2017-06-12 10:14:10,968 DEBUG root about to write control file parameters to --yearbase 2017 --cruisename ar18b --configtype python --sonar wh300 --dbname a_ar --datatype uhdas --cfgpath /home/data/ar18b/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 7 --xducer_dy 12 ## see config/ar18b_proc.py for other settings --skip_avg ## see above --max_search_depth 500 --ping_headcorr --proc_engine python --refuv_smoothwin 3 --incremental --find_pflags --top_plotbin 1 --auto 2017-06-12 10:14:10,968 DEBUG quick_adcp sys.argv = /usr/local/currents/bin/run_quick.py -d wh300 2017-06-12 10:14:10,969 DEBUG quick_setup found cruise_info.hcorr (posmv, pmv, 0) 2017-06-12 10:14:10,969 DEBUG quick_setup no heading correction will be used within the ensembles but values are staged in cal/rotate/hcorr.asc 2017-06-12 10:14:10,970 INFO quick_setup fix file is a_ar.gps 2017-06-12 10:14:10,970 INFO quick_setup reflayer: ref_method = refsm 2017-06-12 10:14:10,970 INFO quick_setup reflayer: refuv_source = nav 2017-06-12 10:14:10,970 INFO quick_setup reflayer: refuv_smoothwin = 3 2017-06-12 10:14:10,970 INFO quick_adcp importing numpy version 1.8.2 2017-06-12 10:14:10,976 INFO quick_adcp importing matplotlib version 1.3.1 2017-06-12 10:14:11,056 DEBUG quick_mpl in Q_mpl 2017-06-12 10:14:11,056 INFO quick_adcp ===================================================== 2017-06-12 10:14:11,056 INFO quick_adcp ===================================================== 2017-06-12 10:14:11,056 INFO quick_adcp command line was: /usr/local/currents/bin/run_quick.py -d wh300 2017-06-12 10:14:11,056 INFO quick_adcp cwd is /home/data/ar18b/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 2017-06-12 10:14:11,056 DEBUG quick_asect extracting matlab files for wh300 2017-06-12 10:14:11,060 DEBUG quick_setup data directory: /home/data/ar18b/raw/wh300 2017-06-12 10:14:11,061 INFO quick_setup found 77 files using wildcard expansion relative to scan directory wildcard string was: "/home/data/ar18b/raw/wh300/*.raw" 2017-06-12 10:14:11,061 DEBUG quick_setup found 77 files from original filelist 2017-06-12 10:14:11,061 DEBUG quick_adcp starting with data files (as seen from scan/ or load/ directory): /home/data/ar18b/raw/wh300/ar2017_155_68728.raw ... 2017-06-12 10:14:11,061 DEBUG quick_adcp Mon Jun 12 10:14:11 2017 running quick_adcp.py as follows: --cntfile /home/data/ar18b/proc/wh300/wh300_qpy.cnt ----- adcpsect variables ------ cbasename contour dbname a_ar dbpath ../adcpdb deeper_boundaries [40, 60, 80, 100, 120] firstdepth 10 gridnum 80 increment 2 loaded_time_range all numbins 128 outdir . pgmin 50 prefix allbins_ proc_yearbase 2017 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 bl_half_width 3 btrk_step 1.5 cfgpath /home/data/ar18b/proc/wh300/config cntfile /home/data/ar18b/proc/wh300/wh300_qpy.cnt commands None configtype python cruisename ar18b data_def vmadcp.def datadir /home/data/ar18b/raw/wh300 datafile_glob *.raw datatype uhdas dbname a_ar dday_bailout None debug False ens_len 120 expert None filelist ['/home/data/ar18b/raw/wh300/ar2017_155_68728.raw', '/home/data/ar18b/raw/wh300/ar2017_155_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_155_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_156_00000.raw', '/home/data/ar18b/raw/wh300/ar2017_156_07200.raw', '/home/data/ar18b/raw/wh300/ar2017_156_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_156_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_156_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_156_36000.raw', '/home/data/ar18b/raw/wh300/ar2017_156_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_156_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_156_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_156_63385.raw', '/home/data/ar18b/raw/wh300/ar2017_156_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_156_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_156_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_157_00000.raw', '/home/data/ar18b/raw/wh300/ar2017_157_36758.raw', '/home/data/ar18b/raw/wh300/ar2017_157_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_157_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_157_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