##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL SMAD
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘SMAD’ ...
** this is package ‘SMAD’ version ‘1.27.4’
** using staged installation
** libs
using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/api/deprecated.c -o nlopt/api/deprecated.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/api/general.c -o nlopt/api/general.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/api/optimize.c -o nlopt/api/optimize.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/api/options.c -o nlopt/api/options.o
nlopt/api/options.c: In function ‘nlopt_set_min_objective’:
nlopt/api/options.c:235:1: warning: control reaches end of non-void function [-Wreturn-type]
  235 | }
      | ^
nlopt/api/options.c: In function ‘nlopt_set_max_objective’:
nlopt/api/options.c:257:1: warning: control reaches end of non-void function [-Wreturn-type]
  257 | }
      | ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/cobyla/cobyla.c -o nlopt/cobyla/cobyla.o
nlopt/cobyla/cobyla.c: In function ‘trstlp’:
nlopt/cobyla/cobyla.c:1256:7: warning: variable ‘iout’ set but not used [-Wunused-but-set-variable]
 1256 |   int iout, i__, j, k;
      |       ^~~~
nlopt/cobyla/cobyla.c: At top level:
nlopt/cobyla/cobyla.c:35:19: warning: ‘rcsid’ defined but not used [-Wunused-const-variable=]
   35 | static char const rcsid[] =
      |                   ^~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/auglag/auglag.c -o nlopt/auglag/auglag.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/bobyqa/bobyqa.c -o nlopt/bobyqa/bobyqa.o
nlopt/bobyqa/bobyqa.c: In function ‘update_’:
nlopt/bobyqa/bobyqa.c:27:20: warning: variable ‘jl’ set but not used [-Wunused-but-set-variable]
   27 |     int i__, j, k, jl, jp;
      |                    ^~
nlopt/bobyqa/bobyqa.c: In function ‘trsbox_’:
nlopt/bobyqa/bobyqa.c:1182:54: warning: variable ‘sqstp’ set but not used [-Wunused-but-set-variable]
 1182 |     double resid, delsq, ggsav, tempa, tempb, ratio, sqstp, redmax,
      |                                                      ^~~~~
nlopt/bobyqa/bobyqa.c:1182:47: warning: variable ‘ratio’ set but not used [-Wunused-but-set-variable]
 1182 |     double resid, delsq, ggsav, tempa, tempb, ratio, sqstp, redmax,
      |                                               ^~~~~
nlopt/bobyqa/bobyqa.c: In function ‘rescue_.constprop’:
nlopt/bobyqa/bobyqa.c:642:29: warning: ‘xp’ may be used uninitialized [-Wmaybe-uninitialized]
  642 |                 vquad += xp * xq * hq[iw];
      |                          ~~~^~~~
nlopt/bobyqa/bobyqa.c:161:12: note: ‘xp’ was declared here
  161 |     double xp, xq, den;
      |            ^~
nlopt/bobyqa/bobyqa.c:15:37: warning: ‘ihp’ may be used uninitialized [-Wmaybe-uninitialized]
   15 | #define MAX2(a,b) ((a) >= (b) ? (a) : (b))
      |                   ~~~~~~~~~~~~~~~~~~^~~~~~
nlopt/bobyqa/bobyqa.c:641:22: note: in expansion of macro ‘MAX2’
  641 |                 iw = MAX2(ihp,ihq) - (i__3 = ip - iq, IABS(i__3));
      |                      ^~~~
nlopt/bobyqa/bobyqa.c:162:9: note: ‘ihp’ was declared here
  162 |     int ihp;
      |         ^~~
In function ‘prelim_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2077:11,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1898:28: warning: ‘fbeg’ may be used uninitialized [-Wmaybe-uninitialized]
 1898 |             gopt[nfm] = (f - fbeg) / stepa;
      |                         ~~~^~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1732:17: note: ‘fbeg’ was declared here
 1732 |     double two, fbeg, diff, half, temp, zero, recip, stepa, stepb;
      |                 ^~~~
In function ‘prelim_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2077:11,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1936:18: warning: ‘ipt’ may be used uninitialized [-Wmaybe-uninitialized]
 1936 |         ih = ipt * (ipt - 1) / 2 + jpt;
      |              ~~~~^~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1731:14: note: ‘ipt’ was declared here
 1731 |     int nfx, ipt, jpt;
      |              ^~~
In function ‘prelim_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2077:11,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1936:12: warning: ‘jpt’ may be used uninitialized [-Wmaybe-uninitialized]
 1936 |         ih = ipt * (ipt - 1) / 2 + jpt;
