2015-08-02 15:43:27,521 DEBUG root about to write control file parameters to --yearbase 2015 --cruisename oc1507b_01 --configtype python --sonar os75nb --dbname a_oc --datatype uhdas --cfgpath /home/data/oc1507b_01/proc/os75nb/config --ens_len 300 #--update_gbin ## python gbins: run by "run_lastensq.py" at sea #offset between transducer and gps, applied in at-sea processing # NOTE : read special instructions to change offsets # diagnostics in cal/watertrk/guess_xducerxy.out # parameters used: --xducer_dx 1 --xducer_dy -30 ## see config/oc1507b_01_proc.py for other settings --skip_avg ## see above --max_search_depth 2000 --ping_headcorr --proc_engine python --refuv_smoothwin 3 --incremental --find_pflags --hidedisplay --top_plotbin 1 --auto 2015-08-02 15:43:27,522 DEBUG quick_adcp sys.argv = /home/currents/programs/uhdas/scripts/run_quick.py -d os75nb 2015-08-02 15:43:27,524 DEBUG quick_adcp progdir = /home/currents/programs 2015-08-02 15:43:27,524 DEBUG quick_adcp binos = lnx 2015-08-02 15:43:27,527 DEBUG quick_setup found cruise_info.hcorr (ashtech, adu, 4) 2015-08-02 15:43:27,527 DEBUG quick_setup no heading correction will be used within the ensembles but values are staged in cal/rotate/hcorr.asc 2015-08-02 15:43:27,528 INFO quick_setup fix file is a_oc.gps 2015-08-02 15:43:27,528 INFO quick_setup reflayer: ref_method = refsm 2015-08-02 15:43:27,528 INFO quick_setup reflayer: refuv_source = nav 2015-08-02 15:43:27,528 INFO quick_setup reflayer: refuv_smoothwin = 3 2015-08-02 15:43:27,529 INFO quick_adcp importing numpy 2015-08-02 15:43:27,556 INFO quick_adcp importing matplotlib 2015-08-02 15:43:27,834 DEBUG quick_mpl in Q_mpl 2015-08-02 15:43:27,834 INFO quick_adcp ===================================================== 2015-08-02 15:43:27,834 INFO quick_adcp ===================================================== 2015-08-02 15:43:27,835 INFO quick_adcp command line was: /home/currents/programs/uhdas/scripts/run_quick.py -d os75nb 2015-08-02 15:43:27,835 INFO quick_adcp cwd is /home/data/oc1507b_01/proc/os75nb about to run these steps: - write_clearflags - scandata - avg_and_load - codaseditsetup - setflags - getnav - lst_hdg - plot_headcorr - navsteps - find_pflags - apply_edit - navsteps - lst_temp - plot_temp - lst_npings - calib - matfiles - adcpsect - refabs - smoothnav - putnav - refplots - find_pflags - codaseditsetup 2015-08-02 15:43:27,835 DEBUG quick_asect extracting matlab files for os75, nb pings 2015-08-02 15:43:27,847 DEBUG quick_setup data directory: /home/data/oc1507b_01/raw/os75 2015-08-02 15:43:27,848 INFO quick_setup found 61 files using wildcard expansion relative to scan directory wildcard string was: "/home/data/oc1507b_01/raw/os75/*.raw" 2015-08-02 15:43:27,849 DEBUG quick_setup found 61 files from original filelist 2015-08-02 15:43:27,849 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/oc1507b_01/raw/os75/oc2015_208_53872.raw ... 2015-08-02 15:43:27,851 DEBUG quick_adcp Sun Aug 2 15:43:27 2015 running quick_adcp.py as follows: --cntfile /home/data/oc1507b_01/proc/os75nb/os75nb_qpy.cnt ----- adcpsect variables ------ 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 28 gridnum 80 increment 10 loaded_time_range all numbins 128 outdir . pgmin 50 prefix allbins_ proc_yearbase 2015 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 bindir /home/currents/programs/codas3/bin/lnx binos lnx bl_half_width 3 btrk_step 1 cfgpath /home/data/oc1507b_01/proc/os75nb/config cntfile /home/data/oc1507b_01/proc/os75nb/os75nb_qpy.cnt commands None configtype python cruisename oc1507b_01 data_def vmadcp.def datadir /home/data/oc1507b_01/raw/os75 datafile_glob *.raw datatype uhdas dbname a_oc dday_bailout None debug False ens_len 300 expert None filelist ['/home/data/oc1507b_01/raw/os75/oc2015_208_53872.raw', '/home/data/oc1507b_01/raw/os75/oc2015_208_57600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_208_64800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_208_72000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_208_79200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_00000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_07200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_14400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_21600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_28800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_36000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_43200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_50400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_57600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_64800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_72000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_209_79200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_00000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_07200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_14400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_21600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_28800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_36000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_43200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_50400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_57600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_64800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_72000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_210_79200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_00000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_07200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_14400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_21600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_28800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_36000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_43200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_50400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_57600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_64800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_72000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_211_79200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_00000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_07200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_14400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_21600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_28800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_36000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_43200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_50400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_57600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_64800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_72000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_212_79200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_00000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_07200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_14400.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_21600.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_28800.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_36000.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_43200.raw', '/home/data/oc1507b_01/raw/os75/oc2015_213_50400.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 28 fixfile a_oc.gps fixfilexy a_oc.agt frequency 75 hcorr_inst ashtech help False hidedisplay True incremental True instname os75 jitter 15 max_BLKprofiles 300 max_search_depth 2000 maxrunsecs None min_filter_fraction 0.5 model os nosave_editcfg 0 num_persistence 24 numbins 128 overview False pgmin 50 ping_headcorr True pingtype nb printformats png proc_engine python proc_yearbase 2015 progdir /home/currents/programs py_gbindirbase /home/data/oc1507b_01/gbin ref_method refsm refuv_inputfile a_oc.agt refuv_smoothwin 3 refuv_source nav rl_endbin 20 rl_startbin 2 rotate_amplitude 1 rotate_angle 0 save_lastens 0 setup_info False skip_avg True sonar os75nb steps2rerun sum_xducer_dx 1 sum_xducer_dy -30 time_angle_base ens_hcorr time_angle_file ens_hcorr.ang timeout_secs 86400 tips False top_plotbin 1 tuv_file refsm_tuv.asc txy_file a_oc.agt ub_type 1920 uhdas_config yearbase = 2015 uhdas_dir = /home/data/oc1507b_01 sonar = os75nb gbin = /home/data/oc1507b_01/gbin gbinsonar = /home/data/oc1507b_01/gbin/os75 raw = /home/data/oc1507b_01/raw rawsonar = /home/data/oc1507b_01/raw/os75 rbin = /home/data/oc1507b_01/rbin proc = /home/data/oc1507b_01/proc procsonar = /home/data/oc1507b_01/proc/os75nb other attributes: gbin_params = hdg_inst : gyro hdg_inst_msgs : [('gyro', 'hdg'), ('ashtech', 'adu')] hdg_msg : hdg pitch_inst : ashtech pitch_msg : adu pos_inst : gpsnav pos_msg : gps roll_inst : ashtech roll_msg : adu pingavg_params = hbest : ['gyro', 'hdg'] head_align : -43.4 tr_depth : 5 velscale : {'scale': 1.0} hcorr = ['ashtech', 'adu', 4.4] acc_heading_cutoff = 0.02 update_gbin False vardoc False varvals False wtrk_step 7 xducer_dx 1 xducer_dy -30 yearbase 2015 configured to run the following steps: write_clearflags scandata avg_and_load codaseditsetup setflags getnav lst_hdg plot_headcorr navsteps find_pflags apply_edit navsteps lst_temp plot_temp lst_npings calib matfiles adcpsect refabs smoothnav putnav refplots find_pflags codaseditsetup 2015-08-02 15:43:27,851 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:27,851 INFO quick_adcp step 1: set up files in "edit" directory 2015-08-02 15:43:27,851 INFO quick_run file exists (edit/clearflags.tmp). not writing 2015-08-02 15:43:27,852 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:27,852 INFO quick_adcp step 2: scan files for time range 2015-08-02 15:43:27,852 DEBUG quick_npy Starting: scanping 2015-08-02 15:43:28,012 DEBUG quick_npy Ending: scanping 2015-08-02 15:43:28,014 DEBUG quick_subs start_end_time 2015/07/28 14:57:54 to 2015/07/28 15:13:06 2015-08-02 15:43:28,014 DEBUG quick_subs dd0: 208.623542 dd1: 208.634097 2015-08-02 15:43:28,014 INFO quick_adcp looking for database with adcpdb/a_oc*.blk 2015-08-02 15:43:28,015 INFO quick_adcp database found: listing blocks 2015-08-02 15:43:28,016 DEBUG quick_subs removing a_ocdir.blk 2015-08-02 15:43:28,016 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:43:28,016 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:43:28,016 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:43:28,033 DEBUG quick_subs database passes. 2015-08-02 15:43:28,035 DEBUG quick_subs start_end_time 2015/07/28 15:02:52 to 2015/08/02 15:27:54 2015-08-02 15:43:28,036 DEBUG quick_subs dd0: 208.626991 dd1: 213.644375 2015-08-02 15:43:28,036 DEBUG quick_adcp in quick_adcp.py before load, just looked for database times 2015-08-02 15:43:28,036 DEBUG quick_adcp origdb_time_range is 2015/07/28 15:02:52 to 2015/08/02 15:27:54 2015-08-02 15:43:28,036 DEBUG quick_adcp (208.626991 to 213.644375) 2015-08-02 15:43:28,036 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:28,037 INFO quick_adcp step 3: generate averaged data... 2015-08-02 15:43:28,037 INFO quick_run file load/ping_editparams.txt exists. not replacing 2015-08-02 15:43:28,037 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:28,037 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/load 2015-08-02 15:43:28,037 DEBUG quick_setup running python command "run_pingavg_npy" 2015-08-02 15:43:28,038 DEBUG quick_npy Starting: pingavg 2015-08-02 15:43:28,042 DEBUG quick_npy singleping editing parameters: 2015-08-02 15:43:28,042 DEBUG quick_npy bigtarget_mab_window : 11 2015-08-02 15:43:28,042 DEBUG quick_npy rl_endbin : 20 2015-08-02 15:43:28,042 DEBUG quick_npy max_search_depth : 2000 2015-08-02 15:43:28,042 DEBUG quick_npy cor_cutoff : 120 2015-08-02 15:43:28,042 DEBUG quick_npy ampfilt : 40 2015-08-02 15:43:28,043 DEBUG quick_npy bigtarget_lgb_margin : 0.500000 2015-08-02 15:43:28,043 DEBUG quick_npy rl_startbin : 2 2015-08-02 15:43:28,043 DEBUG quick_npy ecutoff : 0.800000 2015-08-02 15:43:28,043 DEBUG quick_npy refavg_valcutoff : 1 2015-08-02 15:43:28,043 DEBUG quick_npy weakprof_percent : 30 2015-08-02 15:43:28,043 DEBUG quick_npy bigtarget_ampthresh : 55 2015-08-02 15:43:28,043 DEBUG quick_npy xducerxy is [1, -30] 2015-08-02 15:43:28,055 INFO pingavg ---------------- 2015-08-02 15:43:28,055 INFO pingavg Pingavg.run for time range 213.583330 to 213.655115 2015-08-02 15:43:28,055 INFO pingavg transducer offset: xducer_dx = 1.000, xducer_dy = -30.000 2015-08-02 15:43:28,055 INFO pingavg shifted positions applied to *.gpst2 and *.uvship' 2015-08-02 15:43:28,056 INFO pingavg ---------------- 2015-08-02 15:43:28,118 DEBUG pingavg Chunk 1 of 1, 213.583330 to 213.655115 2015-08-02 15:43:28,119 DEBUG pingavg Nothing written 2015-08-02 15:43:28,119 DEBUG quick_npy wrote 0 averages 2015-08-02 15:43:28,120 DEBUG quick_npy Ending: pingavg 2015-08-02 