* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘compositions’ ...
** package ‘compositions’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-8) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpGCPtNF/R.INSTALL26fcbe17ea26c6/compositions/src'
gcc-14 -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 compositions.c -o compositions.o
compositions.c: In function ‘gsiCGSkrigingPrep’:
compositions.c:219:18: warning: unused variable ‘one’ [-Wunused-variable]
219 | const double one =1.0; // for BLAS
| ^~~
compositions.c:218:18: warning: unused variable ‘zero’ [-Wunused-variable]
218 | const double zero=0.0; // for BLAS
| ^~~~
compositions.c:216:16: warning: unused variable ‘transB’ [-Wunused-variable]
216 | const char transB='T'; // for BLAS
| ^~~~~~
compositions.c:215:16: warning: unused variable ‘transA’ [-Wunused-variable]
215 | const char transA='N'; // for BLAS
| ^~~~~~
compositions.c:210:15: warning: unused variable ‘D2’ [-Wunused-variable]
210 | const int D2=D*D; // size of a error matrix
| ^~
compositions.c: In function ‘gsiCGSkrigingPredict’:
compositions.c:458:16: warning: unused variable ‘transB’ [-Wunused-variable]
458 | const char transB='T'; // for BLAS
| ^~~~~~
compositions.c:457:16: warning: unused variable ‘transA’ [-Wunused-variable]
457 | const char transA='N'; // for BLAS
| ^~~~~~
compositions.c:454:15: warning: unused variable ‘ldN’ [-Wunused-variable]
454 | const int ldN=*ldNp; //MaxFramesize of central matrix
| ^~~
compositions.c:451:15: warning: unused variable ‘D2’ [-Wunused-variable]
451 | const int D2=D*D; // size of a error matrix
| ^~
compositions.c: In function ‘gsiCGSkriging’:
compositions.c:580:16: warning: unused variable ‘uplo’ [-Wunused-variable]
580 | const char uplo='U'; // for LAPACK
| ^~~~
compositions.c:568:16: warning: unused variable ‘transB’ [-Wunused-variable]
568 | const char transB='T'; // for BLAS
| ^~~~~~
compositions.c:567:16: warning: unused variable ‘transA’ [-Wunused-variable]
567 | const char transA='N'; // for BLAS
| ^~~~~~
compositions.c: In function ‘gsiCImpAcompNewImputationVariance’:
compositions.c:1068:10: warning: unused variable ‘transA’ [-Wunused-variable]
1068 | char transA='N'; // parameter for dgelsd
| ^~~~~~
compositions.c:1066:15: warning: unused variable ‘DDn’ [-Wunused-variable]
1066 | const int DDn=D*D*n; // step in imputationCache to get second type of info
| ^~~
compositions.c: In function ‘gsiCImpAcompCompleteAlr’:
compositions.c:1248:10: warning: unused variable ‘transA’ [-Wunused-variable]
1248 | char transA='N'; // for dgemv
| ^~~~~~
compositions.c: In function ‘gsiCImpAcompClrExpectation’:
compositions.c:1434:10: warning: unused variable ‘transAt’ [-Wunused-variable]
1434 | char transAt='T'; // for dgemv
| ^~~~~~~
compositions.c:1433:10: warning: unused variable ‘transA’ [-Wunused-variable]
1433 | char transA='N'; // for dgemv
| ^~~~~~
compositions.c: In function ‘gsiCImpAcompFitWithProjection’:
compositions.c:1757:20: warning: unused variable ‘xv’ [-Wunused-variable]
1757 | double xv = MX(c,l);
| ^~
compositions.c:1735:16: warning: unused variable ‘transA’ [-Wunused-variable]
1735 | const char transA='N';
| ^~~~~~
compositions.c: In function ‘gsiCFitWithProjection’:
compositions.c:1919:13: warning: unused variable ‘idx’ [-Wunused-variable]
1919 | int idx=i+N*j;
| ^~~
