2015-08-02 15:47:55,542 DEBUG root about to write control file parameters to --yearbase 2015 --cruisename oc1507b_01 --configtype python --sonar wh300 --dbname a_oc --datatype uhdas --cfgpath /home/data/oc1507b_01/proc/wh300/config --ens_len 120 #--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 500 --ping_headcorr --proc_engine python --refuv_smoothwin 3 --incremental --find_pflags --hidedisplay --top_plotbin 1 --auto 2015-08-02 15:47:55,543 DEBUG quick_adcp sys.argv = /home/currents/programs/uhdas/scripts/run_quick.py -d wh300 2015-08-02 15:47:55,545 DEBUG quick_adcp progdir = /home/currents/programs 2015-08-02 15:47:55,545 DEBUG quick_adcp binos = lnx 2015-08-02 15:47:55,547 DEBUG quick_setup found cruise_info.hcorr (ashtech, adu, 4) 2015-08-02 15:47:55,548 DEBUG quick_setup no heading correction will be used within the ensembles but values are staged in cal/rotate/hcorr.asc 2015-08-02 15:47:55,548 INFO quick_setup fix file is a_oc.gps 2015-08-02 15:47:55,549 INFO quick_setup reflayer: ref_method = refsm 2015-08-02 15:47:55,549 INFO quick_setup reflayer: refuv_source = nav 2015-08-02 15:47:55,549 INFO quick_setup reflayer: refuv_smoothwin = 3 2015-08-02 15:47:55,549 INFO quick_adcp importing numpy 2015-08-02 15:47:55,577 INFO quick_adcp importing matplotlib 2015-08-02 15:47:55,825 DEBUG quick_mpl in Q_mpl 2015-08-02 15:47:55,825 INFO quick_adcp ===================================================== 2015-08-02 15:47:55,826 INFO quick_adcp ===================================================== 2015-08-02 15:47:55,826 INFO quick_adcp command line was: /home/currents/programs/uhdas/scripts/run_quick.py -d wh300 2015-08-02 15:47:55,826 INFO quick_adcp cwd is /home/data/oc1507b_01/proc/wh300 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 15:47:55,827 DEBUG quick_asect extracting matlab files for wh300, bb pings 2015-08-02 15:47:55,858 DEBUG quick_setup data directory: /home/data/oc1507b_01/raw/wh300 2015-08-02 15:47:55,860 INFO quick_setup found 61 files using wildcard expansion relative to scan directory wildcard string was: "/home/data/oc1507b_01/raw/wh300/*.raw" 2015-08-02 15:47:55,861 DEBUG quick_setup found 61 files from original filelist 2015-08-02 15:47:55,861 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/oc1507b_01/raw/wh300/oc2015_208_53872.raw ... 2015-08-02 15:47:55,863 DEBUG quick_adcp Sun Aug 2 15:47:55 2015 running quick_adcp.py as follows: --cntfile /home/data/oc1507b_01/proc/wh300/wh300_qpy.cnt ----- adcpsect variables ------ cbasename contour dbname a_oc dbpath ../adcpdb deeper_boundaries [40, 60, 80, 100, 120] firstdepth 9 gridnum 80 increment 2 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 20 bindir /home/currents/programs/codas3/bin/lnx binos lnx bl_half_width 3 btrk_step 1 cfgpath /home/data/oc1507b_01/proc/wh300/config cntfile /home/data/oc1507b_01/proc/wh300/wh300_qpy.cnt commands None configtype python cruisename oc1507b_01 data_def vmadcp.def datadir /home/data/oc1507b_01/raw/wh300 datafile_glob *.raw datatype uhdas dbname a_oc dday_bailout None debug False ens_len 120 expert None filelist ['/home/data/oc1507b_01/raw/wh300/oc2015_208_53872.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_208_57600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_208_64800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_208_72000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_208_79200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_00000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_07200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_14400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_21600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_28800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_36000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_43200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_50400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_57600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_64800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