Questions tagged [cran]
For questions relating to the Comprehensive R Archive Network (CRAN), which serves as a central repository for R distributions and contributed packages. This tag is not for general R questions; use the [r] tag instead.
cran
862
questions
238
votes
11
answers
335k
views
How to select a CRAN mirror in R
I'm trying to install a package through the R prompt by doing the following:
install.packages('RMySQL')
But the output is as follows:
--- Please select a CRAN mirror for use in this session ---
...
- 2,589
132
votes
3
answers
71k
views
Set default CRAN mirror permanent in R
How can I set a specific CRAN mirror permanently in R?
I want to set it permanently in my laptop so that when I do install.packages(), it won't ask me again which mirror to choose.
- 10.3k
83
votes
2
answers
139k
views
How to tell CRAN to install package dependencies automatically?
I develop a package in R and when I check and build it in my local computer it works properly. But when I tried it in CRAN, I get a package dependencies error. My package depends on two functions of ...
- 985
72
votes
3
answers
10k
views
checking CRAN incoming feasibility ... NOTE Maintainer
When I run R CMD check --as-cran on my package, the one note I still get is:
checking CRAN incoming feasibility ... NOTE
Maintainer:[my name] <my email>
I can't seem to find a good ...
- 17.2k
62
votes
3
answers
42k
views
Offline install of R package and dependencies
Suppose I need to install a number of packages on a (Linux) machine that does not have an internet connection. Let's say that I downloaded a copy of cran and burned it on a DVD that I bring to the ...
- 32.6k
58
votes
5
answers
37k
views
Install a local R package with dependencies from CRAN mirror
I have built an R package, i.e. I have the mypackage.tar.gz file. This package depends on several other packages, all downloadable and installable from any CRAN mirror.
Now I want to install this ...
- 2,608
47
votes
2
answers
39k
views
Update a specific R package and its dependencies
I have around 4000 R packages installed in my system (a server) and most of them are outdated because they were built before R-3.0.0. Now I know
update.packages(checkBuilt=TRUE, ask=FALSE)
would ...
- 582
47
votes
1
answer
2k
views
How to get an rmarkdown vignette for R package to escape CRAN warnings on Solaris and OSX
I have a couple of R packages on CRAN that have warnings against Solaris (and sometimes OSX) that are related to pandoc not being available for the vignette build. For example, here are the ggseas ...
- 5,814
39
votes
2
answers
10k
views
R: apt-get install r-cran-foo vs. install.packages("foo")
When installing R packages (say mcmcpack in this example) under Ubuntu I have the choice between the following two methods of installation:
# Let the distribution's packaging system take care of ...
- 49.7k
38
votes
5
answers
13k
views
Warning "downloaded length != reported length" in installing packages from CRAN
Searching on stackoverflow questions, I found out this link:
Error in file.download when downloading custom file .
However, my case is a little bit different (I think):
1) I get this annoying ...
- 2,761
37
votes
3
answers
22k
views
Check how many downloads a CRAN package has?
How can I get simple download metrics for an R package on CRAN?
I recently released my own package on CRAN and I want to monitor it a bit.
- 21.1k
37
votes
2
answers
5k
views
NOTE in R CRAN Check: No repository set, so cyclic dependency check skipped
As of R 3.1.0 I get the following R check:
* checking package dependencies ... NOTE
No repository set, so cyclic dependency check skipped
I tried this advice: https://twitter.com/phylorich/status/...
- 109k
36
votes
1
answer
1k
views
makePSOCKcluster hangs on win x64 after calling system
I am experiencing a hard to debug problem with makePSOCKcluster from the parallel package on R x64 on Windows. It does not happen on R i386 on Windows, nor on any OSX or Linux. Unfortunately it does ...
- 32.6k
35
votes
2
answers
12k
views
R CMD check --as-cran warning
I am trying to do R CMD check before uploading my package to CRAN.
R CMD check --as-cran "my package folder".
However, it spits out this warning:
"checking for unstated dependencies in examples ... ...
- 351
32
votes
3
answers
5k
views
How do I add a Changelog or NEWS file to my R package?
I have a package on CRAN that I would like to add a ChangeLog for, but I cannot find information anywhere on how to do this.
I looked on the "Writing R Extensions" document that CRAN provides, but it ...
- 6,662
32
votes
4
answers
2k
views
How to satisfy both CRAN and Github license file naming requirements
(NOTE: This question includes the word "license". But let's be clear: this question is not asking for licensing advice. It is asking how to simultaneously satisfy the file naming requirements of "...
