubar','none') set(0,'defaultfiguretoolbar','none') ducer_depth None editcfg_file override_editcfg enddday_file None ens_halign None ens_len 300 ensgyrorbin False expert None filelist ['/home/data/at21_02/raw/os75/at2012_151_62215.raw', '/home/data/at21_02/raw/os75/at2012_152_50748.raw', '/home/data/at21_02/raw/os75/at2012_152_57600.raw', '/home/data/at21_02/raw/os75/at2012_152_58778.raw', '/home/data/at21_02/raw/os75/at2012_152_64800.raw', 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'/home/data/at21_02/raw/os75/at2012_167_07200.raw', '/home/data/at21_02/raw/os75/at2012_167_14400.raw', '/home/data/at21_02/raw/os75/at2012_167_21600.raw', '/home/data/at21_02/raw/os75/at2012_167_28800.raw', '/home/data/at21_02/raw/os75/at2012_167_36000.raw', '/home/data/at21_02/raw/os75/at2012_167_43200.raw', '/home/data/at21_02/raw/os75/at2012_167_50400.raw', '/home/data/at21_02/raw/os75/at2012_167_57600.raw', '/home/data/at21_02/raw/os75/at2012_167_64800.raw', '/home/data/at21_02/raw/os75/at2012_167_72000.raw', '/home/data/at21_02/raw/os75/at2012_167_79200.raw', '/home/data/at21_02/raw/os75/at2012_168_00000.raw', '/home/data/at21_02/raw/os75/at2012_168_07200.raw', '/home/data/at21_02/raw/os75/at2012_168_14400.raw', '/home/data/at21_02/raw/os75/at2012_168_21600.raw', '/home/data/at21_02/raw/os75/at2012_168_28800.raw', '/home/data/at21_02/raw/os75/at2012_168_36000.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 28 fixfile a_at.gps frequency 75 gbin_style python gbindirbase /home/data/at21_02/gbin hcorr_inst phins help False hidedisplay True incremental True instname os75 jitter 15 max_BLKprofiles 300 max_search_depth 1000 maxrunsecs None min_filter_fraction 0.5 model os nosave_editcfg 0 num_persistence 24 numbins 128 overview False pgmin 50 ping_headcorr False pingtype nb post_headcorr None printformats png proc_engine python proc_yearbase 2012 progdir /home/currents/programs py_gbindirbase /home/data/at21_02/gbin rawstd_cutoff None rl_endbin 20 rl_startbin 2 rotate_amplitude 1 rotate_angle 0 rotate_file None save_editcfg 1 save_lastens 0 setup_info False skip_avg True smfile a_at_refsm.asc sonar os75nb steps2rerun timeout_secs 86400 tips False tktail False top_plotbin 1 ub_type 1920 update_gbin False use_refsm True use_smoothr False vardoc False varvals False wtrk_step 7 xducer_dx None xducer_dy None yearbase 2012 configured to run the following steps: editsetup scandata avg_and_load setflags getnav get_headcorr rotate adcpsect refabs smoothnav putnav refplots find_pflags apply_edit navsteps lst_temp calib matfiles find_pflags 2012-06-17 11:21:55,483 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:55,483 INFO quick_adcp step 1: set up editing files 2012-06-17 11:21:55,483 DEBUG quick_run executing commands from /home/data/at21_02/proc/os75nb/edit 2012-06-17 11:21:55,484 DEBUG quick_run setup.m exists. not replacing 2012-06-17 11:21:55,484 DEBUG quick_run asetup.m exists. not replacing 2012-06-17 11:21:55,484 DEBUG quick_run aflagit_setup.m exists. not replacing 2012-06-17 11:21:55,484 DEBUG quick_subs dbname: ../adcpdb/a_at pg_min: 50 clear_range /* reset range */ clear_all_bits /* clear flags except pg_min*/ clear_bad_profile /* reset access vars lgb */ time_ranges: all 2012-06-17 11:21:55,485 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:55,486 INFO quick_adcp step 2: scan files for time range 2012-06-17 11:21:55,486 INFO quick_adcp about to run numpy scan, requiring python gbins 2012-06-17 11:21:55,486 DEBUG quick_npy Starting: scanping 2012-06-17 11:21:56,571 DEBUG quick_npy Ending: scanping 2012-06-17 11:21:56,574 DEBUG quick_subs start_end_time 2012/05/31 17:16:57 to 2012/06/01 14:21:04 2012-06-17 11:21:56,574 