system() doesn't see PATH variables

Asked Jul 09 '19 at 15:11

Active Jul 09 '19 at 15:55

Viewed 58 times

I'm trying to evoke shell command via my R function. Unfortunatelly shell instance seems not to see PATH and fail.

I used following command to add conda to path

echo 'export PATH=~/anaconda2/bin:$PATH' >> ~/.bashrc

Unfortuantelly system("conda help") retruns that conda is not found. Also system("env | grep PATH") does not return conda. I would like to emphasize that anaconda reacts properly when I execute conda in the terminal. Problem occurs when I try to use R function to call terminal.

edited Jul 09 '19 at 15:55

asked Jul 09 '19 at 15:11

Szymon Maksymiuk

Which OS are you using? – Jim G. Jul 09 '19 at 15:17
Possible duplicate of [Why Anaconda does not recognize conda command?](https://stackoverflow.com/questions/28612500/why-anaconda-does-not-recognize-conda-command) – Jim G. Jul 09 '19 at 15:18
Unix. But conda do recognize my command. It is bash called from R instance which has problem with recognizing it – Szymon Maksymiuk Jul 09 '19 at 15:31

system() doesn't see PATH variables

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