- 59.5k
31
votes
2
answers
2k
views
How can a test script inform R CMD check that it should emit a custom message?
I'm writing a R package (delftfews) here at office. we are using svUnit for unit testing.
our process for describing new functionality: we define new unit tests, initially marked as DEACTIVATED; ...
- 9,648
30
votes
7
answers
74k
views
Installing an R package from local unzipped folder
I am having difficulty installing an unzipped package on a Windows 7 computer without administrative privileges and no internet access. I am using the RGui (not RStudio).
Right now I have an unzipped ...
- 778
30
votes
2
answers
3k
views
CRAN check warning: Dependence on R version '3.4.3' not with patchlevel 0
I am submitting my R package to CRAN, and am receiving a warning from the CRAN servers that does not appear when I run R CMD CHECK --as-cran locally on the package tarball prior to uploading to CRAN. ...
- 325
30
votes
5
answers
5k
views
Disable/suppress tcltk popup for CRAN mirror selection in R
My question is similar to a question previously posted but never really answered here:
Disable GUI, graphics devices in R
I do not like the R tcltk popups for CRAN mirror selection. They also pop up ...
- 3,173
30
votes
1
answer
3k
views
Making non-ASCII data suitable for CRAN
I have some data that contains non-ASCII characters, that I want to include as an rda file in an R package. When I run an R CMD check on the package, I get a warning:
Warning: found non-ASCII ...
- 120k
28
votes
2
answers
4k
views
Using un-exported function from another R package?
I often use utility type functions from other packages that are un-exported:
pkg:::fun(). I am wondering if I can use such a function within new functionality/scope in my own R package. What is the ...
- 765
25
votes
1
answer
17k
views
R `parallel` package does not exist on CRAN?
I tried to google "r package parallel" but I have not found it on CRAN. I also tried the following links, but they do not work:
http://cran.r-project.org/web/packages/parallel/index.html
http://cran....
- 58.8k
25
votes
3
answers
3k
views
Using a static (prebuilt) PDF vignette in R package
What is the proper way, to include a static PDF file as a "vignette" in a CRAN package as of R 3.0?
The trick described in this document of using an empty stub Rnw does not seem to work in R 3.0. ...
- 32.6k
24
votes
1
answer
4k
views
Computationally heavy R vignettes
I'm currently converting an JSS article, which uses knitr, to an R package vignette. However, I'm in doubt on the vignette placement, structure, and how I should handle the very long computation times ...
- 10.2k
23
votes
4
answers
7k
views
Package dependencies when installing from source in R
Just confirming: If I distribute my R package as ZIP/TAR then installing the package will not automatically download/install dependencies because I have to set repos = NULL in install.packages() and ...
- 36.2k
22
votes
5
answers
28k
views
How to update all packages for a new R version quickly and easily?
Suppose I have R version 3.x.x installed, and I upgrade to version 4.x.x, is there any quick/easy way to install all the new versions of the libraries I had installed?
Please assume all the packages ...
- 48.3k
22
votes
2
answers
4k
views
Where to put package vignettes for CRAN submission?
From the Writing R Extensions Manual, I read that
As from R 2.14.0 the preferred location for the Sweave sources is the
subdirectory vignettes of the source packages, but for compatibility
with ...
- 144k
22
votes
4
answers
61k
views
R: "make" not found when installing a R-package from local tar.gz
The R Package ConvCalendar is not on Cran repository anymore (see here).
However, because I have intensively used this package for previous projects, it would be nice to have it installed on my ...
- 472
22
votes
0
answers
4k
views
Security issues with CRAN packages [closed]
[ Edit: June 2013 ] A paper has appeared on ArXiv describing this issue in greater detail, and suggesting some solutions: http://arxiv.org/abs/1303.4808. It will appear in the Journal of Statistical ...
- 32.6k
21
votes
3
answers
2k
views
'LazyData' is specified without a 'data' directory error when submitting R package to CRAN
When I run devtools::check on my package locally, I don't get this error, but when I submit my package to CRAN, or when I run devtools::check_win_devel, I get this error:
'LazyData' is specified ...
- 497
21
votes
3
answers
2k
views
How to install and manage many versions of R packages
I am developing a framework for reproducible computing with R. One problem that I am struggling with is that some R code might run perfectly in version X.Y-Z of a package, but then why you try to ...
- 32.6k
20
votes
2
answers
9k
views
Warning: replacing previous import ‘head’ when loading ‘utils’ in R
When loading the RTextTools package from CRAN, I get the following warnings:
Warning messages:
1: replacing previous import ‘head’ when loading ‘utils’
2: replacing previous import ‘tail’ when ...