compositions.c:1876:13: warning: unused variable ‘dl’ [-Wunused-variable]
1876 | double *dl=(double *) R_alloc(N*D,sizeof(double));
| ^~
compositions.c:1871:9: warning: unused variable ‘NmissingTypes’ [-Wunused-variable]
1871 | int NmissingTypes=0;
| ^~~~~~~~~~~~~
compositions.c:1870:9: warning: unused variable ‘p’ [-Wunused-variable]
1870 | int p=dimX[1];
| ^
compositions.c: In function ‘gsiCFitWithEM’:
compositions.c:1998:13: warning: unused variable ‘idx’ [-Wunused-variable]
1998 | int idx=i+N*j;
| ^~~
compositions.c:1973:13: warning: unused variable ‘imputationCache’ [-Wunused-variable]
1973 | double *imputationCache=(double *) R_alloc(D*D*nTypes*2,sizeof(double));
| ^~~~~~~~~~~~~~~
compositions.c:1951:13: warning: unused variable ‘dl’ [-Wunused-variable]
1951 | double *dl=(double *) R_alloc(N*D,sizeof(double));
| ^~
compositions.c:1946:9: warning: unused variable ‘NmissingTypes’ [-Wunused-variable]
1946 | int NmissingTypes=0;
| ^~~~~~~~~~~~~
compositions.c:1945:9: warning: unused variable ‘p’ [-Wunused-variable]
1945 | int p=dimX[1];
| ^
compositions.c: In function ‘gsiAitchisonDistributionIntegral’:
compositions.c:2083:13: warning: unused variable ‘k’ [-Wunused-variable]
2083 | int i,j,k;
| ^
compositions.c: In function ‘gsiDensityCheck2’:
compositions.c:2372:12: warning: unused variable ‘Pd’ [-Wunused-variable]
2372 | double Pd=sqrt(M_PI*sigmaQ);
| ^~
compositions.c: In function ‘gsiDensityCheck’:
compositions.c:2489:12: warning: unused variable ‘tmp’ [-Wunused-variable]
2489 | double tmp;
| ^~~
compositions.c:2487:13: warning: unused variable ‘tmpDoublePtr’ [-Wunused-variable]
2487 | double *tmpDoublePtr;
| ^~~~~~~~~~~~
compositions.c:2486:9: warning: unused variable ‘tmpInt’ [-Wunused-variable]
2486 | int tmpInt;
| ^~~~~~
compositions.c:2485:10: warning: unused variable ‘tmpIntPtr’ [-Wunused-variable]
2485 | int *tmpIntPtr;
| ^~~~~~~~~
compositions.c:2484:9: warning: unused variable ‘D’ [-Wunused-variable]
2484 | int D=dimX[1];
| ^
compositions.c:2479:13: warning: unused variable ‘k’ [-Wunused-variable]
2479 | int i,j,k,r;
| ^
compositions.c: In function ‘gsiCGSkriging’:
compositions.c:628:24: warning: ‘mt’ may be used uninitialized [-Wmaybe-uninitialized]
628 | type[i+n*p]=mt;
| ~~~~~~~~~~~^~~
compositions.c:590:12: note: ‘mt’ was declared here
590 | int mt; // temporary for missingType
| ^~
compositions.c: In function ‘gsiCGSkrigingPrep’:
compositions.c:259:24: warning: ‘mt’ may be used uninitialized [-Wmaybe-uninitialized]
259 | type[i+n*p]=mt;
| ~~~~~~~~~~~^~~
compositions.c:227:12: note: ‘mt’ was declared here
227 | int mt; // temporary for missingType
| ^~
gcc-14 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o compositions.so compositions.o -llapack -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpGCPtNF/R.INSTALL26fcbe17ea26c6/compositions/src'
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpGCPtNF/R.INSTALL26fcbe17ea26c6/compositions/src'
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpGCPtNF/R.INSTALL26fcbe17ea26c6/compositions/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-compositions/00new/compositions/libs
** R
** data
** demo
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package ‘compositions’
finding HTML links ... done
Aar html
Activity10 html
Activity31 html
AnimalVegetation html
ArcticLake html
Bayesite html
Blood23 html
