Passing a filename from a shell script to Matlab

Hello,

I am trying to pass a filename from my shell script to my Matlab script.

!/bin/bash
filename='subset_wrfout.nc'
echo $filename
module load matlab
#*************************************************************************
  cat > test.m << EOF 
 
  fname = getenv('filename') 
  dummy = ones(1,2);
  f = strcat(fname,'.mat'); 
  save(f,'dummy');
EOF

#*************************************************************************

matlab -nojvm -nodisplay -nosplash -r "run('test.m'); exit;"

I tried using getenv. However, the result is always a null array or some root directory. The command is just not picking on the environmental variable that I created in shell. Why might this be this case? Note that I need the filename in the start as well as in the end while I am using it store the variable.

[Walter Roberson]

You are not exporting the environment variable.

export filename='subset_wrfout.nc'

[saipb]

Thank you for the prompt response. Do you mean in the Shell script or in the Matlab script? I tried using just filename='subset_wrfout.nc' as well as export filename='subset_wrfout.nc' in the shell script to no effect. Is there anything I should change in the Matlab script?

[saipb]

I solved this issue.

Even if I do export filename='subset_wrfout.nc' in the shell script, when I get into the Matlab script and say,

fname = getenv('filename');

disp(fname);

It only gives me

fname =

'/share/software/user/restricted/matlab/R2019a/bin/matlab'

I figured that getenv might be the wrong command for this, so I resorted to simple echo and system.

[status,cmdout] = system('echo $filename');

fname = cmdout;

disp(fname)

fwithoutnc = erase(fname,".nc")

dummy = ones(1,2);

f = strcat(fwithoutnc,'.mat');

disp(f)

save(f,'dummy');

Output:

subset_wrfout.nc

fwithoutnc =

'subset_wrfout'

subset_wrfout.mat

Thank you!!