* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘sequoia’ ...
** this is package ‘sequoia’ version ‘3.2.0’
** package ‘sequoia’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.3.0-10) 14.3.0’
using Fortran compiler: ‘GNU Fortran (Debian 14.3.0-10) 14.3.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKEgZNn/R.INSTALL1272937e4accd9/sequoia/src'
gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c MkRelA.f90 -o MkRelA.o
gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c Sequoia.f90 -o Sequoia.o
Sequoia.f90:11229:55:
11229 | logical :: AncOK, fclsib, MaybeOpp, ParOK, ParAisBClone
| 1
Warning: Unused variable ‘paraisbclone’ declared at (1) [-Wunused-variable]
gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c SimGenoErrors.f90 -o SimGenoErrors.o
gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c countpairOH.f90 -o countpairOH.o
gfortran-14 -fpic -g -O2 -Wall -pedantic -mtune=native -c ester.f90 -o ester.o
gcc-14 -std=gnu23 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o
gcc-14 -std=gnu23 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c pretty_R_print.c -o pretty_R_print.o
gcc-14 -std=gnu23 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o sequoia.so MkRelA.o Sequoia.o SimGenoErrors.o countpairOH.o ester.o init.o pretty_R_print.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKEgZNn/R.INSTALL1272937e4accd9/sequoia/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpKEgZNn/R.INSTALL1272937e4accd9/sequoia/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpKEgZNn/R.INSTALL1272937e4accd9/sequoia/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-sequoia/00new/sequoia/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘sequoia’
finding HTML links ... done
CalcBYprobs html
CalcMaxMismatch html
CalcOHLLR html
CalcPairLL html
CalcParentProbs html
CalcRped html
CheckGeno html
ComparePairs html
Conf_griffin html
CountOH html
DyadCompare html
ErrToM html
Err_RADseq html
EstConf html
FieldMums_griffin html
FindFamilies html
GenoConvert html
Geno_HSg5 html
Geno_griffin html
GetAncestors html
GetDescendants html
GetLLRAge html
GetMaybeRel html
GetRelM html
Inherit_patterns html
LHConvert html
LH_HSg5 html
LH_griffin html
LLtoProb html
MakeAgePrior html
MaybeRel_griffin html
MkGenoErrors html
PedCompare html
PedPolish html
PedStripFID html
Ped_HSg5 html
Ped_griffin html
PlotAgePrior html
PlotPairLL html
PlotPedComp html
PlotPropAssigned html
PlotRelPairs html
PlotSeqSum html
SeqOUT_HSg5 html
SeqOUT_griffin html
SimGeno html
SimGeno_example html
SnpStats html
SummarySeq html
getAssignCat html
getGenerations html
sequoia html
writeColumns html
writeSeq html
** 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 (sequoia)