_157_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_157_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_157_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_158_00000.raw', '/home/data/ar18b/raw/wh300/ar2017_158_07200.raw', '/home/data/ar18b/raw/wh300/ar2017_158_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_158_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_158_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_158_36000.raw', '/home/data/ar18b/raw/wh300/ar2017_158_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_158_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_158_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_158_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_158_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_158_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_159_03904.raw', '/home/data/ar18b/raw/wh300/ar2017_159_07200.raw', '/home/data/ar18b/raw/wh300/ar2017_159_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_159_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_159_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_159_36000.raw', '/home/data/ar18b/raw/wh300/ar2017_159_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_159_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_159_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_159_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_159_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_159_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_160_14348.raw', '/home/data/ar18b/raw/wh300/ar2017_160_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_160_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_160_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_160_36000.raw', '/home/data/ar18b/raw/wh300/ar2017_160_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_160_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_160_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_160_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_160_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_160_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_161_00000.raw', '/home/data/ar18b/raw/wh300/ar2017_161_07200.raw', '/home/data/ar18b/raw/wh300/ar2017_161_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_161_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_161_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_161_36000.raw', '/home/data/ar18b/raw/wh300/ar2017_161_43200.raw', '/home/data/ar18b/raw/wh300/ar2017_161_50400.raw', '/home/data/ar18b/raw/wh300/ar2017_161_57600.raw', '/home/data/ar18b/raw/wh300/ar2017_161_64800.raw', '/home/data/ar18b/raw/wh300/ar2017_161_72000.raw', '/home/data/ar18b/raw/wh300/ar2017_161_79200.raw', '/home/data/ar18b/raw/wh300/ar2017_162_00000.raw', '/home/data/ar18b/raw/wh300/ar2017_162_07200.raw', '/home/data/ar18b/raw/wh300/ar2017_162_14400.raw', '/home/data/ar18b/raw/wh300/ar2017_162_21600.raw', '/home/data/ar18b/raw/wh300/ar2017_162_28800.raw', '/home/data/ar18b/raw/wh300/ar2017_162_36000.raw'] filter_hwidth 0.0208 find_pflags True firstdepth 10 fixfile a_ar.gps fixfilexy a_ar.agt frequency 300 hcorr_inst posmv help False incremental True instname wh300 jitter 15 max_BLKprofiles 300 max_search_depth 500 maxrunsecs None min_filter_fraction 0.5 mixed_pings False model wh nosave_editcfg 0 numbins 128 pgmin 50 ping_headcorr True pingpref None pingtype bb printformats png proc_engine python proc_yearbase 2017 py_gbindirbase /home/data/ar18b/gbin ref_method refsm refuv_inputfile a_ar.agt refuv_smoothwin 3 refuv_source nav rl_endbin 20 rl_startbin 2 rotate_amplitude 1 rotate_angle 0 save_lastens 0 skip_avg True sonar wh300 steps2rerun sum_xducer_dx 7 sum_xducer_dy 12 time_angle_base ens_hcorr time_angle_file ens_hcorr.ang timeout_secs 86400 top_plotbin 1 tuv_file refsm_tuv.asc txy_file a_ar.agt ub_type 1920 uhdas_config yearbase = 2017 uhdas_dir = /home/data/ar18b sonar = wh300 gbin = /home/data/ar18b/gbin gbinsonar = /home/data/ar18b/gbin/wh300 raw = /home/data/ar18b/raw rawsonar = /home/data/ar18b/raw/wh300 rbin = /home/data/ar18b/rbin proc = /home/data/ar18b/proc procsonar = /home/data/ar18b/proc/wh300 other attributes: gbin_params = hdg_inst : gyro hdg_inst_msgs : [('gyro', 'hdg'), ('posmv', 'pmv'), ('gyro2', 'hdg')] hdg_msg : hdg pitch_inst : posmv pitch_msg : pmv pos_inst : cnav pos_msg : gps roll_inst : posmv roll_msg : pmv hcorr = ['posmv', 'pmv', 0.0] acc_heading_cutoff = 0.02 update_gbin False vardoc False varvals False wtrk_step 7 xducer_dx 7 xducer_dy 12 yearbase 2017 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 2017-06-12 10:14:11,061 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,061 INFO quick_adcp step 1: set up files in "edit" directory 2017-06-12 10:14:11,061 INFO quick_run file exists (edit/clearflags.tmp). not writing 2017-06-12 10:14:11,061 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,061 INFO quick_adcp step 2: scan files for time range 2017-06-12 10:14:11,061 DEBUG quick_npy Starting: scanping 2017-06-12 10:14:11,100 DEBUG quick_npy Ending: scanping 2017-06-12 10:14:11,100 DEBUG quick_subs start_end_time 2017/06/05 19:05:29 to 2017/06/05 19:19:39 2017-06-12 10:14:11,100 DEBUG quick_subs dd0: 155.795475 dd1: 155.805313 2017-06-12 10:14:11,100 INFO quick_adcp looking for database with adcpdb/a_ar*.blk 2017-06-12 10:14:11,100 INFO quick_adcp database found: listing blocks 2017-06-12 10:14:11,101 DEBUG quick_subs removing a_ardir.blk 2017-06-12 10:14:11,101 DEBUG quick_subs about to run mkblkdir 2017-06-12 10:14:11,101 DEBUG quick_subs database still exists; rerunning mkdirblk 2017-06-12 10:14:11,101 DEBUG quick_subs running mkblkdir mkblkdir.tmp 2017-06-12 10:14:11,105 DEBUG quick_subs database passes. 2017-06-12 10:14:11,106 DEBUG quick_subs start_end_time 2017/06/05 19:07:29 to 2017/06/12 09:57:09 2017-06-12 10:14:11,106 DEBUG quick_subs dd0: 155.796863 dd1: 162.414688 2017-06-12 10:14:11,106 DEBUG quick_adcp in quick_adcp.py before load, just looked for database times 2017-06-12 10:14:11,106 DEBUG quick_adcp origdb_time_range is 2017/06/05 19:07:29 to 2017/06/12 09:57:09 2017-06-12 10:14:11,106 DEBUG quick_adcp (155.796863 to 162.414688) 2017-06-12 10:14:11,106 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,106 INFO quick_adcp step 3: generate averaged data... 2017-06-12 10:14:11,106 INFO quick_run file load/ping_editparams.txt exists. not replacing 2017-06-12 10:14:11,106 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,106 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/load 2017-06-12 10:14:11,106 DEBUG quick_setup running python command "run_pingavg_npy" 2017-06-12 10:14:11,106 DEBUG quick_npy Starting: pingavg 2017-06-12 10:14:11,107 DEBUG quick_npy xducerxy is [7, 12] 2017-06-12 10:14:11,107 DEBUG quick_npy singleping editing parameters: 2017-06-12 10:14:11,107 DEBUG quick_npy bigtarget_mab_window : 11 2017-06-12 10:14:11,107 DEBUG quick_npy rl_endbin : 20 2017-06-12 10:14:11,107 DEBUG quick_npy max_search_depth : 500 2017-06-12 10:14:11,107 DEBUG quick_npy cor_cutoff : 70 2017-06-12 10:14:11,107 DEBUG quick_npy ampfilt : 40 2017-06-12 10:14:11,107 DEBUG quick_npy bigtarget_lgb_margin : 0.500000 2017-06-12 10:14:11,107 DEBUG quick_npy rl_startbin : 2 2017-06-12 10:14:11,107 DEBUG quick_npy ecutoff : 0.500000 2017-06-12 10:14:11,107 DEBUG quick_npy refavg_valcutoff : 1 2017-06-12 10:14:11,107 DEBUG quick_npy weakprof_percent : 50 2017-06-12 10:14:11,107 DEBUG quick_npy bigtarget_ampthresh : 55 2017-06-12 10:14:11,110 INFO pingavg ---------------- 2017-06-12 10:14:11,110 INFO pingavg sonar is wh300 2017-06-12 10:14:11,110 INFO pingavg Pingavg.run for time range 162.416667 to 162.425903 2017-06-12 10:14:11,110 INFO pingavg transducer offset: xducer_dx = 7.000, xducer_dy = 12.000 2017-06-12 10:14:11,110 INFO pingavg shifted positions applied to *.gpst2 and *.uvship' 2017-06-12 10:14:11,110 INFO pingavg ---------------- 2017-06-12 10:14:11,120 DEBUG pingavg Chunk 1 of 1, 162.416667 to 162.425903 2017-06-12 10:14:11,120 DEBUG pingavg Nothing written 2017-06-12 10:14:11,120 DEBUG quick_npy wrote 0 averages 2017-06-12 10:14:11,120 DEBUG quick_npy Ending: pingavg 2017-06-12 10:14:11,120 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,120 INFO quick_adcp step 4: load averaged data (to database) 2017-06-12 10:14:11,120 DEBUG quick_subs in del_overlapping 2017-06-12 10:14:11,120 DEBUG quick_subs lastblock: 2017-06-12 10:14:11,120 DEBUG quick_subs 16 2017-06-12 10:14:11,120 DEBUG quick_subs lastcmd: 2017-06-12 10:14:11,120 DEBUG quick_subs 16 2017-06-12 10:14:11,121 DEBUG quick_subs delblks: 2017-06-12 10:14:11,121 DEBUG quick_subs [16] 2017-06-12 10:14:11,121 DEBUG quick_subs loadblks: 2017-06-12 10:14:11,121 DEBUG quick_subs [16] 2017-06-12 10:14:11,121 DEBUG quick_subs about to run mkblkdir 2017-06-12 10:14:11,121 DEBUG quick_subs database still exists; rerunning mkdirblk 2017-06-12 10:14:11,121 DEBUG quick_subs running mkblkdir mkblkdir.tmp 2017-06-12 10:14:11,125 DEBUG quick_subs database passes. 