DEBUG quick_subs dd0: 151.720104 dd1: 152.597963 2012-06-17 11:21:56,575 INFO quick_adcp in quick_adcp.py: after scan; look for database times in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:56,575 INFO quick_adcp looking for database with adcpdb/a_at*.blk 2012-06-17 11:21:56,577 INFO quick_adcp database found: listing blocks 2012-06-17 11:21:56,577 DEBUG quick_subs removing a_atdir.blk 2012-06-17 11:21:56,578 DEBUG quick_subs about to run mkblkdir 2012-06-17 11:21:56,578 DEBUG quick_subs database still exists; rerunning mkdirblk 2012-06-17 11:21:56,578 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2012-06-17 11:21:56,596 DEBUG quick_subs database passes. 2012-06-17 11:21:56,597 DEBUG quick_subs start_end_time 2012/06/01 14:10:51 to 2012/06/17 11:05:14 2012-06-17 11:21:56,598 DEBUG quick_subs dd0: 152.590868 dd1: 168.461968 2012-06-17 11:21:56,598 DEBUG quick_adcp in quick_adcp.py before load, just looked for database times 2012-06-17 11:21:56,598 DEBUG quick_adcp origdb_time_range is 2012/06/01 14:10:51 to 2012/06/17 11:05:14 2012-06-17 11:21:56,598 DEBUG quick_adcp (152.590868 to 168.461968) 2012-06-17 11:21:56,599 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:56,599 INFO quick_adcp step 3: generate averaged data... 2012-06-17 11:21:56,599 DEBUG quick_run file load/ping_editparams.txt exists. not replacing 2012-06-17 11:21:56,600 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:56,600 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/load 2012-06-17 11:21:56,600 DEBUG quick_setup running python command "run_pingavg_npy" 2012-06-17 11:21:56,601 DEBUG quick_npy Starting: pingavg 2012-06-17 11:21:56,605 DEBUG quick_npy singleping editing parameters: 2012-06-17 11:21:56,605 DEBUG quick_npy bigtarget_mab_window : 11 2012-06-17 11:21:56,605 DEBUG quick_npy rl_endbin : 20 2012-06-17 11:21:56,605 DEBUG quick_npy max_search_depth : 1000 2012-06-17 11:21:56,606 DEBUG quick_npy cor_cutoff : 120 2012-06-17 11:21:56,606 DEBUG quick_npy ampfilt : 40 2012-06-17 11:21:56,606 DEBUG quick_npy bigtarget_lgb_margin : 0.500000 2012-06-17 11:21:56,606 DEBUG quick_npy rl_startbin : 2 2012-06-17 11:21:56,606 DEBUG quick_npy ecutoff : 1 2012-06-17 11:21:56,607 DEBUG quick_npy refavg_valcutoff : 1 2012-06-17 11:21:56,607 DEBUG quick_npy weakprof_percent : 30 2012-06-17 11:21:56,607 DEBUG quick_npy bigtarget_ampthresh : 55 2012-06-17 11:21:56,619 INFO pingavg Pingavg.run for time range 168.416690 to 168.473479 2012-06-17 11:21:56,759 DEBUG pingavg Chunk 1 of 1, 168.416690 to 168.473479 2012-06-17 11:21:56,760 DEBUG pingavg Nothing written 2012-06-17 11:21:56,760 DEBUG quick_npy wrote 0 averages 2012-06-17 11:21:56,761 DEBUG quick_npy Ending: pingavg 2012-06-17 11:21:56,762 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:56,762 INFO quick_adcp step 4: load averaged data (to database) 2012-06-17 11:21:56,763 DEBUG quick_subs in del_overlapping 2012-06-17 11:21:56,764 DEBUG quick_subs lastblock: 2012-06-17 11:21:56,764 DEBUG quick_subs 17 2012-06-17 11:21:56,764 DEBUG quick_subs lastcmd: 2012-06-17 11:21:56,765 DEBUG quick_subs 17 2012-06-17 11:21:56,765 DEBUG quick_subs delblks: 2012-06-17 11:21:56,765 DEBUG quick_subs [17] 2012-06-17 11:21:56,765 DEBUG quick_subs loadblks: 2012-06-17 11:21:56,765 DEBUG quick_subs [17] 2012-06-17 11:21:56,766 DEBUG quick_subs about to run mkblkdir 2012-06-17 11:21:56,766 DEBUG quick_subs database still exists; rerunning mkdirblk 2012-06-17 11:21:56,767 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2012-06-17 11:21:56,783 DEBUG quick_subs database passes. 