15:43:28,120 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:28,120 INFO quick_adcp step 4: load averaged data (to database) 2015-08-02 15:43:28,121 DEBUG quick_subs in del_overlapping 2015-08-02 15:43:28,121 DEBUG quick_subs lastblock: 2015-08-02 15:43:28,121 DEBUG quick_subs 5 2015-08-02 15:43:28,122 DEBUG quick_subs lastcmd: 2015-08-02 15:43:28,122 DEBUG quick_subs 5 2015-08-02 15:43:28,122 DEBUG quick_subs delblks: 2015-08-02 15:43:28,122 DEBUG quick_subs [5] 2015-08-02 15:43:28,122 DEBUG quick_subs loadblks: 2015-08-02 15:43:28,122 DEBUG quick_subs [5] 2015-08-02 15:43:28,123 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:43:28,124 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:43:28,124 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:43:28,138 DEBUG quick_subs database passes. 2015-08-02 15:43:28,138 DEBUG quick_subs start_end_time 2015/07/28 15:02:52 to 2015/08/01 18:57:52 2015-08-02 15:43:28,138 DEBUG quick_subs dd0: 208.626991 dd1: 212.790185 2015-08-02 15:43:28,139 DEBUG quick_run [5] 2015-08-02 15:43:28,139 DEBUG quick_run cmdlist 2015-08-02 15:43:28,139 DEBUG quick_run ['./ens_blk005.cmd'] 2015-08-02 15:43:28,143 INFO quick_run loaded time range: 2015/08/01 19:02:53 to 2015/08/02 15:42:53 2015-08-02 15:43:28,143 DEBUG quick_setup load/ldcodas.tmp exists 2015-08-02 15:43:28,143 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:28,144 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/load 2015-08-02 15:43:28,144 DEBUG quick_setup running python command "ldcodas" 2015-08-02 15:43:28,144 DEBUG quick_subs filling "thisload" timerange 2015-08-02 15:43:28,147 DEBUG quick_subs in ldcodas 2015-08-02 15:43:28,147 DEBUG quick_subs cmdlist: 2015-08-02 15:43:28,147 DEBUG quick_subs ['./ens_blk005.cmd'] 2015-08-02 15:43:28,148 DEBUG quick_subs DATABASE_NAME: ../adcpdb/a_oc DEFINITION_FILE: vmadcp.def LOG_FILE: load.log YEAR_BASE: 2015 cmd_file_list /* use only if specifying cmd paths, not "@" */ END ./ens_blk005.cmd 2015-08-02 15:43:28,148 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/ldcodas ldcodas.tmp 2015-08-02 15:43:28,223 INFO quick_run 6 block files present 2015-08-02 15:43:28,223 DEBUG quick_subs removing a_ocdir.blk 2015-08-02 15:43:28,224 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:43:28,224 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:43:28,224 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:43:28,242 DEBUG quick_subs database passes. 2015-08-02 15:43:28,243 DEBUG quick_subs start_end_time 2015/07/28 15:02:52 to 2015/08/02 15:42:53 2015-08-02 15:43:28,243 DEBUG quick_subs dd0: 208.626991 dd1: 213.654780 2015-08-02 15:43:28,244 INFO quick_adcp database time range: 2015-08-02 15:43:28,244 INFO quick_adcp 2015/07/28 15:02:52 to 2015/08/02 15:42:53 2015-08-02 15:43:28,244 INFO quick_adcp (208.626991 to 213.654780) 2015-08-02 15:43:28,244 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:28,244 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/adcpdb 2015-08-02 15:43:28,245 DEBUG quick_setup running python command "lst_conf" 2015-08-02 15:43:28,245 DEBUG quick_subs dbname: a_oc output: a_oc.cnh time_ranges: all 2015-08-02 15:43:28,245 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_conf lst_conf.tmp 2015-08-02 15:43:28,269 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:28,269 INFO quick_adcp step 5: set up files for codas editing (gautoedit.py) 2015-08-02 15:43:28,270 DEBUG quick_run file edit/codas_editparams.txt exists. not replacing 2015-08-02 15:43:28,270 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:28,270 INFO quick_adcp step 6: run setflags? 2015-08-02 15:43:28,270 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:28,270 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/edit 2015-08-02 15:43:28,271 DEBUG quick_setup running python command "write_setflags" 2015-08-02 15:43:28,271 DEBUG quick_subs dbname: ../adcpdb/a_oc pg_min: 50 set_range_bit time_ranges: all 2015-08-02 15:43:28,271 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2015-08-02 15:43:28,355 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:28,355 INFO quick_adcp step 7: get navigation 2015-08-02 15:43:28,356 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:28,356 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:28,356 