      |         ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1731:19: note: ‘jpt’ was declared here
 1731 |     int nfx, ipt, jpt;
      |                   ^~~
In function ‘prelim_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2077:11,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1898:36: warning: ‘stepa’ may be used uninitialized [-Wmaybe-uninitialized]
 1898 |             gopt[nfm] = (f - fbeg) / stepa;
      |                         ~~~~~~~~~~~^~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1732:54: note: ‘stepa’ was declared here
 1732 |     double two, fbeg, diff, half, temp, zero, recip, stepa, stepb;
      |                                                      ^~~~~
In function ‘prelim_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2077:11,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1909:44: warning: ‘stepb’ may be used uninitialized [-Wmaybe-uninitialized]
 1909 |             gopt[nfx] = (gopt[nfx] * stepb - temp * stepa) / diff;
      |                         ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1732:61: note: ‘stepb’ was declared here
 1732 |     double two, fbeg, diff, half, temp, zero, recip, stepa, stepb;
      |                                                             ^~~~~
nlopt/bobyqa/bobyqa.c:1982:50: warning: ‘diffc’ may be used uninitialized [-Wmaybe-uninitialized]
 1982 |     double gqsq, dist, sumw, sumz, diffa, diffb, diffc, hdiag;
      |                                                  ^~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1627:14: warning: ‘iact’ may be used uninitialized [-Wmaybe-uninitialized]
 1627 |     if (iact > 0 && isav == iu) {
      |         ~~~~~^~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1177:9: note: ‘iact’ was declared here
 1177 |     int iact, nact;
      |         ^~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1629:20: warning: ‘xsav’ may be used uninitialized [-Wmaybe-uninitialized]
 1629 |         xbdi[iact] = xsav;
      |         ~~~~~~~~~~~^~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1180:24: note: ‘xsav’ was declared here
 1180 |     double temp, zero, xsav, xsum, angbd, dredg, sredg;
      |                        ^~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1571:29: warning: ‘angbd’ may be used uninitialized [-Wmaybe-uninitialized]
 1571 |     iu = (int) (angbd * 17. + 3.1);
      |                ~~~~~~~~~~~~~^~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1180:36: note: ‘angbd’ was declared here
 1180 |     double temp, zero, xsav, xsum, angbd, dredg, sredg;
      |                                    ^~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1577:38: warning: ‘dredg’ may be used uninitialized [-Wmaybe-uninitialized]
 1577 |         rednew = sth * (angt * dredg - sredg - half * sth * temp);
      |                         ~~~~~~~~~~~~~^~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1180:43: note: ‘dredg’ was declared here
 1180 |     double temp, zero, xsav, xsum, angbd, dredg, sredg;
      |                                           ^~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1577:38: warning: ‘sredg’ may be used uninitialized [-Wmaybe-uninitialized]
 1577 |         rednew = sth * (angt * dredg - sredg - half * sth * temp);
      |                         ~~~~~~~~~~~~~^~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1180:50: note: ‘sredg’ was declared here
 1180 |     double temp, zero, xsav, xsum, angbd, dredg, sredg;
      |                                                  ^~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1478:10: warning: ‘dredsq’ may be used uninitialized [-Wmaybe-uninitialized]
 1478 |     temp = gredsq * dredsq - dredg * dredg;
      |     ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1183:13: note: ‘dredsq’ was declared here
 1183 |             dredsq, redsav, onemin, gredsq, rednew;
      |             ^~~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1702:8: warning: ‘itcsav’ may be used uninitialized [-Wmaybe-uninitialized]
 1702 |     if (iterc > itcsav) {
      |        ^
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1184:9: note: ‘itcsav’ was declared here
 1184 |     int itcsav;
      |         ^~~~~~
In function ‘trsbox_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2153:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1437:14: warning: ‘ggsav’ may be used uninitialized [-Wmaybe-uninitialized]
