Hi,
I try to automatize some commands normally used in terminal that I would
like to run in R.
However, the same command xxx in terminal and in system("xxx") does not
produce the same result.
It seems related to the shell used and the variables of the shell.
For example, in terminal:
Marc-Girondot-MBA:Chlorophyle marc$ echo $PATH
/opt/local/bin:/opt/local/sbin:/opt/local/bin:/opt/local/sbin:/usr/local/ncl-6.2.0/bin:/opt/local/bin:/opt/local/sbin:/Library/Frameworks/GDAL.framework/Programs:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/texbin
whereas in R:
> system("echo $PATH")
/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/texbin:/opt/local/bin
The shell used in terminal is
Marc-Girondot-MBA:Chlorophyle marc$ echo $SHELL
/bin/bash
Marc-Girondot-MBA:Chlorophyle marc$ echo $0
-bash
whereas in R, it is sh:
> system("echo $0")
sh
And this sh does not read my configuration files. I have tried to
modifiy the ~/.profile or ~/.login but system("echo $PATH") does not change.
My question is then:
is it possible to change the default shell used by system ? I have tried:
system("/bin/bash\necho $0\necho $PATH")
but R becomes unresponsive...
or where is the configuration file for sh run by R ?
Thanks a lot
Marc
_______________________________________________
R-SIG-Mac mailing list
[email protected]
https://stat.ethz.ch/mailman/listinfo/r-sig-mac