_72000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_209_79200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_00000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_07200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_14400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_21600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_28800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_36000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_43200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_50400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_57600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_64800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_72000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_210_79200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_00000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_07200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_14400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_21600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_28800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_36000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_43200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_50400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_57600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_64800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_72000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_211_79200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_00000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_07200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_14400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_21600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_28800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_36000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_43200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_50400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_57600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_64800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_72000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_212_79200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_00000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_07200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_14400.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_21600.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_28800.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_36000.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_43200.raw', '/home/data/oc1507b_01/raw/wh300/oc2015_213_50400.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 9 fixfile a_oc.gps fixfilexy a_oc.agt frequency 300 hcorr_inst ashtech help False hidedisplay True incremental True instname wh300 jitter 15 max_BLKprofiles 300 max_search_depth 500 maxrunsecs None min_filter_fraction 0.5 model wh nosave_editcfg 0 num_persistence 24 numbins 128 overview False pgmin 50 ping_headcorr True pingtype bb 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 wh300 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 = wh300 gbin = /home/data/oc1507b_01/gbin gbinsonar = /home/data/oc1507b_01/gbin/wh300 raw = /home/data/oc1507b_01/raw rawsonar = /home/data/oc1507b_01/raw/wh300 rbin = /home/data/oc1507b_01/rbin proc = /home/data/oc1507b_01/proc procsonar = /home/data/oc1507b_01/proc/wh300 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 : 53.4 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 15:47:55,863 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:55,863 INFO quick_adcp step 1: set up files in "edit" directory 2015-08-02 15:47:55,864 INFO quick_run file exists (edit/clearflags.tmp). not writing 2015-08-02 15:47:55,864 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:55,864 INFO quick_adcp step 2: scan files for time range 2015-08-02 15:47:55,864 DEBUG quick_npy Starting: scanping 2015-08-02 15:47:56,012 DEBUG quick_npy Ending: scanping 2015-08-02 15:47:56,015 DEBUG quick_subs start_end_time 2015/07/28 14:57:52 to 2015/07/28 15:02:07 2015-08-02 15:47:56,015 DEBUG quick_subs dd0: 208.623519 dd1: 208.626470 2015-08-02 15:47:56,015 INFO quick_adcp looking for database with adcpdb/a_oc*.blk 2015-08-02 15:47:56,016 INFO quick_adcp database found: listing blocks 2015-08-02 15:47:56,017 DEBUG quick_subs removing a_ocdir.blk 2015-08-02 15:47:56,017 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:47:56,017 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:47:56,018 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:47:56,038 DEBUG quick_subs database passes. 2015-08-02 15:47:56,041 DEBUG quick_subs start_end_time 2015/07/28 14:59:52 to 2015/08/02 15:41:52 2015-08-02 15:47:56,041 DEBUG quick_subs dd0: 208.624907 dd1: 213.654074 2015-08-02 15:47:56,041 DEBUG quick_adcp in quick_adcp.py before load, just looked for database times 2015-08-02 15:47:56,041 DEBUG quick_adcp origdb_time_range is 2015/07/28 14:59:52 to 2015/08/02 15:41:52 2015-08-02 15:47:56,042 DEBUG quick_adcp (208.624907 to 213.654074) 2015-08-02 15:47:56,042 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:56,042 INFO quick_adcp step 3: generate averaged data... 2015-08-02 15:47:56,042 INFO quick_run file load/ping_editparams.txt exists. not replacing 2015-08-02 15:47:56,043 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:56,043 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/load 2015-08-02 15:47:56,043 DEBUG quick_setup running python command "run_pingavg_npy" 2015-08-02 15:47:56,043 DEBUG quick_npy Starting: pingavg 2015-08-02 15:47:56,047 DEBUG quick_npy singleping editing parameters: 2015-08-02 15:47:56,047 DEBUG quick_npy bigtarget_mab_window : 11 2015-08-02 15:47:56,047 DEBUG quick_npy rl_endbin : 20 2015-08-02 15:47:56,048 DEBUG quick_npy max_search_depth : 500 2015-08-02 15:47:56,048 DEBUG quick_npy cor_cutoff : 70 2015-08-02 15:47:56,048 DEBUG quick_npy ampfilt : 40 2015-08-02 15:47:56,048 DEBUG quick_npy bigtarget_lgb_margin : 0.500000 2015-08-02 15:47:56,048 DEBUG quick_npy rl_startbin : 2 2015-08-02 15:47:56,048 DEBUG quick_npy ecutoff : 0.500000 2015-08-02 15:47:56,049 DEBUG quick_npy refavg_valcutoff : 1 2015-08-02 15:47:56,049 DEBUG quick_npy weakprof_percent : 50 2015-08-02 15:47:56,049 DEBUG quick_npy bigtarget_ampthresh : 55 2015-08-02 15:47:56,049 DEBUG quick_npy xducerxy is [1, -30] 2015-08-02 15:47:56,063 INFO pingavg ---------------- 2015-08-02 15:47:56,063 INFO pingavg Pingavg.run for time range 213.583335 to 213.656983 2015-08-02 15:47:56,064 INFO pingavg transducer offset: xducer_dx = 1.000, xducer_dy = -30.000 2015-08-02 15:47:56,064 INFO pingavg shifted positions applied to *.gpst2 and *.uvship' 2015-08-02 15:47:56,064 INFO pingavg ---------------- 2015-08-02 15:47:56,133 DEBUG pingavg Chunk 1 of 1, 213.583335 to 213.656983 2015-08-02 15:47:56,133 DEBUG pingavg Nothing written 2015-08-02 15:47:56,133 DEBUG quick_npy wrote 0 averages 2015-08-02 15:47:56,134 DEBUG quick_npy Ending: pingavg 2015-08-02 15:47:56,134 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:56,134 INFO quick_adcp step 4: load averaged data (to database) 2015-08-02 15:47:56,136 DEBUG quick_subs in del_overlapping 2015-08-02 15:47:56,136 DEBUG quick_subs lastblock: 2015-08-02 15:47:56,136 DEBUG quick_subs 13 2015-08-02 15:47:56,136 DEBUG quick_subs lastcmd: 2015-08-02 15:47:56,136 DEBUG quick_subs 13 2015-08-02 15:47:56,136 DEBUG quick_subs delblks: 2015-08-02 15:47:56,136 DEBUG quick_subs [13] 2015-08-02 15:47:56,136 DEBUG quick_subs loadblks: 2015-08-02 15:47:56,137 DEBUG quick_subs [13] 2015-08-02 15:47:56,137 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:47:56,137 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:47:56,138 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:47:56,153 DEBUG quick_subs database passes. 