* installing to library ‘/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages’ * installing *source* package ‘mkde’ ... ** package ‘mkde’ successfully unpacked and MD5 sums checked ** using staged installation ** libs using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’ using C++ compiler: ‘g++-13 (Debian 13.2.0-23) 13.2.0’ make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpPQtn3C/R.INSTALL19b4f769c2042c/mkde/src' gcc-13 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c init.c -o init.o g++-13 -std=gnu++17 -I"/home/hornik/tmp/R.check/r-devel-gcc/Work/build/include" -DNDEBUG -I'/home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/Rcpp/include' -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -pedantic -mtune=native -c mkdeFunctions.cpp -o mkdeFunctions.o mkdeFunctions.cpp: In function ‘SEXPREC* mkde2dGrid02(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:296:32: warning: unused variable ‘voxy’ [-Wunused-variable] 296 | double voxy = yGrid[i2]; // voxel y | ^~~~ mkdeFunctions.cpp:245:20: warning: variable ‘sig2xy_inv’ set but not used [-Wunused-but-set-variable] 245 | double sig2xy, sig2xy_inv; | ^~~~~~~~~~ mkdeFunctions.cpp:246:23: warning: unused variable ‘xyDistSq’ [-Wunused-variable] 246 | double distMaxXY, xyDistSq, voxx, voxy, xyterm; | ^~~~~~~~ mkdeFunctions.cpp:246:33: warning: unused variable ‘voxx’ [-Wunused-variable] 246 | double distMaxXY, xyDistSq, voxx, voxy, xyterm; | ^~~~ mkdeFunctions.cpp:246:39: warning: unused variable ‘voxy’ [-Wunused-variable] 246 | double distMaxXY, xyDistSq, voxx, voxy, xyterm; | ^~~~ mkdeFunctions.cpp:246:45: warning: unused variable ‘xyterm’ [-Wunused-variable] 246 | double distMaxXY, xyDistSq, voxx, voxy, xyterm; | ^~~~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde2dGridv02interact(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:462:32: warning: unused variable ‘voxy’ [-Wunused-variable] 462 | double voxy = yGrid[i2]; // voxel y | ^~~~ mkdeFunctions.cpp:394:76: warning: unused variable ‘xyDistSq’ [-Wunused-variable] 394 | double distMaxXY0, distMaxXY1, haloMinX, haloMaxX, haloMinY, haloMaxY, xyDistSq, xyterm, bhattaFact; | ^~~~~~~~ mkdeFunctions.cpp:394:86: warning: unused variable ‘xyterm’ [-Wunused-variable] 394 | double distMaxXY0, distMaxXY1, haloMinX, haloMaxX, haloMinY, haloMaxY, xyDistSq, xyterm, bhattaFact; | ^~~~~~ mkdeFunctions.cpp:398:9: warning: unused variable ‘i1min’ [-Wunused-variable] 398 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0; | ^~~~~ mkdeFunctions.cpp:398:21: warning: unused variable ‘i1max’ [-Wunused-variable] 398 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0; | ^~~~~ mkdeFunctions.cpp:398:32: warning: unused variable ‘i2min’ [-Wunused-variable] 398 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0; | ^~~~~ mkdeFunctions.cpp:398:44: warning: unused variable ‘i2max’ [-Wunused-variable] 398 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0; | ^~~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde3dGridv02(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:643:33: warning: unused variable ‘th_id’ [-Wunused-variable] 643 | int th_id = omp_get_thread_num(); | ^~~~~ mkdeFunctions.cpp:631:32: warning: unused variable ‘voxy’ [-Wunused-variable] 631 | double voxy = yGrid[i2]; // voxel y | ^~~~ mkdeFunctions.cpp:572:24: warning: unused variable ‘factor’ [-Wunused-variable] 572 | double eX, eY, eZ, factor; | ^~~~~~ mkdeFunctions.cpp:574:27: warning: unused variable ‘sig2xy_inv’ [-Wunused-variable] 574 | double sig2xy, sig2z, sig2xy_inv, sig2z_inv; | ^~~~~~~~~~ mkdeFunctions.cpp:574:39: warning: unused variable ‘sig2z_inv’ [-Wunused-variable] 574 | double sig2xy, sig2z, sig2xy_inv, sig2z_inv; | ^~~~~~~~~ mkdeFunctions.cpp:575:33: warning: unused variable ‘xyDistSq’ [-Wunused-variable] 575 | double distMaxXY, distMaxZ, xyDistSq, zDistSq, tmpZ, xyterm; | ^~~~~~~~ mkdeFunctions.cpp:575:43: warning: unused variable ‘zDistSq’ [-Wunused-variable] 575 | double distMaxXY, distMaxZ, xyDistSq, zDistSq, tmpZ, xyterm; | ^~~~~~~ mkdeFunctions.cpp:575:52: warning: unused variable ‘tmpZ’ [-Wunused-variable] 575 | double distMaxXY, distMaxZ, xyDistSq, zDistSq, tmpZ, xyterm; | ^~~~ mkdeFunctions.cpp:575:58: warning: unused variable ‘xyterm’ [-Wunused-variable] 575 | double distMaxXY, distMaxZ, xyDistSq, zDistSq, tmpZ, xyterm; | ^~~~~~ mkdeFunctions.cpp:579:9: warning: unused variable ‘i1min’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:579:21: warning: unused variable ‘i1max’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:579:32: warning: unused variable ‘i2min’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:579:44: warning: unused variable ‘i2max’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:579:55: warning: unused variable ‘i3min’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:579:67: warning: unused variable ‘i3max’ [-Wunused-variable] 579 