OK - fixed the data issue and it is apparent I can compile and run the programs in bash. And there is no problem if I recompile (using
make --always-make) and re-run. (I do run into problems with my working folder that has a “-” in the name - but if I move everything to a test folder, everything works fine).
So, my problem seems to be an
R issue, but let me know if there are non-R tests I should check.