Cannot build CRAN version on Archlinux

[adrfantini]

It seems I cannot build the latest version of polyclip from CRAN:

polyclip  (1.9-1        -> 1.10-0      ) [CRAN]

* installing *source* package ‘polyclip’ ...
** package ‘polyclip’ successfully unpacked and MD5 sums checked
compiling under C++11
checking whether the C++ compiler works... no
configure: error: in `/tmp/RtmpBWZVcr/R.INSTALL5a5c1b30658f/polyclip':
configure: error: C++ compiler cannot create executables
See `config.log' for more details
ERROR: configuration failed for package ‘polyclip’

All other packages get built properly, do you have any idea why this version cannot compile? My system (ArchLinux) is up to date, using gcc 8.2.1+20181127-1.

EDIT: cannot build GH version either:

Downloading GitHub repo baddstats/polyclip@master
✔  checking for file ‘/tmp/RtmpOQ14Nf/remotes7b0f46cf3775/baddstats-polyclip-b761add/DESCRIPTION’ ...
─  preparing ‘polyclip’:
✔  checking DESCRIPTION meta-information ...
─  cleaning src
─  running ‘cleanup’
─  checking for LF line-endings in source and make files and shell scripts
─  checking for empty or unneeded directories
─  building ‘polyclip_1.10-0.tar.gz’
   
Installing package into ‘/home/adriano/.R_libs’
(as ‘lib’ is unspecified)
* installing *source* package ‘polyclip’ ...
compiling under C++11
checking whether the C++ compiler works... no
configure: error: in `/tmp/RtmpK9z9GQ/R.INSTALL75a631b8e67c/polyclip':
configure: error: C++ compiler cannot create executables
See `config.log' for more details
ERROR: configuration failed for package ‘polyclip’

[baddstats]

The report says that the config.log contains more details. Please attach the config.log

The report says that the C++ compiler cannot create files (presumably because it does not have permission).

[adrfantini]

I understand this, but there is no config.log inside the indicated /tmp/... folder. Where should I be able to find it?

[baddstats]

I have no idea. Try manually downloading the polyclip tar file and manually installing it.
Or consult someone who understands the Archlinux system.

[adrfantini]

I installed polyclip successefully by running R with sudo, so it's a permission problem. No other package seems to show the same behaviour, tho.

Here is the install output:

* installing *source* package ‘polyclip’ ...
** package ‘polyclip’ successfully unpacked and MD5 sums checked
compiling under C++11
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ -std=gnu++11 accepts -g... yes
Using PKG_CONFIG: pkgconf
Compiling against bundled copy of clipper library.
     In the clipper library, signed 64-bit integers (cInt)
     will be declared as 'signed long long'
     In the clipper library, unsigned 64-bit integers (cUInt)
     will be declared as 'unsigned long long'
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -I"/usr/include/R/" -DNDEBUG -DPOLYCLIP_LONG64="signed long long" -DPOLYCLIP_ULONG64="unsigned long long"  -D_FORTIFY_SOURCE=2   -fpic  -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fno-plt  -c init.c -o init.o
g++ -std=gnu++11 -I"/usr/include/R/" -DNDEBUG -DPOLYCLIP_LONG64="signed long long" -DPOLYCLIP_ULONG64="unsigned long long"  -D_FORTIFY_SOURCE=2  -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fno-plt -fpic  -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fno-plt -c interface.cpp -o interface.o
g++ -std=gnu++11 -I"/usr/include/R/" -DNDEBUG -DPOLYCLIP_LONG64="signed long long" -DPOLYCLIP_ULONG64="unsigned long long"  -D_FORTIFY_SOURCE=2  -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fno-plt -fpic  -march=x86-64 -mtune=generic -O2 -pipe -fstack-protector-strong -fno-plt -c clipper.cpp -o clipper.o
g++ -std=gnu++11 -shared -L/usr/lib64/R/lib -Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o polyclip.so init.o interface.o clipper.o -L/usr/lib64/R/lib -lR
installing to /home/adriano/.R_libs/polyclip/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (polyclip)

Feel free to close if you want to.

[gowachin]

Same issue on Ubuntu 18.04, but does not work with 'sudo R'.
No config.log to found on my system...

[baddstats]

This is not quite the same issue, because it is not fixed by using sudo R.

Does the error message say "C++ compiler cannot create executables"?

If so, then this problem is not caused by the polyclip package, but is related to the R installation and the system permissions.

[gowachin]

> install.packages('polyclip')
Installation du package dans ‘whatever_my_folder/R/x86_64-pc-linux-gnu-library/3.4’
(car ‘lib’ n'est pas spécifié)
essai de l'URL 'https://cloud.r-project.org/src/contrib/polyclip_1.10-0.tar.gz'
Content type 'application/x-gzip' length 79619 bytes (77 KB)
==================================================
downloaded 77 KB

   Welcome to R!

* installing *source* package ‘polyclip’ ...
** package ‘polyclip’ correctement décompressé et sommes MD5 vérifiées
compiling under C++11
checking whether the C++ compiler works... no
configure: error: in `/tmp/RtmpqJIrOr/R.INSTALL1e3d740cecc1/polyclip':
configure: error: C++ compiler cannot create executables
See `config.log' for more details
ERROR: configuration failed for package ‘polyclip’
* removing ‘whatever_my_folder/R/x86_64-pc-linux-gnu-library/3.4/polyclip’

Les packages source téléchargés sont dans
	‘/tmp/Rtmp1BbZ0C/downloaded_packages’
Warning message:
In install.packages("polyclip") :
  l'installation du package ‘polyclip’ a eu un statut de sortie non nul

I don't understand where it's failing, as other packages compile nice. And I tested this lignes in R, and it worked...so I guess you can close it now. I really don't understand how, but as it works \o/

library(devtools)
install("polyclip")

[rubak]

@gowachin Just out of curiosity can you install other packages that compile C++ code from source without problems? E.g.

install.packages("nloptr", type = "source")

[gowachin]

@rubak It works without problems

[rubak]

This is quite strange. And you say it also works without any problems when you use devtools::install()? I really don't see any good reason why this should work while install.packages() doesn't. What if you download the tar.gz source from CRAN first and then install directly from that file?

install.packages("polyclip_1.10-0.tar.gz", repos = NULL)

[gowachin]

It works with devtools::install(), but it doesn't work with install.packages() (wether i use 'polyclip' or your line) and return :

compiling under C++11
checking whether the C++ compiler works... no

I don't know a lot a stuff about R, but yeah, really strange.

[darachm]

I've got the same behavior as gowachin, plus a minor observation.

Running this on 18.04 Ubuntu, I can't install via install.packages() from CRAN or from local tgz file. Running R CMD INSTALL on the tgz from the command line didn't work, nor did a sudo R CMD INSTALL. These all fail and report that checking whether the C++ compiler works... no .

Downloading, un-compressing the package to a polyclip folder, then running devtools::install("polyclip") from either interactive session or from Rscript will install the package nicely.

The error appears to come from the configure file in the archive. If I extract the archive, then run configure, it runs fine outside of R. It is only in the context of R's install.packages() that it can't find the right compiler. Weird.

[ismailsunni]

I got the same problem when I try to install polyclip on MRO inside Ubuntu 18.04 docker container. I can install it by using @darachm 's way.

wget https://cran.r-project.org/src/contrib/polyclip_1.10-0.tar.gz
tar -zxvf polyclip_1.10-0.tar.gz
Rscript -e "library('devtools'); devtools::install('polyclip')"