 1437 |         beta = gredsq / ggsav;
      |         ~~~~~^~~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1182:26: note: ‘ggsav’ was declared here
 1182 |     double resid, delsq, ggsav, tempa, tempb, ratio, sqstp, redmax,
      |                          ^~~~~
In function ‘altmov_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2383:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:886:14: warning: ‘adelt’ may be used uninitialized [-Wmaybe-uninitialized]
  886 |         subd = *adelt / sqrt(distsq);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1984:26: note: ‘adelt’ was declared here
 1984 |     double alpha, delta, adelt, denom, fsave, bdtol, delsq;
      |                          ^~~~~
nlopt/bobyqa/bobyqa.c:763:9: warning: ‘ksav’ may be used uninitialized [-Wmaybe-uninitialized]
  763 |     int ksav;
      |         ^~~~
In function ‘altmov_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2383:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:989:14: warning: ‘stpsav’ may be used uninitialized [-Wmaybe-uninitialized]
  989 |         temp = xopt[i__] + stpsav * (xpt[ksav + i__ * xpt_dim1] - xopt[i__]);
      |         ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:768:52: note: ‘stpsav’ was declared here
  768 |     double dderiv, bigstp, predsq, presav, distsq, stpsav, wfixsq, wsqsav;
      |                                                    ^~~~~~
In function ‘altmov_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2383:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:997:8: warning: ‘ibdsav’ may be used uninitialized [-Wmaybe-uninitialized]
  997 |     if (ibdsav < 0) {
      |        ^
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:767:9: note: ‘ibdsav’ was declared here
  767 |     int ibdsav;
      |         ^~~~~~
In function ‘altmov_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2383:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1150:8: warning: ‘csave’ may be used uninitialized [-Wmaybe-uninitialized]
 1150 |     if (csave > *cauchy) {
      |        ^
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:766:19: note: ‘csave’ was declared here
  766 |     double scale, csave, tempa, tempb, tempd, const__, sumin, ggfree;
      |                   ^~~~~
In function ‘altmov_’,
    inlined from ‘bobyqb_’ at nlopt/bobyqa/bobyqa.c:2383:5,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:1077:22: warning: ‘step’ may be used uninitialized [-Wmaybe-uninitialized]
 1077 |             w[i__] = -step * glag[i__];
      |                      ^~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:764:12: note: ‘step’ was declared here
  764 |     double step, zero, curv;
      |            ^~~~
In function ‘bobyqb_’,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:2466:29: warning: ‘alpha’ may be used uninitialized [-Wmaybe-uninitialized]
 2466 |         denom = d__1 * d__1 + alpha * beta;
      |                 ~~~~~~~~~~~~^~~~~~~~~~~~~~
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1984:12: note: ‘alpha’ was declared here
 1984 |     double alpha, delta, adelt, denom, fsave, bdtol, delsq;
      |            ^~~~~
In function ‘bobyqb_’,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:2467:12: warning: ‘cauchy’ may be used uninitialized [-Wmaybe-uninitialized]
 2467 |         if (denom < cauchy && cauchy > zero) {
      |            ^
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1989:20: note: ‘cauchy’ was declared here
 1989 |     double errbig, cauchy, fracsq, biglsq, densav;
      |                    ^~~~~~
In function ‘bobyqb_’,
    inlined from ‘bobyqa’ at nlopt/bobyqa/bobyqa.c:3253:11:
nlopt/bobyqa/bobyqa.c:2995:8: warning: ‘ratio’ may be used uninitialized [-Wmaybe-uninitialized]
 2995 |     if (ratio > zero) {
      |        ^
nlopt/bobyqa/bobyqa.c: In function ‘bobyqa’:
nlopt/bobyqa/bobyqa.c:1986:12: note: ‘ratio’ was declared here
 1986 |     double ratio, dnorm, vquad, pqold, tenth;
      |            ^~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/cdirect/cdirect.c -o nlopt/cdirect/cdirect.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/cdirect/hybrid.c -o nlopt/cdirect/hybrid.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/crs/crs.c -o nlopt/crs/crs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/direct/DIRect.c -o nlopt/direct/DIRect.o
