Bash
ncview Quick visualization tool for netCDF.
ncdump Quick literal visualization too for netCDF.
ls -alhtr display the contents in the present directory in details and in order of last modified time.
nohup COMMAND & Keep Linux command running even if disconnected.
[Ctrl] + [c] terminate the process.
top monitor CPU and RAM usage.
LaTeX
Assume you have two files:
paper.tex
ref.bib
Then compile the paper (4 steps in the command line):
pdflatex paper
bibtex paper
pdflatex paper
pdflatex paper
Specify the width of the table (so that it does not exceed from the paper):
\begin{tabular}{|p{5cm}|l|l|l|l|}
MATLAB
Ocean-land map: contourf(map, 0); %where 'map' contains data with NaNs for no data (e.g. land).
"squeeze"
"numel" (instead of "length" or "size")
Cells become really useful when dealing with multiple variable names in a file. For example, the output of PISCES NPZD contains 12 state variables in carbon units. To plot all of them in one figure, use cells and for-loop:
names={'NH4' 'NO3' 'PO4' 'Fer' 'Si' 'PHY' 'PHY2' 'ZOO' 'ZOO2' 'DOC' 'POC' 'GOC'};
for it=1:length(names)
p1=ncread(file1.nc,names{it});
p11=squeeze(p1(2,2,1,:));
plot(p11);
end
legend(names{:})
TEOS-10 Toolbox
A handy matlab functions to calculate thermodynamic properties of seawater. Probably the most useful feature is the calculation of seawater density from temperature, salinity, and pressure, since models do not compute density.
addpath(genpath('~/path2folder/GSW/');
Example: Modeled AR7W cross section
T and S in NEMO output (grid_T file) are potential temperature and practical salinity. Therefore, you need to convert them into conservative temperature and absolute salinity using "gsw_SA_from_SP" and "gsw_CT_from_pt" to calculate potential density anomaly (sigma0) using "gsw_sigma0".
Constants/Unit conversion factor/IDs
id_col='brgkmcy'; %Color IDs
abc='abcdefghijklmnopqrstuvwxyz'; %
sec2day=86400; % # of seconds in a day
Colorbar
colorbar('location','southoutside') % Put the colorbar below the figure
xlabel(colorbar,'titlegoeshere'); % Label Below the colorbar
ylabel(colorbar,'titlegoeshere') % Label on the right of the colorbar
title(colorbar,'titlegoeshere') % Label above the colorbar
Regular Expression
. : A character
[0-9] : A number between 0 and 9
\s : A space
\n : A new line
() : Reserve a block of text
\1 : The first block of text reserved by ()
Vi/Vim
dd Cut
d#d Cut # lines.
yy Copy
y#y Copy # lines.
p Paste
r Replace a single word.
u Undo.
0 Start of line.
$ End of line.
. Repeat the last action.
/dog123 Search for "dog123".
n Search for next matching word (in the previous case, "dog123").
N Search for next matching word in reverse direction.
:%s/before/after/gc Replace "before" with "after" (it will ask for confirmation before the change(s). If you exclude "c" at the end, it will not ask for confirmation).
:w Write (save).
:q Quit.
:q! Quit without saving.
:wq Write (save) and quit.