2017-06-12 10:14:11,125 DEBUG quick_subs start_end_time 2017/06/05 19:07:29 to 2017/06/12 05:59:09 2017-06-12 10:14:11,125 DEBUG quick_subs dd0: 155.796863 dd1: 162.249410 2017-06-12 10:14:11,125 DEBUG quick_run [16] 2017-06-12 10:14:11,125 DEBUG quick_run cmdlist 2017-06-12 10:14:11,125 DEBUG quick_run ['./ens_blk016.cmd'] 2017-06-12 10:14:11,126 INFO quick_run loaded time range: 2017/06/12 06:01:09 to 2017/06/12 10:13:08 2017-06-12 10:14:11,126 DEBUG quick_setup load/ldcodas.tmp exists 2017-06-12 10:14:11,126 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,126 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/load 2017-06-12 10:14:11,126 DEBUG quick_setup running python command "ldcodas" 2017-06-12 10:14:11,126 DEBUG quick_subs filling "thisload" timerange 2017-06-12 10:14:11,127 DEBUG quick_subs in ldcodas 2017-06-12 10:14:11,127 DEBUG quick_subs cmdlist: 2017-06-12 10:14:11,127 DEBUG quick_subs ['./ens_blk016.cmd'] 2017-06-12 10:14:11,127 DEBUG quick_subs DATABASE_NAME: ../adcpdb/a_ar DEFINITION_FILE: vmadcp.def LOG_FILE: load.log YEAR_BASE: 2017 cmd_file_list /* use only if specifying cmd paths, not "@" */ END ./ens_blk016.cmd 2017-06-12 10:14:11,127 DEBUG quick_setup about to run ldcodas ldcodas.tmp 2017-06-12 10:14:11,136 INFO quick_run 17 block files present 2017-06-12 10:14:11,136 DEBUG quick_subs removing a_ardir.blk 2017-06-12 10:14:11,136 DEBUG quick_subs about to run mkblkdir 2017-06-12 10:14:11,136 DEBUG quick_subs database still exists; rerunning mkdirblk 2017-06-12 10:14:11,136 DEBUG quick_subs running mkblkdir mkblkdir.tmp 2017-06-12 10:14:11,140 DEBUG quick_subs database passes. 2017-06-12 10:14:11,140 DEBUG quick_subs start_end_time 2017/06/05 19:07:29 to 2017/06/12 10:13:08 2017-06-12 10:14:11,140 DEBUG quick_subs dd0: 155.796863 dd1: 162.425787 2017-06-12 10:14:11,140 INFO quick_adcp database time range: 2017-06-12 10:14:11,140 INFO quick_adcp 2017/06/05 19:07:29 to 2017/06/12 10:13:08 2017-06-12 10:14:11,141 INFO quick_adcp (155.796863 to 162.425787) 2017-06-12 10:14:11,141 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,141 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/adcpdb 2017-06-12 10:14:11,141 DEBUG quick_setup running python command "lst_conf" 2017-06-12 10:14:11,141 DEBUG quick_subs dbname: a_ar output: a_ar.cnh time_ranges: all 2017-06-12 10:14:11,141 DEBUG quick_setup about to run lst_conf lst_conf.tmp 2017-06-12 10:14:11,147 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,147 INFO quick_adcp step 5: set up files for codas editing (gautoedit.py) 2017-06-12 10:14:11,147 DEBUG quick_run file edit/codas_editparams.txt exists. not replacing 2017-06-12 10:14:11,147 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,147 INFO quick_adcp step 6: run setflags? 2017-06-12 10:14:11,147 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,147 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/edit 2017-06-12 10:14:11,147 DEBUG quick_setup running python command "write_setflags" 2017-06-12 10:14:11,147 DEBUG quick_subs dbname: ../adcpdb/a_ar pg_min: 50 set_range_bit time_ranges: all 2017-06-12 10:14:11,147 DEBUG quick_setup about to run setflags setflags.tmp 2017-06-12 10:14:11,160 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,160 INFO quick_adcp step 7: get navigation 2017-06-12 10:14:11,160 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,160 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:11,160 DEBUG quick_setup running python command "catnav" 2017-06-12 10:14:11,161 INFO quick_subs navigation file nav/a_ar.gps created from load/*.gps2 2017-06-12 