- 918
20
votes
5
answers
6k
views
Detecting geographic clusters
I have a R data.frame containing longitude, latitude which spans over the entire USA map. When X number of entries are all within a small geographic region of say a few degrees longitude & a few ...
- 1,943
19
votes
3
answers
3k
views
R 2.14 - detect packages without namespace
According to the R News for v2.14:
All packages must have a namespace, and one is created on
installation if not supplied in the sources. This means that any
package without a ...
- 36.2k
19
votes
4
answers
12k
views
Names of R's available packages
I'm eager to know,
how many package names on CRAN have two, three, N characters?
which combinations have not yet been used ("unpoppler")
how many package names use full-caps, or camelCase?
how many ...
- 76.7k
19
votes
5
answers
6k
views
R check warning: Files in the 'vignettes' directory but no files in 'inst/doc'
Lately I get a warning for my vignette on Win R Development Version when doing a cran check.
Files in the 'vignettes' directory but no files in 'inst/doc'
This warning only appears with the Win ...
- 7,562
19
votes
5
answers
68k
views
Installing packages onto R
For some reason I am suddenly not able to install packages in R (I have subsequently updated to the latest version of R and am running Windows 7). For example, if I type:
install.packages('beeswarm')
...
- 191
19
votes
3
answers
2k
views
Include non-CRAN package in CRAN package
The question is pretty simple. First:
Is it possible to include a non-CRAN (or bioconductor, or omega hat) package in a CRAN package and actually use tools from that package in examples.
If yes how ...
- 109k
18
votes
6
answers
39k
views
Installing all CRAN packages that are not already installed?
The following R commands will install all CRAN packages:
availablePackages <- available.packages()[,1]
install.packages(availablePackages)
And the following command will list all installed ...
- 49.7k
18
votes
1
answer
4k
views
What are the steps in submitting an R-package to CRAN and how long does each step take? [closed]
I have noticed that once submitted to incoming (ftp://cran.r-project.org/incoming) the package name receives the following suffixes .save, .pending and .noemail. Then, the package disappears from ...
- 604
17
votes
3
answers
2k
views
Transferring maintainership of an R package on CRAN
I will be taking over the active development and maintaining of an R package on CRAN (of course with approval of the current maintainer). What are the necessary steps to make this happen / Should we ...
- 923
17
votes
6
answers
2k
views
Online Tool for Cran checks
Even when I am afraid to be a bit off-topic, but I am not sure where else to ask this, sorry!
I am developing my R-package using a Linux system, hence I can run the R CMD check --as-cran command ...
- 3,340
17
votes
5
answers
1k
views
How to make a CRAN package to download data only once regardless of OS?
The CRAN policy limits R package size to 5 Mb, which is little for graphical applications such as mapping. There are multiple ways of handling the package size limitations, all of which come with ...
- 7,680
17
votes
1
answer
764
views
Are there any R package repository management tools?
I'm creating a custom R package repository and would like to replicate the CRAN archive structure whereby old versions of packages are stored in the src/contrib/Archive/packageName/directory. I'd like ...
- 4,469
17
votes
1
answer
253
views
raise a NOTE exception during R CMD check
Is there any way I could raise my own NOTE exception from within the unit tests in the checking tests ... step of R CMD check?
In general I would like to have a NOTE in 00check.log if database was not ...
- 16.6k
16
votes
7
answers
37k
views
Error ".onLoad failed in loadNamespace() for 'tcltk'"
I have a general question about how to effectively load any kind of external package into R. I have found that many sources detailing this information are simply insufficient, but I will leave out ...
- 2,984
15
votes
4
answers
6k
views
Greatest distance between set of longitude/latitude points
I have a set of lng/lat coordinates. What would be an efficient method of calculating the greatest distance between any two points in the set (the "maximum diameter" if you will)?
A naive way is to ...
- 32.6k
15
votes
1
answer
20k
views
closing unused RODBC handle
I have been receiving a Warning Message:
`historicalHourly <- importHistoricalHourly(startDatePast,endDatePast,Markets,location)
[1] "Importing Hourly Data"
[1] "Flag - Moving from ...
- 171
15
votes
2
answers
1k
views
CRAN notes that files cannot be checked without ‘pandoc’ being installed
In doing final checks on a CRAN package submission, this NOTE comes up:
* checking top-level files ... NOTE
Files ‘README.md’ or ‘NEWS.md’ cannot be checked without ‘pandoc’ being installed.
However,...
- 1,228