[R] encountered errors while installing additional packages

[Jeff Newmiller]

This is a mailing list, not a web forum. The only way to "mark it as solved" is to send another message that indicates that, preferably with a usable summary of how you resolved it.

I am not sure what your point of comparison is for declaring incompatibilities is, but R _is_ a CLI program. An IDE like RStudio is normally interacting with the CLI for you so there are very few things that work differently between GUI and CLI (packages is not one of them, things like View and help are).

Best results are usually obtained on Ubuntu derivatives by following the instructions for the nearest Ubuntu version on CRAN [1]. There is also a mailing list for debian derivatives r-sig-debian. Once base R is working, always manage your package libraries as an individual user unless you really know what you are doing (don't use sudo for R packages).

Note that each minor version of R (x.y) gets its own set of packages, and complex package interdependencies such as tidyverse seem to break unless you get all of the dependencies installed in order. Some of those dependencies have system requirements that have to be installed with apt, so sometimes one has to install packages one at a time and read the CRAN package descriptions to get them working. Tidyverse can also be brittle under older versions of R, so the standard Mint packages may not be new enough depending on which packages you need to use.

[1] https://cran.r-project.org/bin/linux/ubuntu/README.html

On July 13, 2019 10:47:24 AM CDT, gvsa123 <gvsa123 using gmail.com> wrote:
>Thank for the reply Jeff! I got a notice that my post needed moderator 
>approval, so I wasn't sure where and how I can mark it as solved.
>
>I uninstalled everything first, and realized I could get all of the 
>additional packages I needed off the Mint repos, and everything worked 
>well from thereon. Initially I had installed R from the Mint repos and 
>then used CLI to install additional packages. That's when the problem 
>occurred. I knew from my last system, that everything worked with no 
>glitches, so I was trying to figure out what I did differently this
>time 
>(it was the CLI). I guess there were incompatibilities with versions?
>
>On 2019-07-13 4:30 a.m., Jeff Newmiller wrote:
>> These are the wrong diagnostics, and it looks to me like the packages
>you are trying to install are unrelated.
>>
>> Try installing one package and show us the output that follows that
>request, not the warnings. Mention if you are using as any elevated
>privileges and give the output of sessionInfo().
>>
>> Note that the curl package has system requirements [1] that must be
>addressed outside of R before that package can be installed.
>>
>> What do you mean by "I know this worked for me before. Not sure what
>went wrong this time." What changed between then and now? New computer?
>New version of R? Upgraded  OS?
>>
>> [1] https://cran.r-project.org/web/packages/curl/index.html
>>
>> On July 12, 2019 8:53:26 AM PDT, gvsa123 <gvsa123 using gmail.com> wrote:
>>> Hi there. I need help trying to figure out why R won't see the
>>> additional packages I installed while working on text (e.g. tm,
>>> stringr,
>>> wordcloud)
>>>
>>> I know I got some errors along the way, and tried solutions to
>direct R
>>>
>>> to my local directory but to no avail... I'm not sure what kind of
>>> output is needed to help me but here is what warnings() give out:
>>>
>>>>> warnings()
>>>> Warning messages:
>>>> 1: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘curl’ had non-zero exit status
>>>> 2: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘sys’ had non-zero exit status
>>>> 3: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘digest’ had non-zero exit status
>>>> 4: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘rlang’ had non-zero exit status
>>>> 5: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘Rcpp’ had non-zero exit status
>>>> 6: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘slam’ had non-zero exit status
>>>> 7: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘filehash’ had non-zero exit status
>>>> 8: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘Rpoppler’ had non-zero exit status
>>>> 9: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘SnowballC’ had non-zero exit status
>>>> 10: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘askpass’ had non-zero exit status
>>>> 11: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘xml2’ had non-zero exit status
>>>> 12: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘antiword’ had non-zero exit status
>>>> 13: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘testthat’ had non-zero exit status
>>>> 14: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘qpdf’ had non-zero exit status
>>>> 15: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘tm’ had non-zero exit status
>>>> 16: In install.packages("tm", dependencies = TRUE) :
>>>>    installation of package ‘pdftools’ had non-zero exit status
>>> Any ideas? I know this worked for me before. Not sure what went
>wrong
>>> this time. Only thing I can think of is the installation saying that
>>> the
>>> directory was not writeable, so I said 'yes' to install in my
>personal
>>> folder. Created the .Renviron to point to my personal directory and
>it
>>> shows in the list when running .libPath()
>>>
>>> Thanks.
>>>
>>> ______________________________________________
>>> R-help using r-project.org mailing list -- To UNSUBSCRIBE and more, see
>>> https://stat.ethz.ch/mailman/listinfo/r-help
>>> PLEASE do read the posting guide
>>> http://www.R-project.org/posting-guide.html
>>> and provide commented, minimal, self-contained, reproducible code.

-- 
Sent from my phone. Please excuse my brevity.