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde3dGridv02interact(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:869:32: warning: unused variable ‘voxy’ [-Wunused-variable] 869 | double voxy = yGrid[i2]; // voxel y | ^~~~ mkdeFunctions.cpp:778:58: warning: unused variable ‘xyDistSq’ [-Wunused-variable] 778 | double distMaxXY0, distMaxXY1, distMaxZ0, distMaxZ1, xyDistSq, zDistSq, tmpZ, xyterm, bhattaFact; | ^~~~~~~~ mkdeFunctions.cpp:778:68: warning: unused variable ‘zDistSq’ [-Wunused-variable] 778 | double distMaxXY0, distMaxXY1, distMaxZ0, distMaxZ1, xyDistSq, zDistSq, tmpZ, xyterm, bhattaFact; | ^~~~~~~ mkdeFunctions.cpp:778:77: warning: unused variable ‘tmpZ’ [-Wunused-variable] 778 | double distMaxXY0, distMaxXY1, distMaxZ0, distMaxZ1, xyDistSq, zDistSq, tmpZ, xyterm, bhattaFact; | ^~~~ mkdeFunctions.cpp:778:83: warning: unused variable ‘xyterm’ [-Wunused-variable] 778 | double distMaxXY0, distMaxXY1, distMaxZ0, distMaxZ1, xyDistSq, zDistSq, tmpZ, xyterm, bhattaFact; | ^~~~~~ mkdeFunctions.cpp:780:12: warning: unused variable ‘loReflZ1’ [-Wunused-variable] 780 | double loReflZ1, hiReflZ1; | ^~~~~~~~ mkdeFunctions.cpp:780:22: warning: unused variable ‘hiReflZ1’ [-Wunused-variable] 780 | double loReflZ1, hiReflZ1; | ^~~~~~~~ mkdeFunctions.cpp:784:9: warning: unused variable ‘i1min’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:784:21: warning: unused variable ‘i1max’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:784:32: warning: unused variable ‘i2min’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:784:44: warning: unused variable ‘i2max’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:784:55: warning: unused variable ‘i3min’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp:784:67: warning: unused variable ‘i3max’ [-Wunused-variable] 784 | int i1min = nX, i1max = 0, i2min = nY, i2max = 0, i3min = nZ, i3max = 0; | ^~~~~ mkdeFunctions.cpp: In function ‘SEXPREC* writeRasterToXDMF02(SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:1375:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 1375 | for (int i = 0; i < r.size(); i++) { | ~~^~~~~~~~~~ mkdeFunctions.cpp:1296:10: warning: unused variable ‘ijk’ [-Wunused-variable] 1296 | long ijk = 0; | ^~~ mkdeFunctions.cpp: In function ‘SEXPREC* writeRasterToVTK02(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:1398:10: warning: unused variable ‘ijk’ [-Wunused-variable] 1398 | long ijk = 0; | ^~~ mkdeFunctions.cpp:1399:12: warning: unused variable ‘xSz’ [-Wunused-variable] 1399 | double xSz = xGrid[1] - xGrid[0]; | ^~~ mkdeFunctions.cpp:1400:12: warning: unused variable ‘ySz’ [-Wunused-variable] 1400 | double ySz = yGrid[1] - yGrid[0]; | ^~~ mkdeFunctions.cpp:1401:12: warning: unused variable ‘densTmp’ [-Wunused-variable] 1401 | double densTmp; | ^~~~~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde2dGrid02(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:302:42: warning: ‘tOld’ may be used uninitialized [-Wmaybe-uninitialized] 302 | tmpDens = (t - tOld) * pXY / 2.0; | ~~~^~~~~~~ mkdeFunctions.cpp:242:23: note: ‘tOld’ was declared here 242 | double t0, t1, t, tOld, dt, alpha, totalT; | ^~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde2dGridv02interact(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:474:42: warning: ‘tOld’ may be used uninitialized [-Wmaybe-uninitialized] 474 | tmpDens = (t - tOld) * pXY / 2.0; | ~~~^~~~~~~ mkdeFunctions.cpp:388:23: note: ‘tOld’ was declared here 388 | double t0, t1, t, tOld, dt, alpha; | ^~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde3dGridv02(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:663:46: warning: ‘tOld’ may be used uninitialized [-Wmaybe-uninitialized] 663 | tmpDens = (t - tOld) * pXYZ / 2.0; | ~~~^~~~~~~ mkdeFunctions.cpp:570:23: note: ‘tOld’ was declared here 570 | double t0, t1, t, tOld, dt, alpha; | ^~~~ mkdeFunctions.cpp: In function ‘SEXPREC* mkde3dGridv02interact(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’: mkdeFunctions.cpp:908:47: warning: ‘tOld’ may be used uninitialized [-Wmaybe-uninitialized] 908 | tmpDens0 = (t - tOld) * pXYZ0 / 2.0; | ~~~^~~~~~~ mkdeFunctions.cpp:773:23: note: ‘tOld’ was declared here 773 | double t0, t1, t, tOld, dt, alpha; | ^~~~ g++-13 -std=gnu++17 -shared -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -Wl,-O1 -o mkde.so init.o mkdeFunctions.o -L/home/hornik/tmp/R.check/r-devel-gcc/Work/build/lib -lR make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpPQtn3C/R.INSTALL19b4f769c2042c/mkde/src' make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpPQtn3C/R.INSTALL19b4f769c2042c/mkde/src' make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpPQtn3C/R.INSTALL19b4f769c2042c/mkde/src' installing to /home/hornik/tmp/R.check/r-devel-gcc/Work/build/Packages/00LOCK-mkde/00new/mkde/libs ** R ** data ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 ‘mkde’ as ‘mkde_0.2_R_x86_64-pc-linux-gnu.tar.gz’ * DONE (mkde)