nlopt/direct/DIRect.c: In function ‘direct_direct_’:
nlopt/direct/DIRect.c:81:13: warning: variable ‘writed’ set but not used [-Wunused-but-set-variable]
   81 |     integer writed;
      |             ^~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/direct/direct_wrap.c -o nlopt/direct/direct_wrap.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/direct/DIRserial.c -o nlopt/direct/DIRserial.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/direct/DIRsubrout.c -o nlopt/direct/DIRsubrout.o
nlopt/direct/DIRsubrout.c: In function ‘direct_dirinit_’:
nlopt/direct/DIRsubrout.c:1157:16: warning: variable ‘costmin’ set but not used [-Wunused-but-set-variable]
 1157 |     doublereal costmin;
      |                ^~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/isres/isres.c -o nlopt/isres/isres.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/luksan/mssubs.c -o nlopt/luksan/mssubs.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/luksan/plip.c -o nlopt/luksan/plip.o
nlopt/luksan/plip.c: In function ‘plip_’:
nlopt/luksan/plip.c:142:9: warning: variable ‘meta’ set but not used [-Wunused-but-set-variable]
  142 |     int meta, mred, nred, iold;
      |         ^~~~
nlopt/luksan/plip.c:140:21: warning: variable ‘mes3’ set but not used [-Wunused-but-set-variable]
  140 |     int mes1, mes2, mes3, met3;
      |                     ^~~~
nlopt/luksan/plip.c:140:15: warning: variable ‘mes2’ set but not used [-Wunused-but-set-variable]
  140 |     int mes1, mes2, mes3, met3;
      |               ^~~~
nlopt/luksan/plip.c:140:9: warning: variable ‘mes1’ set but not used [-Wunused-but-set-variable]
  140 |     int mes1, mes2, mes3, met3;
      |         ^~~~
nlopt/luksan/plip.c:139:24: warning: variable ‘eta0’ set but not used [-Wunused-but-set-variable]
  139 |     double alf1, alf2, eta0, eta9, par1, par2;
      |                        ^~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/luksan/plis.c -o nlopt/luksan/plis.o
nlopt/luksan/plis.c: In function ‘plis_’:
nlopt/luksan/plis.c:131:21: warning: variable ‘mes3’ set but not used [-Wunused-but-set-variable]
  131 |     int mes1, mes2, mes3;
      |                     ^~~~
nlopt/luksan/plis.c:131:15: warning: variable ‘mes2’ set but not used [-Wunused-but-set-variable]
  131 |     int mes1, mes2, mes3;
      |               ^~~~
nlopt/luksan/plis.c:131:9: warning: variable ‘mes1’ set but not used [-Wunused-but-set-variable]
  131 |     int mes1, mes2, mes3;
      |         ^~~~
nlopt/luksan/plis.c:130:24: warning: variable ‘eta0’ set but not used [-Wunused-but-set-variable]
  130 |     double alf1, alf2, eta0, eta9, par1, par2;
      |                        ^~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/luksan/pnet.c -o nlopt/luksan/pnet.o
nlopt/luksan/pnet.c: In function ‘pnet_’:
nlopt/luksan/pnet.c:159:21: warning: variable ‘mes3’ set but not used [-Wunused-but-set-variable]
  159 |     int mes1, mes2, mes3;
      |                     ^~~~
nlopt/luksan/pnet.c:159:15: warning: variable ‘mes2’ set but not used [-Wunused-but-set-variable]
  159 |     int mes1, mes2, mes3;
      |               ^~~~
nlopt/luksan/pnet.c:159:9: warning: variable ‘mes1’ set but not used [-Wunused-but-set-variable]
  159 |     int mes1, mes2, mes3;
      |         ^~~~
In function ‘pnet_’,
    inlined from ‘luksan_pnet’ at nlopt/luksan/pnet.c:630:6:
nlopt/luksan/pnet.c:443:16: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized]
  443 |             if (a > 0.) {
      |                ^
nlopt/luksan/pnet.c: In function ‘luksan_pnet’:
nlopt/luksan/pnet.c:147:12: note: ‘a’ was declared here
  147 |     double a, b;
      |            ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/luksan/pssubs.c -o nlopt/luksan/pssubs.o
nlopt/luksan/pssubs.c: In function ‘luksan_pulsp3__’:
nlopt/luksan/pssubs.c:527:18: warning: variable ‘c__’ set but not used [-Wunused-but-set-variable]
  527 |     double a, b, c__, aa, bb, ah, den, par, pom;
      |                  ^~~
nlopt/luksan/pssubs.c: In function ‘luksan_pulvp3__’:
nlopt/luksan/pssubs.c:656:18: warning: variable ‘c__’ set but not used [-Wunused-but-set-variable]
  656 |     double a, b, c__, aa, bb, cc, ah, den, par, pom, zet;
      |                  ^~~
nlopt/luksan/pssubs.c: In function ‘luksan_pnint1__’:
nlopt/luksan/pssubs.c:156:17: warning: ‘a’ may be used uninitialized [-Wmaybe-uninitialized]
