* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘sequoia’ ...
** package ‘sequoia’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-24) 13.2.0’
using Fortran compiler: ‘GNU Fortran (Debian 13.2.0-24) 13.2.0’
make[1]: Entering directory '/tmp/RtmpEZaifc/R.INSTALL2774884d4f99f9/sequoia/src'
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c MkRelA.f90 -o MkRelA.o
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c Sequoia.f90 -o Sequoia.o
Sequoia.f90:6291:45:
6291 | Bj, w, l, x, g, y, z, i, r,u,j,e,Ei,m, catX, PAx, DoQuickB
| 1
Warning: Unused variable ‘catx’ declared at (1) [-Wunused-variable]
Sequoia.f90:9214:87:
9214 | integer :: x, j, fsx(maxSibSize), k,m,r, nCG(2,2), candGP(mxCP,2,2), SAB(2), ix, xx(10)
| 1
Warning: Unused variable ‘xx’ declared at (1) [-Wunused-variable]
Sequoia.f90:1179:42:
1179 | double precision :: IndBYtmp(1:nYears,2,5)
| 1
Warning: Unused variable ‘indbytmp’ declared at (1) [-Wunused-variable]
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c SimGenoErrors.f90 -o SimGenoErrors.o
gfortran-13 -fpic -g -O2 -Wall -mtune=native -c ester.f90 -o ester.o
gcc-13 -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-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o sequoia.so MkRelA.o Sequoia.o SimGenoErrors.o ester.o init.o -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpEZaifc/R.INSTALL2774884d4f99f9/sequoia/src'
make[1]: Entering directory '/tmp/RtmpEZaifc/R.INSTALL2774884d4f99f9/sequoia/src'
make[1]: Leaving directory '/tmp/RtmpEZaifc/R.INSTALL2774884d4f99f9/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
CalcCorners html
CalcMaxMismatch html
CalcOHLLR html
CalcPairLL html
CalcRped html
CheckAP html
CheckGeno html
CheckLH html
CheckParams html
ComparePairs html
Conf_griffin html
CountAgeDif html
DoErrors html
DuplicateCheck html
DyadCompare html
ErrToM html
EstConf html
EstEr html
FieldMums_griffin html
FindFamilies html
FoldSibGPs html
FortifyPairs html
GenoConvert html
Geno_HSg5 html
Geno_griffin html
GetAncestors html
GetDescendants html
GetDummifiable html
GetLLRAge html
GetMaybeRel html
GetRelA html
GetRelM html
Inherit_patterns html
LHConvert html
LH_HSg5 html
LH_griffin html
LLRplot html
MakeAgePrior html
MaybeRel_griffin html
MergeFill html
MkAPdefault html
MkFortParams html
MkGenoErrors html
NumToID html
OHperSNP html
ParamToSpecs html
PedCompare html
PedPolish html
PedStripFID html
PedToNum html
Ped_HSg5 html
Ped_griffin html
PlotAgePrior html
PlotPairLL html
PlotPedComp html
PlotRelPairs html
PlotSeqSum html
PlotSnpStats html
SelectNotSampled html
SeqOUT_HSg5 html
SeqOUT_griffin html
SeqParSib html
SibMatch html
SimGeno html
SimGeno_example html
SmoothAP html
SnpStats html
SpecsToParam html
SummarySeq html
Vcomp html
VennSquares html
getAssignCat html
getGenerations html
mtSame2Dif html
orderLH html
rc html
sequoia html
tryCatch.W.E 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
* creating tarball
packaged installation of ‘sequoia’ as ‘sequoia_2.9.0_R_x86_64-pc-linux-gnu.tar.gz’
* DONE (sequoia)