2015-08-02 15:47:56,153 DEBUG quick_subs start_end_time 2015/07/28 14:59:52 to 2015/08/02 14:57:52 2015-08-02 15:47:56,154 DEBUG quick_subs dd0: 208.624907 dd1: 213.623519 2015-08-02 15:47:56,154 DEBUG quick_run [13] 2015-08-02 15:47:56,154 DEBUG quick_run cmdlist 2015-08-02 15:47:56,154 DEBUG quick_run ['./ens_blk013.cmd'] 2015-08-02 15:47:56,156 INFO quick_run loaded time range: 2015/08/02 14:59:52 to 2015/08/02 15:45:52 2015-08-02 15:47:56,156 DEBUG quick_setup load/ldcodas.tmp exists 2015-08-02 15:47:56,156 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:56,156 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/load 2015-08-02 15:47:56,156 DEBUG quick_setup running python command "ldcodas" 2015-08-02 15:47:56,156 DEBUG quick_subs filling "thisload" timerange 2015-08-02 15:47:56,157 DEBUG quick_subs in ldcodas 2015-08-02 15:47:56,157 DEBUG quick_subs cmdlist: 2015-08-02 15:47:56,157 DEBUG quick_subs ['./ens_blk013.cmd'] 2015-08-02 15:47:56,158 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_blk013.cmd 2015-08-02 15:47:56,158 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/ldcodas ldcodas.tmp 2015-08-02 15:47:56,174 INFO quick_run 14 block files present 2015-08-02 15:47:56,175 DEBUG quick_subs removing a_ocdir.blk 2015-08-02 15:47:56,175 DEBUG quick_subs about to run mkblkdir 2015-08-02 15:47:56,175 DEBUG quick_subs database still exists; rerunning mkdirblk 2015-08-02 15:47:56,175 DEBUG quick_subs running /home/currents/programs/codas3/bin/lnx/mkblkdir mkblkdir.tmp 2015-08-02 15:47:56,190 DEBUG quick_subs database passes. 2015-08-02 15:47:56,191 DEBUG quick_subs start_end_time 2015/07/28 14:59:52 to 2015/08/02 15:45:52 2015-08-02 15:47:56,191 DEBUG quick_subs dd0: 208.624907 dd1: 213.656852 2015-08-02 15:47:56,192 INFO quick_adcp database time range: 2015-08-02 15:47:56,192 INFO quick_adcp 2015/07/28 14:59:52 to 2015/08/02 15:45:52 2015-08-02 15:47:56,192 INFO quick_adcp (208.624907 to 213.656852) 2015-08-02 15:47:56,192 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:56,192 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/adcpdb 2015-08-02 15:47:56,193 DEBUG quick_setup running python command "lst_conf" 2015-08-02 15:47:56,193 DEBUG quick_subs dbname: a_oc output: a_oc.cnh time_ranges: all 2015-08-02 15:47:56,193 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_conf lst_conf.tmp 2015-08-02 15:47:56,226 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:56,226 INFO quick_adcp step 5: set up files for codas editing (gautoedit.py) 2015-08-02 15:47:56,226 DEBUG quick_run file edit/codas_editparams.txt exists. not replacing 2015-08-02 15:47:56,226 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:56,227 INFO quick_adcp step 6: run setflags? 2015-08-02 15:47:56,227 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:56,227 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/edit 2015-08-02 15:47:56,227 DEBUG quick_setup running python command "write_setflags" 2015-08-02 15:47:56,227 DEBUG quick_subs dbname: ../adcpdb/a_oc pg_min: 50 set_range_bit time_ranges: all 2015-08-02 15:47:56,227 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2015-08-02 15:47:56,308 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:56,309 INFO quick_adcp step 7: get navigation 2015-08-02 15:47:56,309 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:56,309 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:47:56,309 DEBUG quick_setup running python command "catnav" 2015-08-02 15:47:56,313 INFO quick_subs navigation file nav/a_oc.gps created from load/*.gps2 2015-08-02 15:47:56,317 INFO quick_subs navigation file nav/a_oc.agt created from load/*.gpst2 2015-08-02 15:47:56,323 DEBUG quick_mpl Starting plot: uvship 2015-08-02 15:47:57,510 DEBUG quick_mpl Ending plot: uvship 2015-08-02 15:47:57,510 INFO quick_run plotted uvship 2015-08-02 15:47:57,510 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:57,511 INFO quick_adcp step 8: list heading 2015-08-02 15:47:57,511 DEBUG quick_setup cal/rotate/lst_hdg.tmp exists 2015-08-02 15:47:57,511 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:47:57,512 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/cal/rotate 2015-08-02 15:47:57,512 DEBUG