DEBUG quick_setup running python command "catnav" 2015-08-02 15:43:28,358 INFO quick_subs navigation file nav/a_oc.gps created from load/*.gps2 2015-08-02 15:43:28,360 INFO quick_subs navigation file nav/a_oc.agt created from load/*.gpst2 2015-08-02 15:43:28,363 DEBUG quick_mpl Starting plot: uvship 2015-08-02 15:43:29,320 DEBUG quick_mpl Ending plot: uvship 2015-08-02 15:43:29,320 INFO quick_run plotted uvship 2015-08-02 15:43:29,320 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:29,321 INFO quick_adcp step 8: list heading 2015-08-02 15:43:29,321 DEBUG quick_setup cal/rotate/lst_hdg.tmp exists 2015-08-02 15:43:29,321 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:29,321 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/cal/rotate 2015-08-02 15:43:29,322 DEBUG quick_setup running python command "lst_hdg" 2015-08-02 15:43:29,322 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: scn.hdg step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:43:29,322 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_hdg lst_hdg.tmp 2015-08-02 15:43:29,352 INFO quick_run ... headings extracted 2015-08-02 15:43:29,353 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:29,353 INFO quick_adcp step 9: plot heading correction 2015-08-02 15:43:29,354 DEBUG quick_run hcorr_inst is ashtech 2015-08-02 15:43:29,354 DEBUG quick_mpl Starting plot: hcorr 2015-08-02 15:43:29,431 DEBUG quick_mplplots found 5.027785 days of data 2015-08-02 15:43:29,431 DEBUG quick_mplplots figures with 4 panels per page, 1.000000 days per panel 2015-08-02 15:43:29,432 DEBUG quick_mplplots printing 2 pages 2015-08-02 15:43:31,498 DEBUG quick_mpl Ending plot: hcorr 2015-08-02 15:43:31,498 INFO quick_run plots are in cal/rotate/*png 2015-08-02 15:43:31,499 INFO quick_adcp ------------------------- 2015-08-02 15:43:31,499 INFO quick_adcp ---- running navsteps --- 2015-08-02 15:43:31,499 INFO quick_adcp ------------------------- 2015-08-02 15:43:31,499 INFO quick_adcp step 10: nav steps: run adcpsect 2015-08-02 15:43:31,500 INFO quick_adcp navstep 1 2015-08-02 15:43:31,500 DEBUG quick_setup nav/as_nav.tmp exists 2015-08-02 15:43:31,500 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:31,500 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:31,500 DEBUG quick_setup running python command "as_nav" 2015-08-02 15:43:31,501 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc step_size: 1 ndepth: 20 time_ranges: separate year_base= 2015 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 2015/07/28 15:02:52 to 2015/08/02 15:42:53 /* the whole time range */ 2015-08-02 15:43:31,501 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2015-08-02 15:43:31,556 INFO quick_run ... ran adcpsect for navsteps 2015-08-02 15:43:31,557 INFO quick_adcp ------------------------- 2015-08-02 15:43:31,557 INFO quick_adcp step 11: nav steps: run refabs 2015-08-02 15:43:31,557 INFO quick_adcp navstep 2 2015-08-02 15:43:31,557 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:31,558 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:31,558 DEBUG quick_setup running python command "refabs" 2015-08-02 15:43:31,558 DEBUG quick_subs fix_file_type: simple reference_file: a_oc.nav fix_file: a_oc.gps output: a_oc.ref year_base= 2015 ensemble_length= 300 gap_tolerance= 10 2015-08-02 15:43:31,558 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2015-08-02 15:43:31,595 INFO quick_run ... ran refabs for navsteps 2015-08-02 15:43:31,595 INFO quick_adcp ------------------------- 2015-08-02 15:43:31,595 INFO quick_adcp step 12: nav steps: run smoothr for plots 2015-08-02 15:43:31,595 INFO quick_adcp navstep 3 2015-08-02 15:43:31,596 DEBUG quick_setup nav/smoothr.tmp exists 2015-08-02 15:43:31,596 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:31,596 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:31,596 DEBUG quick_setup running python command "smoothr" 2015-08-02 15:43:31,596 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 2015-08-02 15:43:31,597 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2015-08-02 15:43:31,749 INFO quick_run ... ran smoothr 2015-08-02 15:43:31,749 INFO quick_adcp ------------------------- 2015-08-02 15:43:31,749 INFO quick_adcp step 13: nav steps: smooth navigation for velocities 2015-08-02 15:43:31,750 