Processing data with runots.py

Data are processed using the umbrella run script runots.py. With this script the user specifies the instrument and step to be applied to the data.

For most instruments, this is a two-step process:

instrument data to raw CDF
raw CDF to clean .nc

For some instruments (usually those measuring waves) there is a third step:

clean .nc to wave-statistics .nc

The user will call runots.py from the command line, with arguments described below. The autogenerated documentation below can be a little challenging to interpret, so here’s an example:

runots.py aqd hdr2cdf gatts_file.txt config_file.yaml

The above command specifies aqd (Aquadopp collecting in currents mode) and hdr2cdf (step 1 above, instrument data to raw CDF), using the specified configuration files.

To get to the final .nc file, the user would then run runots.py aqd cdf2nc raw_cdf_file_name.cdf

To get final wave-statistics .nc files for supported instruments, the user has 2 potential options nc2waves and nc2diwasp with a clean .nc file of continuous or burst data as a positional argument

To find out what options are available for a specific instrument the user can run runots.py <insert instrument code> -h

To get information about the currently installed version, run runots.py -v

runots.py

Run USGS CMHRP ocean time-series data processing system.

usage: runots.py [-h] [-v]
                 {abss,aqd,aqdhr,aqdwvs,eco,eofe,exo,glx,hobo,iq,lisst,mc,rbr,rdi,rsk,sgtid,sgwvs,sig,tb,tcm,troll,vec,wvs,wxt,son} ...

Named Arguments

-v, --version: show program’s version number and exit

Instruments

Specify one of the instruments in the list below

instrument: Possible choices: abss, aqd, aqdhr, aqdwvs, eco, eofe, exo, glx, hobo, iq, lisst, mc, rbr, rdi, rsk, sgtid, sgwvs, sig, tb, tcm, troll, vec, wvs, wxt, son

Sub-commands

abss

AQUAscat1000R

runots.py abss [-h] {mat2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: mat2cdf, cdf2nc

Sub-commands

mat2cdf

Convert instrument data to raw .cdf

runots.py abss mat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py abss cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                      [--salwtemp SALWTEMP]
                      cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

aqd

Aquadopp (currents)

runots.py aqd [-h] {hdr2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: hdr2cdf, cdf2nc

Sub-commands

hdr2cdf

Convert instrument data to raw .cdf

runots.py aqd hdr2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py aqd cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

aqdhr

Aquadopp HR

runots.py aqdhr [-h] {hdr2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: hdr2cdf, cdf2nc

Sub-commands

hdr2cdf

Convert instrument data to raw .cdf

runots.py aqdhr hdr2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py aqdhr cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                       [--salwtemp SALWTEMP]
                       cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

aqdwvs

Aquadopp Waves

runots.py aqdwvs [-h] {wad2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: wad2cdf, cdf2nc, nc2waves

Sub-commands

wad2cdf

Convert instrument data to raw .cdf

runots.py aqdwvs wad2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py aqdwvs cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                        [--salwtemp SALWTEMP]
                        cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py aqdwvs nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

eco

WET Labs ECO

runots.py eco [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py eco csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py eco cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

eofe

EofE ECHOLOGGER

runots.py eofe [-h] {log2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: log2cdf, cdf2nc

Sub-commands

log2cdf

Convert instrument data to raw .cdf

runots.py eofe log2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py eofe cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                      [--salwtemp SALWTEMP]
                      cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

exo

YSI EXO

runots.py exo [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py exo csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py exo cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

glx

Geolux Wave Radar

runots.py glx [-h] {dat2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: dat2cdf, cdf2nc, nc2waves

Sub-commands

dat2cdf

Convert instrument data to raw .cdf

runots.py glx dat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py glx cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py glx nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

hobo

Onset HOBO

runots.py hobo [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py hobo csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py hobo cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                      [--salwtemp SALWTEMP]
                      cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

iq

SonTek IQ

runots.py iq [-h] {mat2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: mat2cdf, cdf2nc

Sub-commands

mat2cdf

Convert instrument data to raw .cdf

runots.py iq mat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py iq cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                    [--salwtemp SALWTEMP]
                    cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

lisst

Sequoia Scientific LISST

runots.py lisst [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py lisst csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py lisst cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                       [--salwtemp SALWTEMP]
                       cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

mc

Seabird MicroCAT

runots.py mc [-h] {asc2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: asc2cdf, cdf2nc

Sub-commands

asc2cdf

Convert instrument data to raw .cdf

runots.py mc asc2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py mc cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                    [--salwtemp SALWTEMP]
                    cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

rbr

RBR

runots.py rbr [-h] {csv2cdf,cdf2nc,nc2waves,nc2diwasp} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc, nc2waves, nc2diwasp

