* installing to library ‘/home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages’
* installing *source* package ‘Ball’ ...
** package ‘Ball’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-13 (Debian 13.2.0-23) 13.2.0’
make[1]: Entering directory '/tmp/RtmpnlZiWm/R.INSTALL7cb073ae87213/Ball/src'
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c BD.c -o BD.o
BD.c: In function ‘BD’:
BD.c:196: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
196 | #pragma omp parallel
|
BD.c:201: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
201 | #pragma omp for
|
BD.c: In function ‘UBD’:
BD.c:285: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
285 | #pragma omp parallel
|
BD.c:290: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
290 | #pragma omp for
|
BD.c: In function ‘KBD’:
BD.c:684: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
684 | #pragma omp parallel
|
BD.c:689: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
689 | #pragma omp for
|
BD.c: In function ‘UKBD’:
BD.c:941: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
941 | #pragma omp parallel
|
BD.c:944: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
944 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c BI.c -o BI.o
BI.c: In function ‘BI’:
BI.c:372: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
372 | #pragma omp parallel
|
BI.c:376: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
376 | #pragma omp for
|
BI.c:413: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
413 | #pragma omp parallel
|
BI.c:417: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
417 | #pragma omp for
|
BI.c: In function ‘UBI’:
BI.c:542: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
542 | #pragma omp parallel
|
BI.c:547: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
547 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c ball_init.c -o ball_init.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c bcor.c -o bcor.o
bcor.c: In function ‘_bcor_test’:
bcor.c:449: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
449 | #pragma omp parallel
|
bcor.c:456: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
456 | #pragma omp for
|
bcor.c: In function ‘_u_bcor_test’:
bcor.c:536: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
536 | #pragma omp parallel
|
bcor.c:545: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
545 | #pragma omp for
|
bcor.c: In function ‘_bcor_k_sample’:
bcor.c:822: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
822 | #pragma omp parallel
|
bcor.c:825: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
825 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c bd_gwas.c -o bd_gwas.o
bd_gwas.c: In function ‘bd_gwas’:
bd_gwas.c:216: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
216 | #pragma omp parallel
|
bd_gwas.c:220: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
220 | #pragma omp for
|
bd_gwas.c:246:5: warning: ‘batch_num’ may be used uninitialized [-Wmaybe-uninitialized]
246 | free_int_matrix(randn_mat, batch_num, n - 1);
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
bd_gwas.c:203:9: note: ‘batch_num’ was declared here
203 | int batch_num, fix_batch_num;
| ^~~~~~~~~
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c bdd_matrix.c -o bdd_matrix.o
bdd_matrix.c: In function ‘bdd_matrix_bias_two_group’:
bdd_matrix.c:95: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
95 | #pragma omp parallel
|
bdd_matrix.c:98: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
98 | #pragma omp for
|
bdd_matrix.c: In function ‘bdd_matrix_bias’:
bdd_matrix.c:162: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
162 | #pragma omp parallel
|
bdd_matrix.c:165: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
165 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c kbcov.c -o kbcov.o
kbcov.c: In function ‘KBCOV’:
kbcov.c:143: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
143 | #pragma omp parallel
|
kbcov.c:147: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
147 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c kbd.c -o kbd.o
kbd.c: In function ‘KBD3’:
kbd.c:493: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
493 | #pragma omp parallel
|
kbd.c:500: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
500 | #pragma omp for
|
kbd.c: In function ‘bd_gwas_screening’:
kbd.c:674: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
674 | #pragma omp parallel
|
kbd.c:678: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
678 | #pragma omp for
|
kbd.c:769: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
769 | #pragma omp parallel
|
kbd.c:775: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
775 | #pragma omp for
|
kbd.c: In function ‘bd_gwas_refining_single’:
kbd.c:957: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
957 | #pragma omp parallel
|
kbd.c:963: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
963 | #pragma omp for
|
kbd.c: In function ‘bd_gwas_refining’:
kbd.c:1121: warning: ignoring ‘#pragma omp parallel’ [-Wunknown-pragmas]
1121 | #pragma omp parallel
|
kbd.c:1127: warning: ignoring ‘#pragma omp for’ [-Wunknown-pragmas]
1127 | #pragma omp for
|
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c surv.c -o surv.o
gcc-13 -I"/home/hornik/tmp/R.check/r-patched-gcc/Work/build/include" -DNDEBUG -DR_BUILD -I/usr/local/include -D_FORTIFY_SOURCE=3 -fpic -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native -c utilities.c -o utilities.o
gcc-13 -shared -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -Wl,-O1 -o Ball.so BD.o BI.o ball_init.o bcor.o bd_gwas.o bdd_matrix.o kbcov.o kbd.o surv.o utilities.o -fopenmp -L/home/hornik/tmp/R.check/r-patched-gcc/Work/build/lib -lR
make[1]: Leaving directory '/tmp/RtmpnlZiWm/R.INSTALL7cb073ae87213/Ball/src'
make[1]: Entering directory '/tmp/RtmpnlZiWm/R.INSTALL7cb073ae87213/Ball/src'
make[1]: Leaving directory '/tmp/RtmpnlZiWm/R.INSTALL7cb073ae87213/Ball/src'
installing to /home/hornik/tmp/R.check/r-patched-gcc/Work/build/Packages/00LOCK-Ball/00new/Ball/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 ‘Ball’
finding HTML links ... done
ArcticLake html
bcorsis html
bcov html
bcov.test html
bd html
bd.gwas.test html
bd.test html
bdvmf html
genlung html
macaques html
meteorology html
nhdist 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 (Ball)