2012-06-17 11:21:56,784 DEBUG quick_subs start_end_time 2012/06/01 14:10:51 to 2012/06/17 07:30:13 2012-06-17 11:21:56,785 DEBUG quick_subs dd0: 152.590868 dd1: 168.312650 2012-06-17 11:21:56,785 DEBUG quick_run [17] 2012-06-17 11:21:56,785 DEBUG quick_run cmdlist 2012-06-17 11:21:56,786 DEBUG quick_run ['./ens_blk017.cmd'] 2012-06-17 11:21:56,788 INFO quick_run Warning: 1 files will be loaded; 17 already exist 2012-06-17 11:21:56,789 INFO quick_run Sun Jun 17 11:21:56 2012 2012-06-17 11:21:56,789 INFO quick_run about to load uhdas files 2012-06-17 11:21:56,789 INFO quick_run /home/data/at21_02/raw/os75/at2012_151_62215.raw /home/data/at21_02/raw/os75/at2012_152_50748.raw /home/data/at21_02/raw/os75/at2012_152_57600.raw /home/data/at21_02/raw/os75/at2012_152_58778.raw /home/data/at21_02/raw/os75/at2012_152_64800.raw ... 2012-06-17 11:21:56,793 DEBUG quick_setup load/ldcodas.tmp exists 2012-06-17 11:21:56,793 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:56,793 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/load 2012-06-17 11:21:56,793 DEBUG quick_setup running python command "ldcodas" 2012-06-17 11:21:56,794 DEBUG quick_subs filling "thisload" timerange 2012-06-17 11:21:56,801 DEBUG quick_subs in ldcodas 2012-06-17 11:21:56,801 DEBUG quick_subs cmdlist: 2012-06-17 11:21:56,801 DEBUG quick_subs ['./ens_blk017.cmd'] 2012-06-17 11:21:56,802 DEBUG quick_subs DATABASE_NAME: ../adcpdb/a_at DEFINITION_FILE: vmadcp.def LOG_FILE: load.log YEAR_BASE: 2012 cmd_file_list /* use only if specifying cmd paths, not "@" */ END ./ens_blk017.cmd 2012-06-17 11:21:56,802 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/ldcodas ldcodas.tmp 2012-06-17 11:21:56,849 DEBUG quick_subs removing a_atdir.blk 2012-06-17 11:21:56,849 DEBUG quick_subs about to run mkblkdir 2012-06-17 11:21:56,850 DEBUG quick_subs database still exists; rerunning mkdirblk 2012-06-17 11:21:56,850 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2012-06-17 11:21:56,891 DEBUG quick_subs database passes. 2012-06-17 11:21:56,893 DEBUG quick_subs start_end_time 2012/06/01 14:10:51 to 2012/06/17 11:20:13 2012-06-17 11:21:56,893 DEBUG quick_subs dd0: 152.590868 dd1: 168.472373 2012-06-17 11:21:56,894 INFO quick_adcp loaded_time_range is 2012/06/01 14:10:51 to 2012/06/17 11:20:13 2012-06-17 11:21:56,894 INFO quick_adcp (152.590868 to 168.472373) 2012-06-17 11:21:56,895 INFO quick_adcp origdb_time_range is 2012/06/01 14:10:51 to 2012/06/17 11:05:14 2012-06-17 11:21:56,895 INFO quick_adcp (152.590868 to 168.461968) 2012-06-17 11:21:56,895 INFO quick_adcp thisload_time_range is 2012/06/17 07:35:12 to 2012/06/17 11:20:13 2012-06-17 11:21:56,895 INFO quick_adcp (168.316111 to 168.316111) 2012-06-17 11:21:56,896 INFO quick_adcp --------------------- 2012-06-17 11:21:56,896 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:56,897 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/adcpdb 2012-06-17 11:21:56,897 DEBUG quick_setup running python command "lst_conf" 2012-06-17 11:21:56,897 DEBUG quick_subs dbname: a_at output: a_at.cnh time_ranges: all 2012-06-17 11:21:56,897 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_conf lst_conf.tmp 2012-06-17 11:21:59,165 DEBUG quick_setup found (in edit/asetup.m): 2012-06-17 11:21:59,165 DEBUG quick_setup config.beamangle is 30 2012-06-17 11:21:59,165 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:59,166 INFO quick_adcp step 5: set up files for gautoedit.py 2012-06-17 11:21:59,166 DEBUG quick_run file edit/codas_editparams.txt exists. not replacing 2012-06-17 11:21:59,166 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:59,166 INFO quick_adcp step 6: set up files for gautoedit.py 2012-06-17 11:21:59,167 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:59,167 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/edit 2012-06-17 