On 6/4/20 8:43 AM, mco...@ima.udg.edu wrote:
Hi,
After loading R 4.0.0 on Ubuntu 20.04.
R version 4.0.0 (2020-04-24) -- "Arbor Day"
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Platform: x86_64-pc-linux-gnu (64-bit)
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and with the following session information:
> sessionInfo()
R version 4.0.0 (2020-04-24)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 20.04 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3
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
loaded via a namespace (and not attached):
[1] compiler_4.0.0
I try to install package `mclust`. R gets stuck when preparing for lazy
loading:
> install.packages('mclust')
Installing package into ‘/home/marc/R/x86_64-pc-linux-gnu-library/4.0’
(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-Do_dS_/r-base-4.0.0=.
-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-Do_dS_/r-base-4.0.0=.
-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-Do_dS_/r-base-4.0.0=.
-fstack-protector-strong -c
mclust.f -o mclust.o
gfortran -fno-optimize-sibling-calls -fpic -g -O2
-fdebug-prefix-map=/build/r-base-Do_dS_/r-base-4.0.0=.
-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
/home/marc/R/x86_64-pc-linux-gnu-library/4.0/00LOCK-mclust/00new/mclust/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
I have wait for all night, but the installation is still stuck at the
same point. Does
anybody know how to solve this?
It does build, as the c2d4u4.0 PPA
(https://launchpad.net/~c2d4u.team/+archive/ubuntu/c2d4u4.0+) has the
package. So one option is to install the package from there.
If you upgraded to R 4.0 from 3.5, make sure you re-install all your old
packages against 4.0. You can look over the buildlog (if you have a
launchpad account) for mclust on c2d4u4.0 here:
https://launchpad.net/~c2d4u.team/+archive/ubuntu/c2d4u4.0+/+build/19271073/+files/buildlog_ubuntu-focal-amd64.mclust_5.4.6-1cran1.2004.0_BUILDING.txt.gz
That might give you some ideas where the hang-up is. I suspect this is
unique to the combination of packages you have installed on your machine.
Michael
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