project path in Rmd
So what you're saying is that I should have scripts in the project directory and not in a subfolder within it, right? But what if I need (or at least want) to? Ivan -- Dr. Ivan Calandra TraCEr, laboratory for Traceology and Controlled Experiments MONREPOS Archaeological Research Centre and Museum for Human Behavioural Evolution Schloss Monrepos 56567 Neuwied, Germany +49 (0) 2631 9772-243 https://www.researchgate.net/profile/Ivan_Calandra
On 02/04/2020 10:56, Jeff Newmiller wrote:
Make it so. Outside R. At the command line, use cd before you start R. This should feel natural. In a GUI file browser, double clicking on a file type assigned to a program by default sets the containing directory to be current directory before kicking off the program, so double-clicking on an empty Project.RData file will do it. Or you can use RStudio Project.Rproj files the same way. On April 2, 2020 1:40:07 AM PDT, Ivan Calandra <calandra at rgzm.de> wrote:
Hi Jeff, But if I do not use setwd(), the current working directory is NOT the project directory. That's what my problem is about... I guess I was not clear in my email... Ivan -- Dr. Ivan Calandra TraCEr, laboratory for Traceology and Controlled Experiments MONREPOS Archaeological Research Centre and Museum for Human Behavioural Evolution Schloss Monrepos 56567 Neuwied, Germany +49 (0) 2631 9772-243 https://www.researchgate.net/profile/Ivan_Calandra On 02/04/2020 10:37, Jeff Newmiller wrote:
I recommend not using setwd. Then you can always assume your current
working directory is your project directory and reference relative to that.
On April 2, 2020 1:30:29 AM PDT, Ivan Calandra <calandra at rgzm.de>
wrote:
Dear useRs, I believe this is R code so appropriate for this list, but let me
know
if this relates more to RStudio itself. I am working on an RStudio project. In that project directory, I
have a
folder called 'analysis' and in there a folder called 'scripts'
('~/analysis/scripts').
My data files needed for the scripts are in '~/analysis/raw_data'
and
the output should be in '~/analysis/derived_data'. My scripts are Rmd files, so when I knit them, their working
directory
is where they are located, i.e. '~/analysis/scripts'. The problem I then have is to specify the path for 'raw_data' and 'derived_data' since during the rendering I am not relative to the project directory anymore. And these folders are not subfolders of the working directory? '~/analysis/scripts'. I hope I am clear here... I would like to avoid absolute paths of course, but I do not know
how
to proceed. What would be nice is a way to get the project directory in the scripts, rather than their working directory. Does that make sense? Thank you in advance Best, Ivan
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