11:21:59,167 DEBUG quick_setup running python command "setflags" 2012-06-17 11:21:59,167 DEBUG quick_subs dbname: ../adcpdb/a_at pg_min: 50 set_range_bit time_ranges: all 2012-06-17 11:21:59,168 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2012-06-17 11:21:59,268 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:59,268 INFO quick_adcp step 7: get navigation 2012-06-17 11:21:59,269 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:59,269 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:21:59,269 DEBUG quick_setup running python command "catnav" 2012-06-17 11:21:59,274 DEBUG quick_setup cal/rotate/lst_hdg.tmp exists 2012-06-17 11:21:59,275 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:21:59,275 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/rotate 2012-06-17 11:21:59,275 DEBUG quick_setup running python command "lst_hdg" 2012-06-17 11:21:59,276 DEBUG quick_subs dbname: ../../adcpdb/a_at output: scn.hdg step_size= 1 year_base= 2012 time_ranges: all 2012-06-17 11:21:59,276 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_hdg lst_hdg.tmp 2012-06-17 11:21:59,356 INFO quick_adcp --------------------------------------------- 2012-06-17 11:21:59,356 INFO quick_adcp step 8: get heading correction 2012-06-17 11:21:59,357 DEBUG quick_run hcorr_inst is phins 2012-06-17 11:21:59,357 DEBUG quick_mpl Starting plot: hcorr 2012-06-17 11:21:59,504 DEBUG quick_mplplots found 15.881511 days of data 2012-06-17 11:21:59,504 DEBUG quick_mplplots figures with 4 panels per page, 1.000000 days per panel 2012-06-17 11:21:59,504 DEBUG quick_mplplots printing 5 pages 2012-06-17 11:22:01,588 DEBUG quick_mpl Ending plot: hcorr 2012-06-17 11:22:01,589 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:01,589 INFO quick_adcp step 9: rotate velocities 2012-06-17 11:22:01,589 DEBUG quick_setup cal/rotate/norotate.tmp exists 2012-06-17 11:22:01,589 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:01,590 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/rotate 2012-06-17 11:22:01,590 DEBUG quick_setup running python command "norotate" 2012-06-17 11:22:01,590 DEBUG quick_subs /* No rotation was done using the "rotate" command, but */ /* it is useful have the skeleton of a rotate.tmp file */ /* to edit, should the need arise. That is the purpose */ /* of this file. */ DB_NAME: ../../adcpdb/a_at LOG_FILE: rotate.log TIME_RANGE: 2012/06/01 14:10:51 to 2012/06/17 11:20:13 OPTION_LIST: water_and_bottom_track: year_base= 2012 /* time_angle_file: time_angle.ang */ amplitude= 1.0 angle_0= 0.0 end end 2012-06-17 11:22:01,591 DEBUG quick_setup about to run echo "writing dummy rotate file" 2012-06-17 11:22:01,598 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:01,598 INFO quick_adcp step 10: nav steps: run adcpsect 2012-06-17 11:22:01,599 DEBUG quick_setup nav/as_nav.tmp exists 2012-06-17 11:22:01,599 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:01,599 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:01,599 DEBUG quick_setup running python command "as_nav" 2012-06-17 11:22:01,600 DEBUG quick_subs dbname: ../adcpdb/a_at output: a_at step_size: 1 ndepth: 20 time_ranges: separate year_base= 2012 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 2012/06/01 14:10:51 to 2012/06/17 11:20:13 /* the whole time range */ 2012-06-17 11:22:01,600 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2012-06-17 11:22:01,754 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:01,755 INFO quick_adcp step 11: nav steps: run refabs 2012-06-17 11:22:01,755 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:01,756 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:01,756 DEBUG quick_setup running python command "refabs" 2012-06-17 11:22:01,757 DEBUG quick_subs fix_file_type: simple reference_file: a_at.nav fix_file: a_at.gps output: a_at.ref year_base= 2012 ensemble_length= 300 gap_tolerance= 10 2012-06-17 11:22:01,758 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2012-06-17 11:22:01,941 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:01,941 INFO quick_adcp step 12: nav steps: run smoothr for plots 2012-06-17 11:22:01,942 DEBUG quick_setup nav/smoothr.tmp exists 2012-06-17 11:22:01,942 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:01,942 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:01,942 DEBUG quick_setup running python command "smoothr" 2012-06-17 11:22:01,943 DEBUG quick_subs reference_file: a_at.nav refabs_output: a_at.ref output: a_at.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 2012-06-17 11:22:01,943 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2012-06-17 11:22:02,725 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:02,725 INFO quick_adcp step 13: nav steps: smooth navigation 2012-06-17 11:22:02,726 INFO quick_adcp about to run numpy refsm 2012-06-17 11:22:02,726 DEBUG quick_npy Starting: refsm 2012-06-17 11:22:03,226 DEBUG nav dtmin = -0.50 dtmax = 4.42 2012-06-17 11:22:03,873 DEBUG quick_npy Ending: refsm 2012-06-17 11:22:03,874 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:03,874 INFO quick_adcp step 14: nav steps: put smoothed nav into codasdb 2012-06-17 11:22:03,874 DEBUG quick_setup nav/putnav.tmp exists 2012-06-17 11:22:03,875 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:03,875 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:03,875 DEBUG quick_setup running python command "putnav" 2012-06-17 11:22:03,875 DEBUG quick_subs dbname: ../adcpdb/a_at position_file: a_at_refsm.asc year_base= 2012 tolerance= 5 navigation_sources: gps end 2012-06-17 11:22:03,876 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2012-06-17 11:22:04,062 INFO quick_adcp plotting navigation 2012-06-17 11:22:04,062 DEBUG quick_mpl Starting plot: nav 2012-06-17 11:22:05,511 DEBUG quick_mpl Ending plot: nav 2012-06-17 11:22:05,514 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:05,515 INFO quick_adcp step 15: nav steps: make reflayer plots 2012-06-17 11:22:05,517 DEBUG quick_mpl Starting plot: refl 2012-06-17 11:22:06,129 DEBUG quick_mplplots found 15.874555 days of data 2012-06-17 11:22:06,129 DEBUG quick_mplplots start day is 152.000000 2012-06-17 11:22:06,130 DEBUG quick_mplplots figures with 2.000000 days per page 2012-06-17 11:22:06,130 DEBUG quick_mplplots printing 9 pages 2012-06-17 11:22:06,130 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2012-06-17 11:22:09,573 DEBUG quick_mpl Ending plot: refl 2012-06-17 11:22:09,574 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:09,574 INFO quick_adcp step 16: find profile flags 2012-06-17 11:22:09,575 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:09,575 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/edit 2012-06-17 11:22:09,575 DEBUG quick_setup running python command "run_autoedit_npy" 2012-06-17 11:22:09,577 DEBUG quick_npy Starting: autoedit 2012-06-17 11:22:10,271 DEBUG pingedit wrote 6 bad bins to abadbin_tmp.asc 2012-06-17 11:22:10,392 DEBUG pingedit wrote 1 bad profiles to abadprf_tmp.asc 2012-06-17 11:22:10,392 DEBUG quick_npy Ending: autoedit 2012-06-17 11:22:10,392 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:10,393 INFO quick_adcp step 17: apply editing 2012-06-17 11:22:10,393 DEBUG quick_run starting in: /home/data/at21_02/proc/os75nb 2012-06-17 11:22:10,393 DEBUG quick_run executing commands from: edit 2012-06-17 11:22:10,396 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/dbupdate ../adcpdb/a_at abadprf_tmp.asc 2012-06-17 11:22:10,409 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/badbin ../adcpdb/a_at abadbin_tmp.asc 2012-06-17 11:22:10,424 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/set_lgb ../adcpdb/a_at 30 2012-06-17 11:22:10,439 DEBUG quick_subs dbname: ../adcpdb/a_at pg_min: 50 set_range_bit time_ranges: all 2012-06-17 11:22:10,440 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2012-06-17 11:22:10,575 DEBUG quick_run changing directories back to /home/data/at21_02/proc/os75nb 2012-06-17 11:22:10,575 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:10,576 INFO quick_adcp step 18: run nav steps 2012-06-17 11:22:10,577 DEBUG quick_setup nav/as_nav.tmp exists 2012-06-17 11:22:10,578 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:10,579 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:10,580 DEBUG quick_setup running python command "as_nav" 2012-06-17 11:22:10,581 DEBUG quick_subs dbname: ../adcpdb/a_at output: a_at step_size: 1 ndepth: 20 time_ranges: separate year_base= 2012 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 2012/06/01 14:10:51 to 2012/06/17 11:20:13 /* the whole time range */ 2012-06-17 11:22:10,583 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2012-06-17 11:22:10,787 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:10,787 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:10,787 DEBUG quick_setup running python command "refabs" 2012-06-17 11:22:10,788 DEBUG quick_subs fix_file_type: simple reference_file: a_at.nav fix_file: a_at.gps output: a_at.ref year_base= 2012 ensemble_length= 300 gap_tolerance= 10 2012-06-17 11:22:10,789 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2012-06-17 11:22:10,928 DEBUG quick_setup nav/smoothr.tmp exists 2012-06-17 11:22:10,929 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:10,929 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:10,929 DEBUG quick_setup running python command "smoothr" 2012-06-17 11:22:10,930 DEBUG quick_subs reference_file: a_at.nav refabs_output: a_at.ref output: a_at.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 2012-06-17 11:22:10,931 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2012-06-17 11:22:12,254 DEBUG quick_npy Starting: refsm 2012-06-17 11:22:13,112 DEBUG nav dtmin = -0.50 dtmax = 4.42 2012-06-17 11:22:13,886 DEBUG quick_npy Ending: refsm 2012-06-17 11:22:13,887 DEBUG quick_setup nav/putnav.tmp exists 2012-06-17 11:22:13,888 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:13,888 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:13,888 DEBUG quick_setup running python command "putnav" 2012-06-17 11:22:13,889 DEBUG quick_subs dbname: ../adcpdb/a_at position_file: a_at_refsm.asc year_base= 2012 tolerance= 5 navigation_sources: gps end 2012-06-17 11:22:13,889 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/putnav putnav.tmp 2012-06-17 11:22:14,091 DEBUG quick_mpl Starting plot: nav 2012-06-17 11:22:15,790 DEBUG quick_mpl Ending plot: nav 2012-06-17 11:22:15,790 DEBUG quick_mpl Starting plot: refl 2012-06-17 11:22:16,433 DEBUG quick_mplplots found 15.874555 days of data 2012-06-17 11:22:16,435 DEBUG quick_mplplots start day is 152.000000 2012-06-17 11:22:16,435 DEBUG quick_mplplots figures with 2.000000 days per page 2012-06-17 11:22:16,437 DEBUG quick_mplplots printing 9 pages 2012-06-17 11:22:16,437 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2012-06-17 11:22:19,710 DEBUG quick_mpl Ending plot: refl 2012-06-17 11:22:19,712 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:19,712 INFO quick_adcp step 19: plot temperature 2012-06-17 11:22:19,713 DEBUG quick_setup edit/lst_temp.tmp exists 2012-06-17 