10:14:11,162 INFO quick_subs navigation file nav/a_ar.agt created from load/*.gpst2 2017-06-12 10:14:11,163 DEBUG quick_mpl Starting plot: uvship 2017-06-12 10:14:11,395 DEBUG quick_mpl Ending plot: uvship 2017-06-12 10:14:11,395 INFO quick_run plotted uvship 2017-06-12 10:14:11,395 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,395 INFO quick_adcp step 8: list heading 2017-06-12 10:14:11,395 DEBUG quick_setup cal/rotate/lst_hdg.tmp exists 2017-06-12 10:14:11,395 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,395 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/cal/rotate 2017-06-12 10:14:11,395 DEBUG quick_setup running python command "lst_hdg" 2017-06-12 10:14:11,395 DEBUG quick_subs dbname: ../../adcpdb/a_ar output: scn.hdg step_size= 1 year_base= 2017 time_ranges: all 2017-06-12 10:14:11,395 DEBUG quick_setup about to run lst_hdg lst_hdg.tmp 2017-06-12 10:14:11,409 INFO quick_run ... headings extracted 2017-06-12 10:14:11,409 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:11,409 INFO quick_adcp step 9: plot heading correction 2017-06-12 10:14:11,409 DEBUG quick_run hcorr_inst is posmv 2017-06-12 10:14:11,410 DEBUG quick_mpl Starting plot: hcorr 2017-06-12 10:14:11,436 DEBUG quick_mpl found 6.628926 days of data 2017-06-12 10:14:11,436 DEBUG quick_mpl figures with 4 panels per page, 1.000000 days per panel 2017-06-12 10:14:11,436 DEBUG quick_mpl printing 2 pages 2017-06-12 10:14:11,803 DEBUG quick_mpl Ending plot: hcorr 2017-06-12 10:14:11,803 INFO quick_run plots are in cal/rotate/*png 2017-06-12 10:14:11,803 INFO quick_adcp ------------------------- 2017-06-12 10:14:11,803 INFO quick_adcp ---- running navsteps --- 2017-06-12 10:14:11,803 INFO quick_adcp ------------------------- 2017-06-12 10:14:11,803 INFO quick_adcp step 10: nav steps: run adcpsect 2017-06-12 10:14:11,803 INFO quick_adcp navstep 1 2017-06-12 10:14:11,803 DEBUG quick_setup nav/as_nav.tmp exists 2017-06-12 10:14:11,804 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,804 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:11,804 DEBUG quick_setup running python command "as_nav" 2017-06-12 10:14:11,804 DEBUG quick_subs dbname: ../adcpdb/a_ar output: a_ar step_size: 1 ndepth: 20 time_ranges: separate year_base= 2017 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 2017/06/05 19:07:29 to 2017/06/12 10:13:08 /* the whole time range */ 2017-06-12 10:14:11,804 DEBUG quick_setup about to run adcpsect as_nav.tmp 2017-06-12 10:14:11,825 INFO quick_run ... ran adcpsect for navsteps 2017-06-12 10:14:11,825 INFO quick_adcp ------------------------- 2017-06-12 10:14:11,825 INFO quick_adcp step 11: nav steps: run refabs 2017-06-12 10:14:11,825 INFO quick_adcp navstep 2 2017-06-12 10:14:11,825 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,825 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:11,825 DEBUG quick_setup running python command "refabs" 2017-06-12 10:14:11,825 DEBUG quick_subs fix_file_type: simple reference_file: a_ar.nav fix_file: a_ar.gps output: a_ar.ref year_base= 2017 ensemble_length= 120 gap_tolerance= 10 2017-06-12 10:14:11,825 DEBUG quick_setup about to run refabs refabs.tmp 2017-06-12 10:14:11,847 INFO quick_run ... ran refabs for navsteps 2017-06-12 10:14:11,847 INFO quick_adcp ------------------------- 2017-06-12 10:14:11,847 INFO quick_adcp step 12: nav steps: run smoothr for plots 2017-06-12 10:14:11,847 INFO quick_adcp navstep 3 2017-06-12 10:14:11,847 DEBUG quick_setup nav/smoothr.tmp exists 2017-06-12 10:14:11,847 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:11,847 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:11,847 DEBUG quick_setup running python command "smoothr" 2017-06-12 10:14:11,847 DEBUG quick_subs reference_file: a_ar.nav refabs_output: a_ar.ref output: a_ar.