  156 |             dis = a * a - b;
      |             ~~~~^~~~~~~~~~~
nlopt/luksan/pssubs.c:99:12: note: ‘a’ was declared here
   99 |     double a, b, c__, d__, den, dis;
      |            ^
nlopt/luksan/pssubs.c:156:17: warning: ‘b’ may be used uninitialized [-Wmaybe-uninitialized]
  156 |             dis = a * a - b;
      |             ~~~~^~~~~~~~~~~
nlopt/luksan/pssubs.c:99:15: note: ‘b’ was declared here
   99 |     double a, b, c__, d__, den, dis;
      |               ^
nlopt/luksan/pssubs.c:180:31: warning: ‘den’ may be used uninitialized [-Wmaybe-uninitialized]
  180 |         } else if (*mode == 2 && den > 1.) {
      |                    ~~~~~~~~~~~^~~~~~~~~~~
nlopt/luksan/pssubs.c:99:28: note: ‘den’ was declared here
   99 |     double a, b, c__, d__, den, dis;
      |                            ^~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/mlsl/mlsl.c -o nlopt/mlsl/mlsl.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/mma/ccsa_quadratic.c -o nlopt/mma/ccsa_quadratic.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/mma/mma.c -o nlopt/mma/mma.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/neldermead/nldrmd.c -o nlopt/neldermead/nldrmd.o
nlopt/neldermead/nldrmd.c: In function ‘nldrmd_minimize_’:
nlopt/neldermead/nldrmd.c:200:11: warning: ‘memset’ specified bound between 18446744056529682432 and 18446744073709551608 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=]
  200 |           memset(xcur, 0, sizeof(double)*n);
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/neldermead/sbplx.c -o nlopt/neldermead/sbplx.o
nlopt/neldermead/sbplx.c: In function ‘sbplx_minimize’:
nlopt/neldermead/sbplx.c:78:13: warning: variable ‘fprev’ set but not used [-Wunused-but-set-variable]
   78 |      double fprev;
      |             ^~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/newuoa/newuoa.c -o nlopt/newuoa/newuoa.o
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1799:12: warning: ‘xipt’ may be used uninitialized [-Wmaybe-uninitialized]
 1799 |         if (xipt < zero) {
      |            ^
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1596:18: note: ‘xipt’ was declared here
 1596 |     double zero, xipt, xjpt, sumz, diffa, diffb, diffc, hdiag, alpha,
      |                  ^~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1802:12: warning: ‘xjpt’ may be used uninitialized [-Wmaybe-uninitialized]
 1802 |         if (xjpt < zero) {
      |            ^
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1596:24: note: ‘xjpt’ was declared here
 1596 |     double zero, xipt, xjpt, sumz, diffa, diffb, diffc, hdiag, alpha,
      |                        ^~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2151:8: warning: ‘rho’ may be used uninitialized [-Wmaybe-uninitialized]
 2151 |     if (dnorm > rho) {
      |        ^
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1588:17: note: ‘rho’ was declared here
 1588 |     double dsq, rho;
      |                 ^~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1798:18: warning: ‘ipt’ may be used uninitialized [-Wmaybe-uninitialized]
 1798 |         ih = ipt * (ipt - 1) / 2 + jpt;
      |              ~~~~^~~~~~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1589:9: note: ‘ipt’ was declared here
 1589 |     int ipt, jpt;
      |         ^~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1798:12: warning: ‘jpt’ may be used uninitialized [-Wmaybe-uninitialized]
 1798 |         ih = ipt * (ipt - 1) / 2 + jpt;
      |         ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1589:14: note: ‘jpt’ was declared here
 1589 |     int ipt, jpt;
      |              ^~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2151:8: warning: ‘dnorm’ may be used uninitialized [-Wmaybe-uninitialized]
 2151 |     if (dnorm > rho) {
      |        ^
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1599:12: note: ‘dnorm’ was declared here
 1599 |     double dnorm, ratio, dstep, tenth, vquad;
      |            ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2333:13: warning: ‘itest’ may be used uninitialized [-Wmaybe-uninitialized]
 2333 |             ++itest;
      |             ^~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1602:9: note: ‘itest’ was declared here
 1602 |     int itest;
      |         ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2308:13: warning: ‘ratio’ may be used uninitialized [-Wmaybe-uninitialized]
