Revision as of 19:14, 3 June 2015

Details on how to do this task: Document domain characteristics

As I understand this task, we are to take all of the variables used in the project and find the corresponding variable names from the CSDMS list. So to start, here are lists of all of my variables. I'm just going to directly copy-paste from my scripts (MOORprocess_all.m and MoorADCP.m) for starters. I imagine the publication-ready version of this will be in three columns: the "common" name of the variable as oceanographers would understand it, the name of the variable in my code, and the name of the variable in the CSDMS.

YSI
<ul>
ctddepth{3} = YSI(:,6);
ctdsal{3} = YSI(:,7);
ctdtemp{3} = YSI(:,8);
ctdpress{3} = YSI(:,9);
%ctdpress{3}(1:length(ctdtimestamp{3})) = NaN;
ctdcond{3} = YSI(:,10);
ctdspcond{3} = YSI(:,11);
ctdoxy{3} = YSI(:,13);
ctdoxysat{3} = YSI(:,14);
%ctdchla{3} = YSI(:,?);
%ctdturb{3} = YSI(:,15);
ctdturb{3}(1:length(ctdtimestamp{3})) = NaN; % a kludge for nonexistent variables in an existing package
ctdtds{3} = YSI(:,15);
</ul>

CTDs
<ul>
ctdtemp{r} = CTD(:,1);
ctdcond{r} = CTD(:,2);
ctdpress{r} = CTD(:,3);
ctdsal{r} = CTD(:,4);
ctdsound{r} = CTD(:,5);
ctdjday = CTD(:,6); %coming in, jday is Jan 1 = Day 1
ctddens{r} = CTD(:,8);
ctddepth{r} = CTD(:,9);
ctdspcond{r} = CTD(:,10);
</ul>

Thermistors
<ul>
tempT{r} = dataT(:,1);
pressT = dataT(:,2);
depthT = cnv(:,2);
</ul>

CTD cast
<ul>
depth=datablock(:,3);
sal=datablock(:,4);
temp=datablock(:,5);
dens=datablock(:,6);
press=datablock(:,7);
cond=datablock(:,8);
spcond=datablock(:,9);
oxy=datablock(:,10);
oxysat=datablock(:,11);
ph=datablock(:,12);
chla=datablock(:,13);
par=datablock(:,14);
%cdom=datablock(:,15);
cdom(1:length(scan)) = NaN;
batt=datablock(:,15);
xmiss=datablock(:,16);
</ul>

ADCP
<ul>
Pitch = AnP100thDeg *.01;
Roll = AnR100thDeg *.01;
East_u = SerEmmpersec * 0.1; % convert mm per sec to cm per sec
North_v = SerNmmpersec * 0.1;
Vert_w = SerVmmpersec * 0.1;
VelError = SerErmmpersec * 0.1;
Mag = SerMagmmpersec * 0.1;
DIR = SerDir10thDeg * 0.1;
</ul>

Update: I've started working on matching them up with the CSDMS variables via a Google spreadsheet. It turns out that I don't know what specifically some of my variables are (conductivity for example: electrical or thermal?). I also don't see anything in there about light attenuation (PAR, turbidity). There's chlorophyll, but apparently only as measured via diatoms and not all phytoplankton. Dissolved oxygen seems to be missing, as are nutrients in general (nitrogen, phosphates) as is anything involving particulates (colored dissolved organic matter, gelbstoff, total suspended solids, etc). I might be looking in the wrong part of the list.