quick_setup running python command "lst_hdg" 2015-08-02 15:47:57,512 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: scn.hdg step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:47:57,513 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_hdg lst_hdg.tmp 2015-08-02 15:47:57,610 INFO quick_run ... headings extracted 2015-08-02 15:47:57,611 INFO quick_adcp --------------------------------------------- 2015-08-02 15:47:57,611 INFO quick_adcp step 9: plot heading correction 2015-08-02 15:47:57,611 DEBUG quick_run hcorr_inst is ashtech 2015-08-02 15:47:57,612 DEBUG quick_mpl Starting plot: hcorr 2015-08-02 15:47:57,861 DEBUG quick_mplplots found 5.031951 days of data 2015-08-02 15:47:57,862 DEBUG quick_mplplots figures with 4 panels per page, 1.000000 days per panel 2015-08-02 15:47:57,862 DEBUG quick_mplplots printing 2 pages 2015-08-02 15:48:00,433 DEBUG quick_mpl Ending plot: hcorr 2015-08-02 15:48:00,433 INFO quick_run plots are in cal/rotate/*png 2015-08-02 15:48:00,433 INFO quick_adcp ------------------------- 2015-08-02 15:48:00,434 INFO quick_adcp ---- running navsteps --- 2015-08-02 15:48:00,434 INFO quick_adcp ------------------------- 2015-08-02 15:48:00,434 INFO quick_adcp step 10: nav steps: run adcpsect 2015-08-02 15:48:00,434 INFO quick_adcp navstep 1 2015-08-02 15:48:00,434 DEBUG quick_setup nav/as_nav.tmp exists 2015-08-02 15:48:00,435 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:00,435 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:00,435 DEBUG quick_setup running python command "as_nav" 2015-08-02 15:48:00,435 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 14:59:52 to 2015/08/02 15:45:52 /* the whole time range */ 2015-08-02 15:48:00,435 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2015-08-02 15:48:00,558 INFO quick_run ... ran adcpsect for navsteps 2015-08-02 15:48:00,558 INFO quick_adcp ------------------------- 2015-08-02 15:48:00,558 INFO quick_adcp step 11: nav steps: run refabs 2015-08-02 15:48:00,559 INFO quick_adcp navstep 2 2015-08-02 15:48:00,559 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:00,559 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:00,559 DEBUG quick_setup running python command "refabs" 2015-08-02 15:48:00,559 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= 120 gap_tolerance= 10 2015-08-02 15:48:00,560 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabs refabs.tmp 2015-08-02 15:48:00,648 INFO quick_run ... ran refabs for navsteps 2015-08-02 15:48:00,648 INFO quick_adcp ------------------------- 2015-08-02 15:48:00,649 INFO quick_adcp step 12: nav steps: run smoothr for plots 2015-08-02 15:48:00,649 INFO quick_adcp navstep 3 2015-08-02 15:48:00,649 DEBUG quick_setup nav/smoothr.tmp exists 2015-08-02 15:48:00,649 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:00,649 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:00,650 DEBUG quick_setup running python command "smoothr" 2015-08-02 15:48:00,650 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= 120 max_speed= 5.0 min_speed= 1.0 iterations= 5 fix_to_dr_limit= 0.00050 2015-08-02 15:48:00,650 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/smoothr smoothr.tmp 2015-08-02 15:48:01,064 INFO quick_run ... ran smoothr 2015-08-02 15:48:01,065 INFO quick_adcp ------------------------- 2015-08-02 15:48:01,065 INFO quick_adcp step 13: nav steps: smooth navigation for velocities 2015-08-02 15:48:01,065 INFO quick_adcp navstep 4 2015-08-02 15:48:01,065 INFO quick_run smoothing method for ship speed: refsm 2015-08-02 15:48:01,065 INFO quick_run smoothing window: 3 2015-08-02 15:48:01,065 INFO quick_run ship speed source: nav 2015-08-02 15:48:01,066 DEBUG quick_npy Starting: refsm 2015-08-02 15:48:01,687 DEBUG quick_npy Ending: refsm 2015-08-02 15:48:01,687 INFO quick_run ... shipspeed smoothing step done 2015-08-02 15:48:01,687 INFO quick_adcp ------------------------- 2015-08-02 15:48:01,687 INFO quick_adcp step 14: nav steps: put positions and uvship from refsm into codasdb 2015-08-02 15:48:01,687 