I can't run the wonderful 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.
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.