Please (re)read the Posting guide, which says that this mailing list is
for questions about the R language and not about compiling issues, and
then go to r-sig-debian to look for more expertise.
FYI I don't have Ubuntu 20.04, but I had no trouble installing mclust
5.4.6 with R4.0.1 on Ubuntu 18.04, so your problem is a specific
interaction with your OS (or how you have your OS configured).
sessionInfo()
R version 4.0.1 (2020-06-06)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.4 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] mclust_5.4.6
loaded via a namespace (and not attached):
[1] compiler_4.0.1 tools_4.0.1
On Wed, 17 Jun 2020, Venkatesh Prasad Ranganath wrote:
Hey Bert,
Since the process stalls during byte-compilation and package preparation, I
am thinking the issue is likely due to R and not the Ubuntu platform. If
you think otherwise, then can you please say you think so? Also, is there
a way to trace/debug the package build process?
The same action via "R CMD INSTALL --no-byte-compile" and "R CMD INSTALL
--no-staged-install" also results in a hang (except the absence of
"byte-compile and" in the output when --no-byte-compile option is
specified).
Cheers,
Venkatesh-Prasad Ranganath
On Wed, Jun 17, 2020 at 1:40 PM Bert Gunter <bgunter.4...@gmail.com> wrote:
Probably better posted on R-sig-debian.
Bert Gunter
"The trouble with having an open mind is that people keep coming along and
sticking things into it."
-- Opus (aka Berkeley Breathed in his "Bloom County" comic strip )
On Wed, Jun 17, 2020 at 11:33 AM Venkatesh Prasad Ranganath <
rvpra...@cis.ksu.edu> wrote:
Hey All,
When I execute 'Rscript -e "install.packages('mclust')"` with R 4.0.1 on
Ubuntu 20.04, the process hangs during package preparation. Any idea how
to fix or debug this issue?
Venkatesh-Prasad Ranganath
-----------------------------------------
ENV: R v4.0.1, GCC v9, Ubuntu v20.04
CMD: Rscript -e "install.packages('mclust')"
OUTPUT:
Installing package into ?/usr/local/lib/R/site-library?
(as ?lib? is unspecified)
trying URL 'https://cloud.r-project.org/src/contrib/mclust_5.4.6.tar.gz'
Content type 'application/x-gzip' length 2877519 bytes (2.7 MB)
==================================================
downloaded 2.7 MB
* installing *source* package ?mclust? ...
** package ?mclust? successfully unpacked and MD5 sums checked
** using staged installation
** libs
gfortran -fno-optimize-sibling-calls -fpic -g -O2
-fdebug-prefix-map=/build/r-base-dEscXG/r-base-4.0.1=.
-fstack-protector-strong -c dmvnorm.f -o dmvnorm.o
gcc -std=gnu99 -I"/usr/share/R/include" -DNDEBUG -fpic -g -O2
-fdebug-prefix-map=/build/r-base-dEscXG/r-base-4.0.1=.
-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
-D_FORTIFY_SOURCE=2 -g -c init.c -o init.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2
-fdebug-prefix-map=/build/r-base-dEscXG/r-base-4.0.1=.
-fstack-protector-strong -c mclust.f -o mclust.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2
-fdebug-prefix-map=/build/r-base-dEscXG/r-base-4.0.1=.
-fstack-protector-strong -c mclustaddson.f -o mclustaddson.o
gcc -std=gnu99 -shared -L/usr/lib/R/lib -Wl,-Bsymbolic-functions
-Wl,-z,relro -o mclust.so dmvnorm.o init.o mclust.o mclustaddson.o
-llapack
-lblas -lgfortran -lm -lquadmath -lgfortran -lm -lquadmath
-L/usr/lib/R/lib
-lR
installing to
/usr/local/lib/R/site-library/00LOCK-mclust/00new/mclust/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
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