INFO quick_adcp navstep 5 2015-08-02 15:48:01,688 DEBUG quick_setup nav/put_txy.tmp exists 2015-08-02 15:48:01,688 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:01,688 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:01,688 DEBUG quick_setup running python command "put_txy" 2015-08-02 15:48:01,688 DEBUG quick_subs dbname: ../adcpdb/a_oc position_file: a_oc.agt year_base= 2015 tolerance= 5 2015-08-02 15:48:01,688 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/put_txy put_txy.tmp 2015-08-02 15:48:01,772 INFO quick_run ... ran put_txy 2015-08-02 15:48:01,773 DEBUG quick_setup nav/put_tuv.tmp exists 2015-08-02 15:48:01,773 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:01,773 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:01,773 DEBUG quick_setup running python command "put_tuv" 2015-08-02 15:48:01,773 DEBUG quick_subs dbname: ../adcpdb/a_oc shipspeed_file: refsm_tuv.asc year_base= 2015 tolerance= 5 2015-08-02 15:48:01,774 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/put_tuv put_tuv.tmp 2015-08-02 15:48:01,850 INFO quick_run ... ran put_tuv 2015-08-02 15:48:01,851 DEBUG quick_mpl Starting plot: nav 2015-08-02 15:48:02,821 DEBUG quick_mpl Ending plot: nav 2015-08-02 15:48:02,822 INFO quick_run ... made navigation plot 2015-08-02 15:48:02,823 INFO quick_adcp ------------------------- 2015-08-02 15:48:02,823 INFO quick_adcp step 15: nav steps: make reflayer plots 2015-08-02 15:48:02,823 INFO quick_adcp navstep 6 2015-08-02 15:48:02,824 DEBUG quick_mpl Starting plot: refl 2015-08-02 15:48:03,227 DEBUG quick_mplplots found 5.023618 days of data 2015-08-02 15:48:03,228 DEBUG quick_mplplots start day is 208.000000 2015-08-02 15:48:03,239 DEBUG quick_mplplots figures with 2.000000 days per page 2015-08-02 15:48:03,240 DEBUG quick_mplplots printing 3 pages 2015-08-02 15:48:03,240 DEBUG quick_mplplots yrange will be [1.000000, 1.000000] 2015-08-02 15:48:04,928 DEBUG quick_mpl Ending plot: refl 2015-08-02 15:48:04,929 INFO quick_run ... made reflayer plots 2015-08-02 15:48:04,929 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:04,929 INFO quick_adcp step 10: find profile flags 2015-08-02 15:48:04,929 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:04,930 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/edit 2015-08-02 15:48:04,930 DEBUG quick_setup running python command "run_autoedit_npy" 2015-08-02 15:48:04,930 DEBUG quick_npy Starting: autoedit 2015-08-02 15:48:05,425 DEBUG pingedit wrote 50 bad bins to abadbin_tmp.asc 2015-08-02 15:48:05,473 DEBUG pingedit wrote 1 bad profiles to abadprf_tmp.asc 2015-08-02 15:48:05,473 DEBUG quick_npy Ending: autoedit 2015-08-02 15:48:05,473 INFO quick_run ... extracted files using automatic editing 2015-08-02 15:48:05,473 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:05,474 INFO quick_adcp step 11: apply editing 2015-08-02 15:48:05,474 DEBUG quick_run starting in: /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,474 DEBUG quick_run executing commands from: edit 2015-08-02 15:48:05,476 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/dbupdate ../adcpdb/a_oc abadprf_tmp.asc 2015-08-02 15:48:05,487 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/badbin ../adcpdb/a_oc abadbin_tmp.asc 2015-08-02 15:48:05,504 DEBUG quick_subs dbname: ../adcpdb/a_oc pg_min: 50 set_range_bit time_ranges: all 2015-08-02 15:48:05,505 DEBUG quick_run about to run /home/currents/programs/codas3/bin/lnx/setflags setflags.tmp 2015-08-02 15:48:05,596 DEBUG quick_run changing directories back to /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,597 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:05,597 INFO quick_adcp step 12: run calibration steps 2015-08-02 15:48:05,598 DEBUG quick_setup cal/botmtrk/lst_btrk.tmp exists 2015-08-02 15:48:05,598 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,598 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/cal/botmtrk 2015-08-02 15:48:05,598 DEBUG quick_setup running python command "lst_btrk" 2015-08-02 15:48:05,598 DEBUG