Hey Jeff, Thanks for confirming the package could be built and installed on Ubuntu 18.04. I will pose the question to the SIG.
Cheers, Venkatesh-Prasad Ranganath http://rvprasad.com On Wed, Jun 17, 2020 at 3:39 PM Jeff Newmiller <jdnew...@dcn.davis.ca.us> wrote: > 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 > >>> > >>> [[alternative HTML version deleted]] > >>> > >>> ______________________________________________ > >>> R-help@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. > >>> > >> > > > > [[alternative HTML version deleted]] > > > > ______________________________________________ > > R-help@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. > > > > --------------------------------------------------------------------------- > Jeff Newmiller The ..... ..... Go Live... > DCN:<jdnew...@dcn.davis.ca.us> Basics: ##.#. ##.#. Live > Go... > Live: OO#.. Dead: OO#.. Playing > Research Engineer (Solar/Batteries O.O#. #.O#. with > /Software/Embedded Controllers) .OO#. .OO#. rocks...1k > --------------------------------------------------------------------------- > [[alternative HTML version deleted]] ______________________________________________ R-help@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.
