[BlindRUG] R Questions

Sun Mar 7 02:04:12 UTC 2021

Regarding:

> 1. On windows, the default global R profile is part of the installation. Each time I update R, the profile is in the wrong place and needs moving. I did do that occasionally but that was years ago now.

So, you must have ended up editing the "site-wide" Rprofile one, that
comes with the R Windows installation, e.g.
C:/PROGRA~1/R/R-40~1.4/etc/Rprofile.site.  A good rule of thumb is to
never edit or add anything to the folder where R itself is installed.
I never had to do that during the two decades I've use R.

A better option is to use a folder-specific or a user-specific
.Rprofile file.  Those ones will survive R upgrades since they live
under you home folder.  When R starts, it looks for a .Rprofile file
in the following order: If .Rprofile exists in the current folder
where R is started, then that is sourced during the R startup process.
If that doesn't exist, then it looks for .Rprofile in your home
folder.   The latter is by far most commonly used one by people. BTW,
the format of this file must be a valid R script with a trailing
newline.  If you forget the newline at the end, R will silently ignore
the file (which is such an annoying misfeature).

One MS Windows, it is a bit confusing what R considers to be your home
folder.  It is not C:\Users\alice\ as one would expect.  Instead, it
is C:\Users\alice\Documents\.  That is vhere you want to put your
.Rprofile file in order for R to source it every time you start R
regardless from where you start R and regardless which version of R
you start.  The easiest way to find the exact location is to do the
following from within R:

> normalizePath("~/.Rprofile")
[1] "C:\\Users\\alice\\Documents\\.Rprofile"

That is the file you want to create.  I have such a file on my machine
and I had it there for many years.  I use it for different things,
e.g. tweaking the prompt, tweaking R option warnPartialMatchArgs=TRUE
to remind me to not use partial argument names, and so on.

Hope this helps,

Henrik

On Sat, Mar 6, 2021 at 3:03 PM Godfrey, Jonathan via BlindRUG
<blindrug at nfbnet.org> wrote:
>
> Hello Niels,
>
> I seldom adjust the R profile nowadays. I have several reasons.
>
> 1. On windows, the default global R profile is part of the installation. Each time I update R, the profile is in the wrong place and needs moving. I did do that occasionally but that was years ago now.
> 2. I might edit the copy of the r profile in a specific work folder, but again, the usefulness to me has reduced. The reason relates to your next question.
>
> You will not edit an R script from the R terminal. It is just a plain text file though so you could edit it using any text editor of your choosing. If you do this, you need to pull the script into the R session using `source()`, with the filename in the brackets as a quoted string. I do this very rarely nowadays.
>
> The use of R markdown has made the above all quite inefficient. I do practically all work inside an R markdown file because that speeds up the time to production of the final product I want to share. I only use the R prompt (terminal or GUI version) for little jobs or to get at help functionality.
>
> My data analysis workflow (today) is to
>
> 1. make a text file with the *.Rmd extension. I use WriteR and sometimes just plain old notepad. I might start from a blank file, a template, or sometimes using an old Rmd file that has a lot of what I want in it.
> 2. If using WriteR, I process to html using the f5 key.
> 3. if not using WriteR, I use rmarkdown::render() to process the file from the R terminal.
> 4. to see my results, I open (and keep it open)  the html file step 2 or 3 created, and refresh it as I update my Rmd file and re-process it. In most browsers that uses f5.
>
>
> I still use R script files for package development of course. There are some rare occasions when an analysis job involves very long processing times and those tend to be done using an R script too, but that's mostly old habits.
>
>
> HTH
> Jonathan
>
> -----Original Message-----
> From: BlindRUG <blindrug-bounces at nfbnet.org> On Behalf Of Niels Luithardt via BlindRUG
> Sent: Sunday, 7 March 2021 6:13 AM
> To: blindrug at nfbnet.org
> Cc: Niels Luithardt <niels.luithardt at googlemail.com>
> Subject: [BlindRUG] R Questions
>
> Hello,
>
> I have a few questions about the program R and hope you can help me.
>
> 1) Is it useful to customize the Rprofile file?
>
> 2) How can I open/run a script in RTerm?
>
> Kind regards
>
> Niels
>
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>
> Look for help using R commands by reading the accessible e-book "Let's Use R Now" compiled by Jonathan Godfrey at:
> http://R-Resources.massey.ac.nz/lurn/front.html
>
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> More information and useful links about using R as a blind person can be obtained at:
> http://R-Resources.massey.ac.nz
>
> Look for help using R commands by reading the accessible e-book "Let's Use R Now" compiled by Jonathan Godfrey at:
> http://R-Resources.massey.ac.nz/lurn/front.html