11:22:19,713 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:19,713 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/edit 2012-06-17 11:22:19,714 DEBUG quick_setup running python command "lst_temp" 2012-06-17 11:22:19,714 DEBUG quick_subs dbname: ../adcpdb/a_at output: a_at.tem step_size= 1 year_base= 2012 time_ranges: all 2012-06-17 11:22:19,714 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_temp lst_temp.tmp 2012-06-17 11:22:19,839 DEBUG quick_mpl Starting plot: temp 2012-06-17 11:22:20,010 DEBUG quick_mplplots plotting 4573 points 2012-06-17 11:22:20,962 DEBUG quick_mpl Ending plot: temp 2012-06-17 11:22:20,962 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:20,962 INFO quick_adcp step 20: run calibration steps 2012-06-17 11:22:20,963 DEBUG quick_setup cal/botmtrk/lst_btrk.tmp exists 2012-06-17 11:22:20,963 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:20,963 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/botmtrk 2012-06-17 11:22:20,964 DEBUG quick_setup running python command "lst_btrk" 2012-06-17 11:22:20,964 DEBUG quick_subs dbname: ../../adcpdb/a_at output: a_at.btm step_size= 1 year_base= 2012 time_ranges: 2012/06/01 14:10:51 to 2012/06/17 11:20:13 /* whole time range */ 2012-06-17 11:22:20,964 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_btrk lst_btrk.tmp 2012-06-17 11:22:21,022 DEBUG quick_setup cal/botmtrk/refabsbt.tmp exists 2012-06-17 11:22:21,023 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:21,023 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/botmtrk 2012-06-17 11:22:21,024 DEBUG quick_setup running python command "refabsbt" 2012-06-17 11:22:21,024 DEBUG quick_subs fix_file_type: simple reference_file: a_at.btm fix_file: ../../nav/a_at.gps output: a_at.ref year_base= 2012 ensemble_length= 300 gap_tolerance= 60 2012-06-17 11:22:21,025 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabsbt refabsbt.tmp 2012-06-17 11:22:21,041 DEBUG quick_mpl Starting plot: btcal 2012-06-17 11:22:22,522 DEBUG quick_mplplots Returning from Btplot with no good output 2012-06-17 11:22:22,522 DEBUG quick_mpl Ending plot: btcal 2012-06-17 11:22:22,522 DEBUG quick_setup nav/as_nav.tmp exists 2012-06-17 11:22:22,523 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:22,523 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/nav 2012-06-17 11:22:22,523 DEBUG quick_setup running python command "as_nav" 2012-06-17 11:22:22,523 DEBUG quick_subs dbname: ../adcpdb/a_at output: a_at step_size: 1 ndepth: 20 time_ranges: separate year_base= 2012 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 2012/06/01 14:10:51 to 2012/06/17 11:20:13 /* the whole time range */ 2012-06-17 11:22:22,524 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2012-06-17 11:22:22,715 DEBUG quick_setup cal/watertrk/timslip.tmp exists 2012-06-17 11:22:22,716 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:22,716 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/watertrk 2012-06-17 11:22:22,716 DEBUG quick_setup running python command "timslip" 2012-06-17 11:22:22,717 DEBUG quick_subs fix_file_type: simple fix_file: ../../nav/a_at.gps reference_file: ../../nav/a_at.nav output_file: a_at_7.cal year_base= 2012 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 2012-06-17 11:22:22,719 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timslip timslip.tmp 2012-06-17 11:22:22,781 DEBUG quick_mpl Starting plot: wtcal 2012-06-17 11:22:22,791 DEBUG quick_mplplots Found 80 calibration points 2012-06-17 11:22:26,437 DEBUG quick_mpl Ending plot: wtcal 2012-06-17 11:22:26,438 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:26,438 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/cal/watertrk 