I can't make PypeR run anymore
Question: I can't run the wonderful [PypeR](http://www.webarray.org/softwares/PypeR/) (r
to python interface) anymore. I can import it, but as I try to run it it
crashes.

I suspect it is because I installed El Capitan OSX.

I tried to install update `pypeR` with no success.

when I run it with:

e.g.

    
    
    r = R()
    

that's the error that I get.

    
    
    Traceback (most recent call last):
      File "<pyshell#3>", line 1, in <module>
        a = R()
      File "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pyper.py", line 600, in __init__
        self.__dict__['prog'] = Popen(RCMD, stdin=PIPE, stdout=PIPE, stderr=return_err and _STDOUT or childstderr, startupinfo=info)
      File "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 710, in __init__
        errread, errwrite)
      File "/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/subprocess.py", line 1335, in _execute_child
        raise child_exception
    OSError: [Errno 2] No such file or directory
    

does anyone have a clue on how to solve this problem?

* * *

update:

if I run it from a shell instead of Idle it works. I really can't see why.

Python's version is exactly the same, built at the same time.


Answer: It looks like `PypeR` cannot find `R` to run. Most likely the `R` command is
not in the search path for `command ($PATH)` when you are using idle. One way
is to explicitly point out which `R` command to use, e.g., if the `R` command
is located in `/usr/local/bin`, you may use

    
    
    r = R(RCMD="/usr/local/bin/R")
    

Of course, it is best if you can add `R`'s path for idle environment.