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 2017-06-12 10:14:11,847 DEBUG quick_setup about to run smoothr smoothr.tmp 2017-06-12 10:14:11,938 INFO quick_run ... ran smoothr 2017-06-12 10:14:11,939 INFO quick_adcp ------------------------- 2017-06-12 10:14:11,939 INFO quick_adcp step 13: nav steps: smooth navigation for velocities 2017-06-12 10:14:11,939 INFO quick_adcp navstep 4 2017-06-12 10:14:11,939 INFO quick_run smoothing method for ship speed: refsm 2017-06-12 10:14:11,939 INFO quick_run smoothing window: 3 2017-06-12 10:14:11,939 INFO quick_run ship speed source: nav 2017-06-12 10:14:11,939 DEBUG quick_npy Starting: refsm 2017-06-12 10:14:12,022 DEBUG quick_npy Ending: refsm 2017-06-12 10:14:12,022 INFO quick_run ... shipspeed smoothing step done 2017-06-12 10:14:12,022 INFO quick_adcp ------------------------- 2017-06-12 10:14:12,023 INFO quick_adcp step 14: nav steps: put positions and uvship from refsm into codasdb 2017-06-12 10:14:12,023 INFO quick_adcp navstep 5 2017-06-12 10:14:12,023 DEBUG quick_setup nav/put_txy.tmp exists 2017-06-12 10:14:12,023 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,023 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:12,023 DEBUG quick_setup running python command "put_txy" 2017-06-12 10:14:12,023 DEBUG quick_subs dbname: ../adcpdb/a_ar position_file: a_ar.agt year_base= 2017 tolerance= 5 2017-06-12 10:14:12,023 DEBUG quick_setup about to run put_txy put_txy.tmp 2017-06-12 10:14:12,036 INFO quick_run ... ran put_txy 2017-06-12 10:14:12,036 DEBUG quick_setup nav/put_tuv.tmp exists 2017-06-12 10:14:12,037 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,037 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:12,037 DEBUG quick_setup running python command "put_tuv" 2017-06-12 10:14:12,037 DEBUG quick_subs dbname: ../adcpdb/a_ar shipspeed_file: refsm_tuv.asc year_base= 2017 tolerance= 5 2017-06-12 10:14:12,037 DEBUG quick_setup about to run put_tuv put_tuv.tmp 2017-06-12 10:14:12,052 INFO quick_run ... ran put_tuv 2017-06-12 10:14:12,052 DEBUG quick_mpl Starting plot: nav 2017-06-12 10:14:12,245 DEBUG quick_mpl Ending plot: nav 2017-06-12 10:14:12,245 INFO quick_run ... made navigation plot 2017-06-12 10:14:12,245 INFO quick_adcp ------------------------- 2017-06-12 10:14:12,246 INFO quick_adcp step 15: nav steps: make reflayer plots 2017-06-12 10:14:12,246 INFO quick_adcp navstep 6 2017-06-12 10:14:12,246 DEBUG quick_mpl Starting plot: refl 2017-06-12 10:14:12,293 DEBUG quick_mpl found 6.621987 days of data 2017-06-12 10:14:12,293 DEBUG quick_mpl start day is 155.000000 2017-06-12 10:14:12,293 DEBUG quick_mpl figures with 2.000000 days per page 2017-06-12 10:14:12,293 DEBUG quick_mpl printing 4 pages 2017-06-12 10:14:12,293 DEBUG quick_mpl yrange will be [1.000000, 1.000000] 2017-06-12 10:14:12,641 DEBUG quick_mpl Ending plot: refl 2017-06-12 10:14:12,641 INFO quick_run ... made reflayer plots 2017-06-12 10:14:12,641 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:12,641 INFO quick_adcp step 10: find profile flags 2017-06-12 10:14:12,641 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,642 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/edit 2017-06-12 10:14:12,642 DEBUG quick_setup running python command "run_autoedit_npy" 2017-06-12 10:14:12,642 DEBUG quick_npy Starting: autoedit 2017-06-12 10:14:12,701 DEBUG pingedit wrote 21 bad bins to abadbin_tmp.asc 2017-06-12 10:14:12,709 DEBUG pingedit wrote 1 bad profiles to abadprf_tmp.asc 2017-06-12 10:14:12,709 DEBUG quick_npy Ending: autoedit 2017-06-12 10:14:12,709 INFO quick_run ... extracted files using automatic editing 2017-06-12 10:14:12,709 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:12,709 INFO quick_adcp step 11: apply editing 2017-06-12 10:14:12,709 DEBUG quick_run starting in: /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,709 DEBUG quick_run executing commands from: edit 2017-06-12 10:14:12,710 DEBUG quick_run about to run dbupdate ../adcpdb/a_ar abadprf_tmp.asc 2017-06-12 10:14:12,713 DEBUG quick_run about to run badbin ../adcpdb/a_ar abadbin_tmp.asc 2017-06-12 10:14:12,716 DEBUG quick_subs dbname: ../adcpdb/a_ar pg_min: 50 set_range_bit time_ranges: all 2017-06-12 10:14:12,716 DEBUG quick_run about to run setflags setflags.tmp 2017-06-12 10:14:12,728 DEBUG quick_run changing directories back to /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,728 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:12,728 INFO quick_adcp step 12: run calibration steps 2017-06-12 10:14:12,728 DEBUG quick_setup cal/botmtrk/lst_btrk.tmp exists 2017-06-12 10:14:12,728 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,728 