* installing *source* package ‘snpRF’ ...
** package ‘snpRF’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-LTO/snpRF/src'
/usr/local/gcc9/bin/gcc -I"/data/gannet/ripley/R/LTO9/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2 -Wall -pedantic -mtune=native -flto -c classTree.c -o classTree.o
/usr/local/gcc9/bin/gcc -I"/data/gannet/ripley/R/LTO9/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2 -Wall -pedantic -mtune=native -flto -c regTree.c -o regTree.o
/usr/local/gcc9/bin/gcc -I"/data/gannet/ripley/R/LTO9/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2 -Wall -pedantic -mtune=native -flto -c regrf.c -o regrf.o
regrf.c: In function 'regRF':
regrf.c:52:25: warning: variable 'averrb' set but not used [-Wunused-but-set-variable]
   52 |     double errts = 0.0, averrb, meanY, meanYts, varY, varYts, r, xrand,
      |                         ^~~~~~
/usr/local/gcc9/bin/gcc -I"/data/gannet/ripley/R/LTO9/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2 -Wall -pedantic -mtune=native -flto -c rf.c -o rf.o
rf.c: In function 'classRF':
rf.c:190:5: warning: "/*" within comment [-Wcomment]
  190 |     /* Count number of cases in each class. */
      |      
rf.c:108:8: warning: variable 'tp' set but not used [-Wunused-but-set-variable]
  108 |       *tp, *wr, *x, *xts;
      |        ^~
rf.c:91:15: warning: variable 'nimp' set but not used [-Wunused-but-set-variable]
   91 |         mimp, nimp, near, nuse, noutall, nrightall, nrightimpall,
      |               ^~~~
rf.c:91:9: warning: variable 'mimp' set but not used [-Wunused-but-set-variable]
   91 |         mimp, nimp, near, nuse, noutall, nrightall, nrightimpall,
      |         ^~~~
/usr/local/gcc9/bin/gfortran -fno-optimize-sibling-calls  -fpic  -g -O2 -mtune=native -Wall -pedantic -flto -c rfsub.f -o rfsub.o
rfsub.f:179:22:

  179 |                end if
      |                      1
Warning: Nonconforming tab character at (1) [-Wtabs]
/usr/local/gcc9/bin/gcc -I"/data/gannet/ripley/R/LTO9/include" -DNDEBUG   -I/usr/local/include   -fpic  -g -O2 -Wall -pedantic -mtune=native -flto -c rfutils.c -o rfutils.o
/usr/local/gcc9/bin/gcc -shared -g -O2 -Wall -pedantic -mtune=native -flto -fpic -L/usr/local/gcc9/lib64 -L/usr/local/lib64 -o snpRF.so classTree.o regTree.o regrf.o rf.o rfsub.o rfutils.o -lgfortran -lm -lquadmath
rfsub.f:343:6: warning: type of 'unpack' does not match original declaration [-Wlto-type-mismatch]
  343 |          call unpack(l,nbest,icat)
      |      ^
rfutils.c:265:6: note: 'unpack_' was previously declared here
  265 | void F77_NAME(unpack)(int *nBits, unsigned int *pack, int *bits) {
      |      ^
rfutils.c:265:6: note: code may be misoptimized unless '-fno-strict-aliasing' is used
rfsub.f:299:6: warning: type of 'catmaxb' does not match original declaration [-Wlto-type-mismatch]
  299 |      &                 lcat, nbest, critmax, nhit, dn)
      |      ^
classTree.c:357:6: note: 'catmaxb_' was previously declared here
  357 | void F77_NAME(catmaxb)(double *totalWt, double *tclasscat, double *classCount,
      |      ^
classTree.c:357:6: note: code may be misoptimized unless '-fno-strict-aliasing' is used
rfsub.f:302:6: warning: type of 'catmax' does not match original declaration [-Wlto-type-mismatch]
  302 |      &                 nbest, critmax, nhit, maxcat, ncmax, ncsplit)
      |      ^
classTree.c:295:6: note: 'catmax_' was previously declared here
  295 | void F77_NAME(catmax)(double *parentDen, double *tclasscat,
      |      ^
classTree.c:295:6: note: code may be misoptimized unless '-fno-strict-aliasing' is used
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-LTO/snpRF/src'
installing to /data/gannet/ripley/R/packages/tests-LTO/Libs/snpRF-lib/00LOCK-snpRF/00new/snpRF/libs
** R
** data
** inst
** 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
* DONE (snpRF)
Time 0:13.37, 7.93 + 0.73