tests/testthat/local_data/README.md

In dankelley/oce: Analysis of Oceanographic Data

Contents of directory. This document explains how the files in this directory were created. In many cases, the data are truncated using dd, because the original files are too large to be stored on github.

Instructions for adding to this directory.

1. Place entries in alphabetical order. Change the numbering of the headers, as required. Try to use file names that will have some meaning to a reader doing a file listing.

2. Put an entry in a .R file in the parent directory to read the file and test the resultant data in some useful way. The file name should be start with test_local. Some tests may involve comparison against a second source, e.g. information provided by manufacturer's software or inferred by inspection of the data file with an editor or other software. It also very helpful to have consistency checks to guard against changes to oce; these can be constructed simply by reading in the data once, and creating a test that the same results are obtained by rereading.

How these file are used. Simply adding a file here does nothing useful.

1. ADP: RDI, Nortek, and Sontek

1.1 RDI

dd if=/data/archive/sleiwex/2008/moorings/m09/adp/rdi_2615/raw/adp_rdi_2615.000 \
   of=rdi bs=40000 count=1

1.2 Nortek Aquadopp

dd if=/data/archive/sleiwex/2008/moorings/m05/adp/nortek_aqd2843/raw/adp_nortek_aqd2843.prf \
   of=adp_nortek_aquadopp bs=40000 count=1

1.3 Sontek

dd if=/data/archive/sleiwex/2008/moorings/m07/adp/sontek_h53/raw/adp_sontek_h53.adp \
   of=adp_sontek bs=40000 count=1

2. ADV

2.1 Nortek

dd if=/data/archive/sleiwex/2008/moorings/m05/adv/nortek_1943/raw/adv_nortek_1943.vec \
   of=adv_nortek_vector bs=40000 count=1

2.w Sontek

dd if=/data/archive/sleiwex/2008/moorings/m03/adv/sontek_b373h/raw/adv_sontek_b373h.adr \
   of=adv_sontek bs=40000 count=1

3. Argo

cp ~/git/oce/create_data/argo/6900388_prof.nc .
mv ~/Dropbox/BR5904179_001.nc . # from a server; this is a BIOargo with new fields

4. AMSR satellite

cp ~/data/amsr/f34_20160808v7.2.gz .

5. Bremen

cp /data/flemishCap/msm27_ladcp/msm27_003.ladcp .

6. cm

cp /data/archive/sleiwex/2008/moorings/m11/cm/interocean_0811786/manufacturer/cm_interocean_0811786.s4a.tab .

7. CTD

18HU2010014_00003_00001_ct1.csv is from https://cchdo.ucsd.edu/data/9837/18HU20100513_ct1.zip

curl https://www.nodc.noaa.gov/woce/woce_v3/wocedata_1/whp/exchange/example_ct1.csv > example_ct1.csv

Echosounder

cp /data/archive/sleiwex/2008/fielddata/2008-07-04/Merlu/Biosonics/20080704_112452.dt4 echosounder.dt4

8. GPS

cp ~/src/rgdal/branches/rgdal_iconv/inst/vectors/test_trk2.gpx .

9. Ice-tethered profiler

The original source was ftp://ftp.whoi.edu/whoinet/itpdata/itp99grddata.zip

cp  ~/Downloads/itp99grddata/itp99grd0000.dat  .

10. Index

curl http://www.cgd.ucar.edu/cas/catalog/climind/SOI.signal.ascii > SOI.signal.ascii

11. Lobo

cp ../../../create_data/lobo/lobo.dat  .

12. a broken ctd file

CTD_98911_1P_1_DN.txt is from an ODF file that CR had. It has p, temperature, and theta, but no salinity or conductivity. It is worth testing because it's odd, basically.

13. Nortek Signature adp files in AD2CP format

local_data/ad2cp contains several sample AD2CP files.

• S102791A002_Barrow_v2.ad2cp, provided by Clark Richards, is an in-air file created by a Signature 250 with 5 beams, including a centre beam running at 500kHz. Its license enable "wave" and "ice" modes, which are used in this file.

• S102791A002_Barrow_v2_avgd.ad2cp is from the same instrument as the previously-described file, but here with altimeter values and echosounder profiles.

• ad2cp_01.ad2cp is the first 20,000 bytes of a source file generously provided by github user @krillthor, who started issue 1676 and provided tests that helped greatly during the code improvements motivated by that issue. It was created with

head -c 50000 X.ad2cp > ad2cp_01.ad2cp

where X.ad2cp is a stand-in for the original file name.

dankelley/oce documentation built on May 8, 2024, 10:46 p.m.