 2308 |         if (fabs(ratio) > .01) {
      |             ^~~~~~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1599:19: note: ‘ratio’ was declared here
 1599 |     double dnorm, ratio, dstep, tenth, vquad;
      |                   ^~~~~
In function ‘update_’,
    inlined from ‘newuob_’ at nlopt/newuoa/newuoa.c:2261:5,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1462:20: warning: ‘tempb’ may be used uninitialized [-Wmaybe-uninitialized]
 1462 |             w[i__] += tempb * zmat[i__ + jl * zmat_dim1];
      |                    ^~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1393:48: note: ‘tempb’ was declared here
 1393 |     double scala, scalb_, alpha, denom, tempa, tempb, tausq;
      |                                                ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1809:24: warning: ‘fbeg’ may be used uninitialized [-Wmaybe-uninitialized]
 1809 |         hq[ih] = (fbeg - fval[ipt + 1] - fval[jpt + 1] + f) / (xipt * xjpt);
      |                   ~~~~~^~~~~~~~~~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1590:17: note: ‘fbeg’ was declared here
 1590 |     double sum, fbeg, diff, half, beta;
      |                 ^~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2149:11: warning: ‘diffa’ may be used uninitialized [-Wmaybe-uninitialized]
 2149 |     diffb = diffa;
      |     ~~~~~~^~~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1596:36: note: ‘diffa’ was declared here
 1596 |     double zero, xipt, xjpt, sumz, diffa, diffb, diffc, hdiag, alpha,
      |                                    ^~~~~
nlopt/newuoa/newuoa.c:1596:50: warning: ‘diffc’ may be used uninitialized [-Wmaybe-uninitialized]
 1596 |     double zero, xipt, xjpt, sumz, diffa, diffb, diffc, hdiag, alpha,
      |                                                  ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1862:25: warning: ‘nfsav’ may be used uninitialized [-Wmaybe-uninitialized]
 1862 |         if (nf <= nfsav + 2) {
      |                   ~~~~~~^~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1598:16: note: ‘nfsav’ was declared here
 1598 |     int ksave, nfsav, itemp;
      |                ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:1878:23: warning: ‘xoptsq’ may be used uninitialized [-Wmaybe-uninitialized]
 1878 |     if (dsq <= xoptsq * .001) {
      |                ~~~~~~~^~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1606:12: note: ‘xoptsq’ was declared here
 1606 |     double xoptsq;
      |            ^~~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2073:28: warning: ‘alpha’ may be used uninitialized [-Wmaybe-uninitialized]
 2073 |         temp = one + alpha * beta / (d__1 * d__1);
      |                      ~~~~~~^~~~~~
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1596:64: note: ‘alpha’ was declared here
 1596 |     double zero, xipt, xjpt, sumz, diffa, diffb, diffc, hdiag, alpha,
      |                                                                ^~~~~
In function ‘newuob_’,
    inlined from ‘newuoa’ at nlopt/newuoa/newuoa.c:2548:11:
nlopt/newuoa/newuoa.c:2457:8: warning: ‘f’ may be used uninitialized [-Wmaybe-uninitialized]
 2457 |     if (fopt <= f) {
      |        ^
nlopt/newuoa/newuoa.c: In function ‘newuoa’:
nlopt/newuoa/newuoa.c:1582:12: note: ‘f’ was declared here
 1582 |     double f;
      |            ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/praxis/praxis.c -o nlopt/praxis/praxis.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/slsqp/slsqp.c -o nlopt/slsqp/slsqp.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/mt19937ar.c -o nlopt/util/mt19937ar.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/qsort_r.c -o nlopt/util/qsort_r.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/redblack.c -o nlopt/util/redblack.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/rescale.c -o nlopt/util/rescale.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/sobolseq.c -o nlopt/util/sobolseq.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/stop.c -o nlopt/util/stop.