Boxite html
ClamEast html
ClamWest html
CompLinModCo html
ConfRadius html
Coxite html
DiagnosticProb html
Firework html
Glacial html
Hongite html
HotellingsTsq html
HouseholdExp html
Hydrochem html
Kongite html
Metabolites html
PogoJump html
R2 html
Sediments html
SerumProtein html
ShiftOperators html
SimulatedAmounts html
Skulls html
SkyeAFM html
Supervisor html
WhiteCells html
Yatquat html
acomp-class html
acomp html
acomparith html
acompmargin html
alr html
amounts-class html
aplus-class html
aplus html
aplusarithm html
apt html
arrows3d html
asdataframe html
axis3d html
backtransform html
balancebase html
barplot html
binary html
biplot3d html
boxplot html
ccomp-class html
ccomp html
ccompgof html
cdt html
clo html
clr html
clr2ilr html
clusterfinder html
codadendrogram html
coloredbiplot html
colorsforoutliers html
compOKriging html
compmiss html
compositional-class html
compositions html
cor html
cpt html
dist html
ellipses html
endmemberCoordinates html
fitdirichlet html
fitsamemean html
gausstest html
geometricmean html
getdetectionlimit html
goftests html
groupparts html
gsiPrinBal html
gsiadd html
gsiaddclass html
gsicall html
gsiclosespread html
gsicoorinfo html
gsicsum html
gsidiagExtract html
gsidiagGenerate html
gsidrop html
gsieq html
gsiexpandrcomp html
gsifiltercall html
gsigetD html
gsigetbalstruct html
gsiinternal html
gsiinvperm html
gsiisSingleRow html
gsimap01 html
gsimargin html
gsimerge2signary html
gsipairrelativeMatrix html
gsipairs html
gsiplain html
gsiplotmargin html
gsirecode html
gsireset3d html
gsisimshape html
gsispreadToIsoSpace html
gsisvdsolve html
gsitextpanel html
gsivarwithlosts html
idt html
iit html
ilr html
ilrBase html
ilt html
ipt html
isAcomp html
ismahalanobisoutlier html
isoportion html
jura html
kdeDirichlet html
kingtetrahedron html
lines html
logratioVariogram html
lrvgram html
mahalanobisdist html
matmult html
matmultacomp html
meanAcomp html
meanrow html
missingProjector html
missingsummary html
mix2compositions html
mixRead html
mvar html
names html
norm html
normalize html
oneOrDataset html
outlierclassifier html
outlierplot html
outliers html
pairwisePlot html
finding level-2 HTML links ... done
panelAcomp html
parametricMat html
perturbe html
plot html
plot3d html
plot3dacomp html
plot3daplus html
plot3drmult html
plot3drplus html
plotlogratioVariogram html
plotmissingsummary html
plotpos html
powerofmatrix html
princompacomp html
princompaplus html
princomprcomp html
princomprmult html
princomprplus html
print html
pwlr html
pwlrPlot html
qqnorm html
rDirichlet html
raitchison html
ratioLoadings html
rcomp-class html
rcomp html
rcomparithm html
rcompmargin html
readgeoeas html
replot html
rlnorm html
rmahalanobis html
rmult-class html
rmult html
rmultarithm html
rmultmatmult html
rnorm html
robustness html
rplus-class html
rplus html
rplusarithm html
rpois html
runif html
scalar html
scale html
segments html
simplemissingplot html
simulatemissing html
split html
straight html
subsetting html
summaryAcomp html
summaryAplus html
summaryRcomp html
sumprojector html
ternaryAxis html
tests html
totals html
tryDebugger html
ult html
varAcomp html
variation html
variograms html
varmlm html
vcovAcomp html
vgmFit html
wrapped_functions html
zeroreplace 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 (compositions)