* installing *source* package ‘marked’ ...
** this is package ‘marked’ version ‘1.2.8’
** package ‘marked’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
using Fortran compiler: ‘GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/marked/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c bayesCR.cpp -o bayesCR.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjs.f -o cjs.o
cjs.f:9:25:
9 | DOUBLE PRECISION X,Y
| 1
Warning: Unused variable ‘x’ declared at (1) [-Wunused-variable]
cjs.f:9:27:
9 | DOUBLE PRECISION X,Y
| 1
Warning: Unused variable ‘y’ declared at (1) [-Wunused-variable]
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjs1tldmat.f -o cjs1tldmat.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjs1tlgam.f -o cjs1tlgam.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjs2tldmat.f -o cjs2tldmat.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjs2tlgam.f -o cjs2tlgam.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjsdmat.f -o cjsdmat.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c cjsgamma.f -o cjsgamma.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c hmm_like.f -o hmm_like.o
gcc -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I/usr/local/include -fpic -g -O2 -Wall -pedantic -mtune=native -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -Werror=implicit-function-declaration -Wstrict-prototypes -c init.c -o init.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c ms2gamma.f -o ms2gamma.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c msdmat.f -o msdmat.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c msgamma.f -o msgamma.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c mvmsdmat.f -o mvmsdmat.o
mvmsdmat.f:1:49:
1 | SUBROUTINE MVMSP(P,DELTA,N,M,F,T,NP,NOBS,PCOUNTS,INDICES,
| 1~~~~~~
Warning: Unused dummy argument ‘pcounts’ at (1) [-Wunused-dummy-argument]
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c ums2dmat.f -o ums2dmat.o
gfortran -fpic -g -O2 -mtune=native -Wall -pedantic -c umsdmat.f -o umsdmat.o
'LdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
'RcppLdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o marked.so bayesCR.o cjs.o cjs1tldmat.o cjs1tlgam.o cjs2tldmat.o cjs2tlgam.o cjsdmat.o cjsgamma.o hmm_like.o init.o ms2gamma.o msdmat.o msgamma.o mvmsdmat.o ums2dmat.o umsdmat.o -lgfortran -lm -lquadmath
'LdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
'RcppLdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/marked/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/marked/src'
'LdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
'RcppLdFlags' has not been needed since 2013 (!!) and may get removed in 2027. Please update your 'Makevars'.
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/marked/src'
installing to /data/gannet/ripley/R/packages/tests-devel/marked.Rcheck/00LOCK-marked/00new/marked/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (marked)