2012-06-17 11:22:26,438 DEBUG quick_setup running python command "run_guess_xducerxy_npy" 2012-06-17 11:22:26,438 DEBUG quick_npy Starting: guess_xducerxy 2012-06-17 11:22:27,703 DEBUG quick_npy Ending: guess_xducerxy 2012-06-17 11:22:27,704 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:27,705 INFO quick_adcp step 21: extract matlab "allbins" 2012-06-17 11:22:27,706 DEBUG quick_asect ------------ step 18: make matlab files for plotting ------------- 2012-06-17 11:22:27,707 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:27,708 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/vector 2012-06-17 11:22:27,708 DEBUG quick_setup running python command "timegrid" 2012-06-17 11:22:27,709 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_at.tmp 2012-06-17 11:22:27,723 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:27,724 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/vector 2012-06-17 11:22:27,724 DEBUG quick_setup running python command "as_vect" 2012-06-17 11:22:27,726 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_vect.tmp 2012-06-17 11:22:28,103 DEBUG quick_asect done making vector matfiles 2012-06-17 11:22:28,104 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:28,104 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/contour 2012-06-17 11:22:28,105 DEBUG quick_setup running python command "timegrid" 2012-06-17 11:22:28,105 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_at.tmp 2012-06-17 11:22:28,137 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:28,138 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/contour 2012-06-17 11:22:28,138 DEBUG quick_setup running python command "as_cont" 2012-06-17 11:22:28,138 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_cont.tmp 2012-06-17 11:22:28,813 DEBUG quick_setup starting in /home/data/at21_02/proc/os75nb 2012-06-17 11:22:28,814 DEBUG quick_setup executing commands from /home/data/at21_02/proc/os75nb/contour 2012-06-17 11:22:28,814 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_at 2012-06-17 11:22:29,713 DEBUG quick_asect done running getmat with "allbins" 2012-06-17 11:22:29,713 INFO quick_adcp --------------------------------------------- 2012-06-17 11:22:29,714 INFO quick_adcp step 22: write "cruise_info.txt" 2012-06-17 11:22:29,804 INFO root copying NOFIG to /home/adcp/www/figures/os75nb_hcorr_plot.png 2012-06-17 11:22:29,807 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/os75nb_hcorr_plot_thumb.png 2012-06-17 11:22:29,808 DEBUG root matfile is contour/contour_uv.mat 2012-06-17 11:22:30,161 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/os75nb_cont_uv.mat 2012-06-17 11:22:30,161 DEBUG root matfile is vector/vector_uv.mat 2012-06-17 11:22:30,162 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/os75nb_vect_uv.mat 2012-06-17 11:22:30,163 DEBUG root matfile is contour/contour_xy.mat 2012-06-17 11:22:30,163 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/os75nb_cont_xy.mat 2012-06-17 11:22:30,164 DEBUG root matfile is vector/vector_xy.mat 2012-06-17 11:22:30,171 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/os75nb_vect_xy.mat 2012-06-17 11:22:30,176 DEBUG root about to copy file edit/a_at.tem to /home/adcp/www/data/os75nb_temp.asc 2012-06-17 11:22:30,178 INFO root copying edit/a_at.tem to /home/adcp/www/data/os75nb_temp.asc 2012-06-17 11:22:33,050 DEBUG root about to copy netcdf file /home/data/at21_02/proc/os75nb/contour/os75nb.nc to /home/adcp/www/data/os75nb.nc 2012-06-17 11:22:33,105 INFO root copying edit/a_at.tem to /home/adcp/www/data/os75nb.nc 2012-06-17 11:22:33,311 INFO root generating pingstats for os75nb 2012-06-17 11:22:33,311 INFO root Ending quick_adcp.py