INFO quick_adcp navstep 4 2015-08-02 15:43:31,750 INFO quick_run smoothing method for ship speed: refsm 2015-08-02 15:43:31,750 INFO quick_run smoothing window: 3 2015-08-02 15:43:31,750 INFO quick_run ship speed source: nav 2015-08-02 15:43:31,750 DEBUG quick_npy Starting: refsm 2015-08-02 15:43:32,002 DEBUG quick_npy Ending: refsm 2015-08-02 15:43:32,298 INFO quick_run ... shipspeed smoothing step done 2015-08-02 15:43:32,298 INFO quick_adcp ------------------------- 2015-08-02 15:43:32,298 INFO quick_adcp step 14: nav steps: put positions and uvship from refsm into codasdb 2015-08-02 15:43:32,298 INFO quick_adcp navstep 5 2015-08-02 15:43:32,299 DEBUG quick_setup nav/put_txy.tmp exists 2015-08-02 15:43:32,299 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:32,299 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:32,299 DEBUG quick_setup running python command "put_txy" 2015-08-02 15:43:32,299 DEBUG quick_subs dbname: ../adcpdb/a_oc position_file: a_oc.agt year_base= 2015 tolerance= 5 2015-08-02 15:43:32,299 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/put_txy put_txy.tmp 2015-08-02 15:43:32,617 INFO quick_run ... ran put_txy 2015-08-02 15:43:32,618 DEBUG quick_setup nav/put_tuv.tmp exists 2015-08-02 15:43:32,618 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:32,618 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:32,618 DEBUG quick_setup running python command "put_tuv" 2015-08-02 15:43:32,618 DEBUG quick_subs dbname: ../adcpdb/a_oc shipspeed_file: refsm_tuv.asc year_base= 2015 tolerance= 5 2015-08-02 15:43:32,619 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/put_tuv put_tuv.tmp 2015-08-02 15:43:32,873 INFO quick_run ... ran put_tuv 2015-08-02 15:43:32,873 DEBUG quick_mpl Starting plot: nav 2015-08-02 15:43:33,653 DEBUG quick_mpl Ending plot: nav 2015-08-02 15:43:33,654 INFO quick_run ... made navigation plot 2015-08-02 15:43:33,654 INFO quick_adcp ------------------------- 2015-08-02 15:43:33,655 INFO quick_adcp step 15: nav steps: make reflayer plots 2015-08-02 15:43:33,655 INFO quick_adcp navstep 6 2015-08-02 15:43:33,655 DEBUG quick_mpl Starting plot: refl 2015-08-02 15:43:33,780 DEBUG quick_mplplots found 5.013888 days of data 2015-08-02 15:43:33,780 DEBUG quick_mplplots start day is 208.000000 2015-08-02 15:43:33,780 DEBUG quick_mplplots figures with 2.000000 days per page 2015-08-02 15:43:33,781 DEBUG quick_mplplots printing 3 pages 2015-08-02 15:43:33,781 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2015-08-02 15:43:35,653 DEBUG quick_mpl Ending plot: refl 2015-08-02 15:43:35,654 INFO quick_run ... made reflayer plots 2015-08-02 15:43:35,654 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:35,654 INFO quick_adcp step 10: find profile flags 2015-08-02 15:43:35,655 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,655 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/edit 2015-08-02 15:43:35,655 DEBUG quick_setup running python command "run_autoedit_npy" 2015-08-02 15:43:35,655 DEBUG quick_npy Starting: autoedit 2015-08-02 15:43:35,844 DEBUG pingedit wrote 68 bad bins to abadbin_tmp.asc 2015-08-02 15:43:35,888 DEBUG pingedit wrote 1 bad profiles to abadprf_tmp.asc 2015-08-02 15:43:35,888 DEBUG quick_npy Ending: autoedit 2015-08-02 15:43:35,888 INFO quick_run ... extracted files using automatic editing 2015-08-02 15:43:35,888 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:35,889 INFO quick_adcp step 11: apply editing 2015-08-02 15:43:35,889 DEBUG quick_run starting in: /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,889 DEBUG quick_run executing commands from: edit 2015-08-02 15:43:35,892 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/dbupdate ../adcpdb/a_oc abadprf_tmp.asc 2015-08-02 15:43:35,901 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/badbin ../adcpdb/a_oc abadbin_tmp.asc 2015-08-02 15:43:35,917 DEBUG quick_subs dbname: ../adcpdb/a_oc pg_min: 50 set_range_bit time_ranges: all 2015-08-02 15:43:35,917 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2015-08-02 15:43:35,960 DEBUG quick_run changing directories back to /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,961 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:35,961 INFO quick_adcp step 12: run calibration steps 2015-08-02 15:43:35,962 DEBUG