quick_subs dbname: ../../adcpdb/a_oc output: a_oc.btm step_size= 1 year_base= 2015 time_ranges: 2015/07/28 14:59:52 to 2015/08/02 15:45:52 /* whole time range */ 2015-08-02 15:48:05,599 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_btrk lst_btrk.tmp 2015-08-02 15:48:05,628 DEBUG quick_setup cal/botmtrk/refabsbt.tmp exists 2015-08-02 15:48:05,628 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,628 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/cal/botmtrk 2015-08-02 15:48:05,629 DEBUG quick_setup running python command "refabsbt" 2015-08-02 15:48:05,629 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= 120 gap_tolerance= 60 2015-08-02 15:48:05,629 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/refabsbt refabsbt.tmp 2015-08-02 15:48:05,641 INFO quick_run ...bottom track info in check cal/botmtrk 2015-08-02 15:48:05,641 DEBUG quick_mpl Starting plot: btcal 2015-08-02 15:48:05,643 DEBUG quick_mplplots No data in a_oc.btm 2015-08-02 15:48:05,643 DEBUG quick_mplplots Returning from Btplot with no output 2015-08-02 15:48:05,643 DEBUG quick_mpl Ending plot: btcal 2015-08-02 15:48:05,643 DEBUG quick_setup nav/as_nav.tmp exists 2015-08-02 15:48:05,643 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,644 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/nav 2015-08-02 15:48:05,644 DEBUG quick_setup running python command "as_nav" 2015-08-02 15:48:05,644 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 14:59:52 to 2015/08/02 15:45:52 /* the whole time range */ 2015-08-02 15:48:05,644 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_nav.tmp 2015-08-02 15:48:05,759 DEBUG quick_setup cal/watertrk/timslip.tmp exists 2015-08-02 15:48:05,760 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:05,760 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/cal/watertrk 2015-08-02 15:48:05,760 DEBUG quick_setup running python command "timslip" 2015-08-02 15:48:05,760 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 15:48:05,761 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timslip timslip.tmp 2015-08-02 15:48:05,800 INFO quick_run ... watertrack info in cal/watertrk 2015-08-02 15:48:05,800 DEBUG quick_mpl Starting plot: wtcal 2015-08-02 15:48:05,806 DEBUG quick_mplplots Found 83 calibration points 2015-08-02 15:48:07,801 DEBUG quick_mpl Ending plot: wtcal 2015-08-02 15:48:07,802 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:07,802 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/cal/watertrk 2015-08-02 15:48:07,803 DEBUG quick_setup running python command "run_guess_xducerxy_npy" 2015-08-02 15:48:07,803 DEBUG quick_npy Starting: guess_xducerxy 2015-08-02 15:48:08,279 DEBUG quick_npy Ending: guess_xducerxy 2015-08-02 15:48:08,555 INFO quick_run ... check cal/watertrk for estimate 2015-08-02 15:48:08,555 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:08,662 INFO quick_adcp step 13: extract and plot temperature 2015-08-02 15:48:08,663 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:08,663 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/edit 2015-08-02 15:48:08,663 DEBUG quick_setup running python command "lst_temp" 2015-08-02 15:48:08,664 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc.tem step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:48:08,664 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_temp lst_temp.tmp 2015-08-02 15:48:08,733 DEBUG quick_mpl Starting plot: temp 2015-08-02 15:48:08,837 DEBUG quick_mplplots plotting 3624 points 2015-08-02 15:48:09,395 DEBUG quick_mpl Ending plot: temp 2015-08-02 15:48:09,396 INFO quick_run plotted temperature 2015-08-02 15:48:09,396 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:09,396 INFO quick_adcp step 14: extract and plot number of pings per ensemble 2015-08-02 15:48:09,397 DEBUG quick_setup edit/lst_npings.tmp exists 2015-08-02 15:48:09,397 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:09,397 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/edit 2015-08-02 15:48:09,397 DEBUG quick_setup running python