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/cal/botmtrk 2017-06-12 10:14:12,728 DEBUG quick_setup running python command "lst_btrk" 2017-06-12 10:14:12,729 DEBUG quick_subs dbname: ../../adcpdb/a_ar output: a_ar.btm step_size= 1 year_base= 2017 time_ranges: 2017/06/05 19:07:29 to 2017/06/12 10:13:08 /* whole time range */ 2017-06-12 10:14:12,729 DEBUG quick_setup about to run lst_btrk lst_btrk.tmp 2017-06-12 10:14:12,734 DEBUG quick_setup cal/botmtrk/refabsbt.tmp exists 2017-06-12 10:14:12,735 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,735 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/cal/botmtrk 2017-06-12 10:14:12,735 DEBUG quick_setup running python command "refabsbt" 2017-06-12 10:14:12,735 DEBUG quick_subs fix_file_type: simple reference_file: a_ar.btm fix_file: ../../nav/a_ar.gps output: a_ar.ref year_base= 2017 ensemble_length= 120 gap_tolerance= 60 2017-06-12 10:14:12,735 DEBUG quick_setup about to run refabsbt refabsbt.tmp 2017-06-12 10:14:12,738 INFO quick_run ...bottom track info in check cal/botmtrk 2017-06-12 10:14:12,738 DEBUG quick_mpl Starting plot: btcal 2017-06-12 10:14:12,738 DEBUG quick_mpl No data in a_ar.btm 2017-06-12 10:14:12,738 DEBUG quick_mpl Returning from Btplot with no output 2017-06-12 10:14:12,738 DEBUG quick_mpl Ending plot: btcal 2017-06-12 10:14:12,738 DEBUG quick_setup nav/as_nav.tmp exists 2017-06-12 10:14:12,738 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,738 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/nav 2017-06-12 10:14:12,738 DEBUG quick_setup running python command "as_nav" 2017-06-12 10:14:12,738 DEBUG quick_subs dbname: ../adcpdb/a_ar output: a_ar step_size: 1 ndepth: 20 time_ranges: separate year_base= 2017 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 2017/06/05 19:07:29 to 2017/06/12 10:13:08 /* the whole time range */ 2017-06-12 10:14:12,738 DEBUG quick_setup about to run adcpsect as_nav.tmp 2017-06-12 10:14:12,757 DEBUG quick_setup cal/watertrk/timslip.tmp exists 2017-06-12 10:14:12,757 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:12,757 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/cal/watertrk 2017-06-12 10:14:12,757 DEBUG quick_setup running python command "timslip" 2017-06-12 10:14:12,757 DEBUG quick_subs fix_file_type: simple fix_file: ../../nav/a_ar.gps reference_file: ../../nav/a_ar.nav output_file: a_ar_7.cal year_base= 2017 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 2017-06-12 10:14:12,757 DEBUG quick_setup about to run timslip timslip.tmp 2017-06-12 10:14:12,767 INFO quick_run ... watertrack info in cal/watertrk 2017-06-12 10:14:12,767 DEBUG quick_mpl Starting plot: wtcal 2017-06-12 10:14:12,768 DEBUG quick_mpl Found 76 calibration points 2017-06-12 10:14:13,193 DEBUG quick_mpl Ending plot: wtcal 2017-06-12 10:14:13,194 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,194 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/cal/watertrk 2017-06-12 10:14:13,194 DEBUG quick_setup running python command "run_guess_xducerxy_npy" 2017-06-12 10:14:13,194 DEBUG quick_npy Starting: guess_xducerxy 2017-06-12 10:14:13,242 DEBUG quick_npy Ending: guess_xducerxy 2017-06-12 10:14:13,242 INFO quick_run ... check cal/watertrk for estimate 2017-06-12 10:14:13,242 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:13,242 INFO quick_adcp step 13: extract and plot temperature 2017-06-12 10:14:13,242 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,242 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/edit 2017-06-12 10:14:13,242 DEBUG quick_setup running python command "lst_temp" 2017-06-12 10:14:13,242 DEBUG quick_subs dbname: ../adcpdb/a_ar output: a_ar.tem step_size= 1 year_base= 2017 time_ranges: all 2017-06-12 10:14:13,242 DEBUG quick_setup about to run lst_temp lst_temp.tmp 2017-06-12 10:14:13,259 DEBUG quick_mpl Starting plot: temp 2017-06-12 10:14:13,276 DEBUG quick_mpl plotting 4265 points 2017-06-12 10:14:13,413 DEBUG quick_mpl Ending plot: temp 2017-06-12 10:14:13,413 INFO quick_run plotted temperature 2017-06-12 10:14:13,414 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:13,414 INFO quick_adcp step 14: extract and plot number of pings per ensemble 2017-06-12 