quick_setup cal/botmtrk/lst_btrk.tmp exists 2015-08-02 15:43:35,962 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,962 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/cal/botmtrk 2015-08-02 15:43:35,962 DEBUG quick_setup running python command "lst_btrk" 2015-08-02 15:43:35,963 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: a_oc.btm step_size= 1 year_base= 2015 time_ranges: 2015/07/28 15:02:52 to 2015/08/02 15:42:53 /* whole time range */ 2015-08-02 15:43:35,963 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_btrk lst_btrk.tmp 2015-08-02 15:43:35,983 DEBUG quick_setup cal/botmtrk/refabsbt.tmp exists 2015-08-02 15:43:35,983 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,984 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/cal/botmtrk 2015-08-02 15:43:35,984 DEBUG quick_setup running python command "refabsbt" 2015-08-02 15:43:35,984 DEBUG quick_subs fix_file_type: simple reference_file: a_oc.btm fix_file: ../../nav/a_oc.gps output: a_oc.ref year_base= 2015 ensemble_length= 300 gap_tolerance= 60 2015-08-02 15:43:35,984 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabsbt refabsbt.tmp 2015-08-02 15:43:35,995 INFO quick_run ...bottom track info in check cal/botmtrk 2015-08-02 15:43:35,996 DEBUG quick_mpl Starting plot: btcal 2015-08-02 15:43:35,997 DEBUG quick_mplplots No data in a_oc.btm 2015-08-02 15:43:35,997 DEBUG quick_mplplots Returning from Btplot with no output 2015-08-02 15:43:35,997 DEBUG quick_mpl Ending plot: btcal 2015-08-02 15:43:35,998 DEBUG quick_setup nav/as_nav.tmp exists 2015-08-02 15:43:35,998 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:35,998 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/nav 2015-08-02 15:43:35,998 DEBUG quick_setup running python command "as_nav" 2015-08-02 15:43:35,999 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc step_size: 1 ndepth: 20 time_ranges: separate year_base= 2015 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 2015/07/28 15:02:52 to 2015/08/02 15:42:53 /* the whole time range */ 2015-08-02 15:43:35,999 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2015-08-02 15:43:36,067 DEBUG quick_setup cal/watertrk/timslip.tmp exists 2015-08-02 15:43:36,068 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:36,068 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/cal/watertrk 2015-08-02 15:43:36,068 DEBUG quick_setup running python command "timslip" 2015-08-02 15:43:36,068 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= 2015 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 2015-08-02 15:43:36,069 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timslip timslip.tmp 2015-08-02 15:43:36,096 INFO quick_run ... watertrack info in cal/watertrk 2015-08-02 15:43:36,096 DEBUG quick_mpl Starting plot: wtcal 2015-08-02 15:43:36,102 DEBUG quick_mplplots Found 49 calibration points 2015-08-02 15:43:38,215 DEBUG quick_mpl Ending plot: wtcal 2015-08-02 15:43:38,215 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:38,215 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/cal/watertrk 2015-08-02 15:43:38,216 DEBUG quick_setup running python command "run_guess_xducerxy_npy" 2015-08-02 15:43:38,216 DEBUG quick_npy Starting: guess_xducerxy 2015-08-02 15:43:38,375 DEBUG quick_npy Ending: guess_xducerxy 2015-08-02 15:43:38,376 INFO quick_run ... check cal/watertrk for estimate 2015-08-02 15:43:38,376 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:38,376 INFO quick_adcp step 13: extract and plot temperature 2015-08-02 15:43:38,377 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:38,377 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/edit 2015-08-02 15:43:38,377 DEBUG quick_setup running python command "lst_temp" 2015-08-02 15:43:38,377 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc.tem step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:43:38,378 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_temp lst_temp.tmp 2015-08-02 15:43:38,413 DEBUG quick_mpl Starting plot: temp 2015-08-02 15:43:38,460 DEBUG quick_mplplots plotting 1449 points 2015-08-02 15:43:38,998 DEBUG quick_mpl Ending plot: temp 2015-08-02 15:43:39,000 INFO quick_run plotted temperature 2015-08-02 15:43:39,000 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:39,001 INFO quick_adcp