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py rbr csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py rbr cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py rbr nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

nc2diwasp

Undocumented

runots.py rbr nc2diwasp [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

rdi

Teledyne RDI ADCP

runots.py rdi [-h] {mat2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: mat2cdf, cdf2nc

Sub-commands

mat2cdf

Convert instrument data to raw .cdf

runots.py rdi mat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py rdi cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

rsk

RBR

runots.py rsk [-h] {csv2cdf,cdf2nc,nc2waves,nc2diwasp} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc, nc2waves, nc2diwasp

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py rsk csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py rsk cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py rsk nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

nc2diwasp

Undocumented

runots.py rsk nc2diwasp [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

sgtid

Seabird Seagauge Tides

runots.py sgtid [-h] {tid2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: tid2cdf, cdf2nc

Sub-commands

tid2cdf

Convert instrument data to raw .cdf

runots.py sgtid tid2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py sgtid cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                       [--salwtemp SALWTEMP]
                       cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

sgwvs

Seabird Seagauge Waves

runots.py sgwvs [-h] {wb2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: wb2cdf, cdf2nc, nc2waves

Sub-commands

wb2cdf

Convert instrument data to raw .cdf

runots.py sgwvs wb2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py sgwvs cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                       [--salwtemp SALWTEMP]
                       cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py sgwvs nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

sig

Nortek Signature

runots.py sig [-h] {mat2cdf,cdf2nc,nc2waves,nc2diwasp} ...

Steps

Specify one of the steps in the list below

step: Possible choices: mat2cdf, cdf2nc, nc2waves, nc2diwasp

Sub-commands

mat2cdf

Convert instrument data to raw .cdf

runots.py sig mat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py sig cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py sig nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

nc2diwasp

Undocumented

runots.py sig nc2diwasp [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

tb

TruBlue

runots.py tb [-h] {csv2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc, nc2waves

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py tb csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py tb cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                    [--salwtemp SALWTEMP]
                    cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py tb nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

tcm

Lowell Tilt Current Meter

runots.py tcm [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py tcm csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py tcm cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

troll

AquaTROLL

runots.py troll [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py troll csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py troll cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                       [--salwtemp SALWTEMP]
                       cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

vec

Nortek Vector

runots.py vec [-h] {dat2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: dat2cdf, cdf2nc, nc2waves

Sub-commands

dat2cdf

Convert instrument data to raw .cdf

runots.py vec dat2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py vec cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py vec nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

wvs

Aquadopp Waves

runots.py wvs [-h] {wad2cdf,cdf2nc,nc2waves} ...

Steps

Specify one of the steps in the list below

step: Possible choices: wad2cdf, cdf2nc, nc2waves

Sub-commands

wad2cdf

Convert instrument data to raw .cdf

runots.py wvs wad2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py wvs cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2waves

Undocumented

runots.py wvs nc2waves [-h] [--salwtemp SALWTEMP] ncname

Positional Arguments

ncname: processed .nc filename

Named Arguments

--salwtemp: path to nc file containing salinity and water temperature data

wxt

Vaisala WXT

runots.py wxt [-h] {csv2cdf,cdf2nc} ...

Steps

Specify one of the steps in the list below

step: Possible choices: csv2cdf, cdf2nc

Sub-commands

csv2cdf

Convert instrument data to raw .cdf

runots.py wxt csv2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py wxt cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

son

Imagenex sonar

runots.py son [-h] {raw2cdf,cdf2nc,nc2xy} ...

Steps

Specify one of the steps in the list below

step: Possible choices: raw2cdf, cdf2nc, nc2xy

Sub-commands

raw2cdf

Convert instrument data to raw .cdf

runots.py son raw2cdf [-h] gatts config

Positional Arguments

gatts: path to global attributes file (gatts formatted)
config: path to instrument configuration file (YAML formatted)

cdf2nc

Convert raw .cdf to clean .nc

runots.py son cdf2nc [-h] [--atmpres ATMPRES] [--height HEIGHT]
                     [--salwtemp SALWTEMP]
                     cdfname

Positional Arguments

cdfname: raw .cdf filename

Named Arguments

--atmpres: path to cdf file containing atmospheric pressure data
--height: path to nc file containing height above seabed data
--salwtemp: path to nc file containing salinity and water temperature data

nc2xy

Undocumented

runots.py son nc2xy [-h] ncname

Positional Arguments

ncname: processed .nc filename