command "lst_npings" 2015-08-02 15:48:09,397 DEBUG quick_subs dbname: ../adcpdb/a_oc output: a_oc_npings.txt step_size= 1 year_base= 2015 time_ranges: all 2015-08-02 15:48:09,398 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/lst_npings lst_npings.tmp 2015-08-02 15:48:09,463 DEBUG quick_mpl Starting plot: npings 2015-08-02 15:48:09,561 DEBUG quick_mplplots plotting 3624 points 2015-08-02 15:48:09,941 DEBUG quick_mpl Ending plot: npings 2015-08-02 15:48:09,941 INFO quick_run ... plotted number of pings per ensemble 2015-08-02 15:48:09,942 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:09,942 INFO quick_adcp step 15: extract matlab "allbins" 2015-08-02 15:48:09,942 DEBUG quick_asect step 18: make matlab files for plotting 2015-08-02 15:48:09,942 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:09,942 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/vector 2015-08-02 15:48:09,943 DEBUG quick_setup running python command "timegrid" 2015-08-02 15:48:09,943 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2015-08-02 15:48:09,954 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:09,954 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/vector 2015-08-02 15:48:09,954 DEBUG quick_setup running python command "as_vect" 2015-08-02 15:48:09,955 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_vect.tmp 2015-08-02 15:48:10,065 DEBUG quick_asect done making vector matfiles 2015-08-02 15:48:10,066 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:10,066 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/contour 2015-08-02 15:48:10,066 DEBUG quick_setup running python command "timegrid" 2015-08-02 15:48:10,066 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/timegrid a_oc.tmp 2015-08-02 15:48:10,082 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:10,083 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/contour 2015-08-02 15:48:10,083 DEBUG quick_setup running python command "as_cont" 2015-08-02 15:48:10,084 DEBUG quick_setup about to run /home/currents/programs/codas3/bin/lnx/adcpsect as_cont.tmp 2015-08-02 15:48:10,359 DEBUG quick_setup starting in /home/data/oc1507b_01/proc/wh300 2015-08-02 15:48:10,359 DEBUG quick_setup executing commands from /home/data/oc1507b_01/proc/wh300/contour 2015-08-02 15:48:10,359 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_oc 2015-08-02 15:48:10,902 DEBUG quick_asect done running getmat with "allbins" 2015-08-02 15:48:10,902 INFO quick_adcp --------------------------------------------- 2015-08-02 15:48:10,903 INFO quick_adcp writing "cruise_info.txt" 2015-08-02 15:48:10,906 INFO root copying NOFIG to /home/adcp/www/figures/wh300_hcorr_plot.png 2015-08-02 15:48:10,907 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/wh300_hcorr_plot_thumb.png 2015-08-02 15:48:10,907 DEBUG root matfile is contour/contour_uv.mat 2015-08-02 15:48:10,911 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/wh300_cont_uv.mat 2015-08-02 15:48:10,911 DEBUG root matfile is vector/vector_uv.mat 2015-08-02 15:48:10,912 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/wh300_vect_uv.mat 2015-08-02 15:48:10,912 DEBUG root matfile is contour/contour_xy.mat 2015-08-02 15:48:10,912 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/wh300_cont_xy.mat 2015-08-02 15:48:10,912 DEBUG root matfile is vector/vector_xy.mat 2015-08-02 15:48:10,913 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/wh300_vect_xy.mat 2015-08-02 15:48:10,913 DEBUG root about to copy file edit/a_oc.tem to /home/adcp/www/data/wh300_temp.asc 2015-08-02 15:48:10,914 INFO root copying edit/a_oc.tem to /home/adcp/www/data/wh300_temp.asc 2015-08-02 15:48:10,916 INFO netcdf Using pupynere. 2015-08-02 15:48:11,325 DEBUG root about to copy netcdf file /home/data/oc1507b_01/proc/wh300/contour/wh300.nc to /home/adcp/www/data/wh300.nc 2015-08-02 15:48:11,352 INFO root copying edit/a_oc.tem to /home/adcp/www/data/wh300.nc 2015-08-02 15:48:11,411 INFO root generating pingstats for wh300 2015-08-02 15:48:11,411 INFO root Ending quick_adcp.py