step 14: extract and plot number of pings per ensemble 2015-08-02 15:43:39,001 DEBUG quick_setup edit/lst_npings.tmp exists 2015-08-02 15:43:39,001 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,001 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/edit 2015-08-02 15:43:39,001 DEBUG quick_setup running python command "lst_npings" 2015-08-02 15:43:39,002 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc_npings.txt step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:43:39,002 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_npings lst_npings.tmp 2015-08-02 15:43:39,035 DEBUG quick_mpl Starting plot: npings 2015-08-02 15:43:39,097 DEBUG quick_mplplots plotting 1449 points 2015-08-02 15:43:39,445 DEBUG quick_mpl Ending plot: npings 2015-08-02 15:43:39,445 INFO quick_run ... plotted number of pings per ensemble 2015-08-02 15:43:39,446 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:39,446 INFO quick_adcp step 15: extract matlab "allbins" 2015-08-02 15:43:39,446 DEBUG quick_asect step 18: make matlab files for plotting 2015-08-02 15:43:39,446 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,446 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/vector 2015-08-02 15:43:39,446 DEBUG quick_setup running python command "timegrid" 2015-08-02 15:43:39,447 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2015-08-02 15:43:39,457 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,457 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/vector 2015-08-02 15:43:39,457 DEBUG quick_setup running python command "as_vect" 2015-08-02 15:43:39,458 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_vect.tmp 2015-08-02 15:43:39,509 DEBUG quick_asect done making vector matfiles 2015-08-02 15:43:39,510 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,510 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/contour 2015-08-02 15:43:39,510 DEBUG quick_setup running python command "timegrid" 2015-08-02 15:43:39,511 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2015-08-02 15:43:39,522 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,523 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/contour 2015-08-02 15:43:39,523 DEBUG quick_setup running python command "as_cont" 2015-08-02 15:43:39,523 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_cont.tmp 2015-08-02 15:43:39,600 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/os75nb 2015-08-02 15:43:39,600 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/os75nb/contour 2015-08-02 15:43:39,600 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_oc 2015-08-02 15:43:39,787 DEBUG quick_asect done running getmat with "allbins" 2015-08-02 15:43:39,788 INFO quick_adcp --------------------------------------------- 2015-08-02 15:43:39,788 INFO quick_adcp writing "cruise_info.txt" 2015-08-02 15:43:39,791 INFO root copying NOFIG to /home/adcp/www/figures/os75nb_hcorr_plot.png 2015-08-02 15:43:39,792 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/os75nb_hcorr_plot_thumb.png 2015-08-02 15:43:39,792 DEBUG root matfile is contour/contour_uv.mat 2015-08-02 15:43:39,796 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/os75nb_cont_uv.mat 2015-08-02 15:43:39,796 DEBUG root matfile is vector/vector_uv.mat 2015-08-02 15:43:39,797 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/os75nb_vect_uv.mat 2015-08-02 15:43:39,798 DEBUG root matfile is contour/contour_xy.mat 2015-08-02 15:43:39,798 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/os75nb_cont_xy.mat 2015-08-02 15:43:39,798 DEBUG root matfile is vector/vector_xy.mat 2015-08-02 15:43:39,799 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/os75nb_vect_xy.mat 2015-08-02 15:43:39,799 DEBUG root about to copy file edit/a_oc.tem to /home/adcp/www/data/os75nb_temp.asc 2015-08-02 15:43:39,800 INFO root copying edit/a_oc.tem to /home/adcp/www/data/os75nb_temp.asc 2015-08-02 15:43:39,802 INFO netcdf Using pupynere. 2015-08-02 15:43:39,953 DEBUG root about to copy netcdf file /home/data/oc1507b_01/proc/os75nb/contour/os75nb.nc to /home/adcp/www/data/os75nb.nc 2015-08-02 15:43:39,963 INFO root copying edit/a_oc.tem to /home/adcp/www/data/os75nb.nc 2015-08-02 15:43:39,996 INFO root generating pingstats for os75nb 2015-08-02 15:43:39,996 INFO root Ending quick_adcp.py