10:14:13,414 DEBUG quick_setup edit/lst_npings.tmp exists 2017-06-12 10:14:13,414 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,414 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/edit 2017-06-12 10:14:13,414 DEBUG quick_setup running python command "lst_npings" 2017-06-12 10:14:13,414 DEBUG quick_subs dbname: ../adcpdb/a_ar output: a_ar_npings.txt step_size= 1 year_base= 2017 time_ranges: all 2017-06-12 10:14:13,414 DEBUG quick_setup about to run lst_npings lst_npings.tmp 2017-06-12 10:14:13,425 DEBUG quick_mpl Starting plot: npings 2017-06-12 10:14:13,442 DEBUG quick_mpl plotting 4265 points 2017-06-12 10:14:13,529 DEBUG quick_mpl Ending plot: npings 2017-06-12 10:14:13,529 INFO quick_run ... plotted number of pings per ensemble 2017-06-12 10:14:13,529 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:13,529 INFO quick_adcp step 15: extract matlab "allbins" 2017-06-12 10:14:13,529 DEBUG quick_asect step 18: make matlab files for plotting 2017-06-12 10:14:13,529 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,529 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/vector 2017-06-12 10:14:13,529 DEBUG quick_setup running python command "timegrid" 2017-06-12 10:14:13,529 DEBUG quick_setup about to run timegrid a_ar.tmp 2017-06-12 10:14:13,532 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,532 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/vector 2017-06-12 10:14:13,532 DEBUG quick_setup running python command "as_vect" 2017-06-12 10:14:13,532 DEBUG quick_setup about to run adcpsect as_vect.tmp 2017-06-12 10:14:13,556 DEBUG quick_asect done making vector matfiles 2017-06-12 10:14:13,557 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,557 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/contour 2017-06-12 10:14:13,557 DEBUG quick_setup running python command "timegrid" 2017-06-12 10:14:13,557 DEBUG quick_setup about to run timegrid a_ar.tmp 2017-06-12 10:14:13,560 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,560 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/contour 2017-06-12 10:14:13,560 DEBUG quick_setup running python command "as_cont" 2017-06-12 10:14:13,560 DEBUG quick_setup about to run adcpsect as_cont.tmp 2017-06-12 10:14:13,599 DEBUG quick_setup starting in /home/data/ar18b/proc/wh300 2017-06-12 10:14:13,599 DEBUG quick_setup executing commands from /home/data/ar18b/proc/wh300/contour 2017-06-12 10:14:13,599 DEBUG quick_setup about to run getmat -qrs -f allbins_ ../adcpdb/a_ar 2017-06-12 10:14:13,687 DEBUG quick_asect done running getmat with "allbins" 2017-06-12 10:14:13,688 INFO quick_adcp --------------------------------------------- 2017-06-12 10:14:13,688 INFO quick_adcp writing "cruise_info.txt" 2017-06-12 10:14:13,689 INFO root copying NOFIG to /home/adcp/www/figures/wh300_hcorr_plot.png 2017-06-12 10:14:13,689 INFO root copying NOFIG to /home/adcp/www/figures/thumbnails/wh300_hcorr_plot_thumb.png 2017-06-12 10:14:13,689 DEBUG root matfile is contour/contour_uv.mat 2017-06-12 10:14:13,689 INFO root copying contour/contour_uv.mat to /home/adcp/www/data/wh300_cont_uv.mat 2017-06-12 10:14:13,690 DEBUG root matfile is vector/vector_uv.mat 2017-06-12 10:14:13,690 INFO root copying vector/vector_uv.mat to /home/adcp/www/data/wh300_vect_uv.mat 2017-06-12 10:14:13,690 DEBUG root matfile is contour/contour_xy.mat 2017-06-12 10:14:13,690 INFO root copying contour/contour_xy.mat to /home/adcp/www/data/wh300_cont_xy.mat 2017-06-12 10:14:13,690 DEBUG root matfile is vector/vector_xy.mat 2017-06-12 10:14:13,690 INFO root copying vector/vector_xy.mat to /home/adcp/www/data/wh300_vect_xy.mat 2017-06-12 10:14:13,690 DEBUG root about to copy file edit/a_ar.tem to /home/adcp/www/data/wh300_temp.asc 2017-06-12 10:14:13,690 INFO root copying edit/a_ar.tem to /home/adcp/www/data/wh300_temp.asc 2017-06-12 10:14:13,696 INFO netcdf Using pupynere. 2017-06-12 10:14:13,749 DEBUG root about to copy netcdf file /home/data/ar18b/proc/wh300/contour/wh300.nc to /home/adcp/www/data/wh300.nc 2017-06-12 10:14:13,751 INFO root copying edit/a_ar.tem to /home/adcp/www/data/wh300.nc 2017-06-12 10:14:13,767 INFO root generating pingstats for wh300 2017-06-12 10:14:13,767 INFO root Ending quick_adcp.py