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-gcc -std=gnu23 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Inlopt/auglag -Inlopt/bobyqa -Inlopt/cdirect -Inlopt/crs -Inlopt/direct -Inlopt/isres -Inlopt/luksan -Inlopt/mlsl -Inlopt/mma -Inlopt/neldermead -Inlopt/newuoa -Inlopt/praxis -Inlopt/slsqp -DHAVE_COPYSIGN -DHAVE_ISINF -DHAVE_ISNAN -DHAVE_STDINT_H -DHAVE_UNISTD_H -DHAVE_TIME -DHAVE_GETTIMEOFDAY -fPIC  -g -O2  -Wall -Werror=format-security -c nlopt/util/timer.c -o nlopt/util/timer.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_common/BaitClass.cpp -o saint_common/BaitClass.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_common/PreyClass.cpp -o saint_common/PreyClass.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_common/InterClass.cpp -o saint_common/InterClass.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_common/UIClass.cpp -o saint_common/UIClass.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_spc/SpcStats.cpp -o saint_spc/SpcStats.o
saint_spc/SpcStats.cpp: In function ‘saint_spc::Model_data saint_spc::statModel(const Options&, const std::vector<std::vector<long unsigned int> >&, const std::vector<std::__cxx11::basic_string<char> >&, const Countmat&, const Countmat&, const std::vector<long unsigned int>&, size_t, size_t)’:
saint_spc/SpcStats.cpp:62:17: warning: label ‘mu_init’ defined but not used [-Wunused-label]
   62 |                 mu_init:
      |                 ^~~~~~~
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_spc/SpcStats_fns.cpp -o saint_spc/SpcStats_fns.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_spc/SpcMapping.cpp -o saint_spc/SpcMapping.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c SpcEntry.cpp -o SpcEntry.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_int/IntStats.cpp -o saint_int/IntStats.o
saint_int/IntStats.cpp: In function ‘std::pair<double, double> saint_int::mean_sd_estimate(std::valarray<Quant_t>, Quant_t, double, std::pair<double, double>)’:
saint_int/IntStats.cpp:22:136: note: parameter passing for argument of type ‘std::pair<double, double>’ when C++17 is enabled changed to match C++14 in GCC 10.1
   22 | pair<double, double> mean_sd_estimate(const valarray<Quant_t> data, const Quant_t t, const double sd_NA, const pair<double, double> lse) {
      |                                                                                                                                        ^
saint_int/IntStats.cpp: In function ‘saint_int::Model_data saint_int::statModel(const Options&, const std::vector<std::vector<long unsigned int> >&, const std::vector<std::__cxx11::basic_string<char> >&, const Quantmat&, const Quantmat&, const std::vector<long unsigned int>&, size_t, size_t)’:
saint_int/IntStats.cpp:92:13: warning: unused variable ‘L’ [-Wunused-variable]
   92 |         int L = min<size_t>(n_ctrl_ip, L_user_input);
      |             ^
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c saint_int/IntMapping.cpp -o saint_int/IntMapping.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c IntEntry.cpp -o IntEntry.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c GetDICE.cpp -o GetDICE.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c GetPPN.cpp -o GetPPN.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/include" -DNDEBUG  -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/BH/include' -I/usr/local/include   -Inlopt/api -Inlopt -Inlopt/cobyla -Inlopt/util -Isaint_common -Isaint_spc -Isaint_int -fPIC  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
/opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R/lib -L/usr/local/lib -o SMAD.so nlopt/api/deprecated.o nlopt/api/general.o nlopt/api/optimize.o nlopt/api/options.o nlopt/cobyla/cobyla.o nlopt/auglag/auglag.o nlopt/bobyqa/bobyqa.o nlopt/cdirect/cdirect.o nlopt/cdirect/hybrid.o nlopt/crs/crs.o nlopt/direct/DIRect.o nlopt/direct/direct_wrap.o nlopt/direct/DIRserial.o nlopt/direct/DIRsubrout.o nlopt/isres/isres.o nlopt/luksan/mssubs.o nlopt/luksan/plip.o nlopt/luksan/plis.o nlopt/luksan/pnet.o nlopt/luksan/pssubs.o nlopt/mlsl/mlsl.o nlopt/mma/ccsa_quadratic.o nlopt/mma/mma.o nlopt/neldermead/nldrmd.o nlopt/neldermead/sbplx.o nlopt/newuoa/newuoa.o nlopt/praxis/praxis.o nlopt/slsqp/slsqp.o nlopt/util/mt19937ar.o nlopt/util/qsort_r.o nlopt/util/redblack.o nlopt/util/rescale.o nlopt/util/sobolseq.o nlopt/util/stop.o nlopt/util/timer.o saint_common/BaitClass.o saint_common/PreyClass.o saint_common/InterClass.o saint_common/UIClass.o saint_spc/SpcStats.o saint_spc/SpcStats_fns.o saint_spc/SpcMapping.o SpcEntry.o saint_int/IntStats.o saint_int/IntMapping.o IntEntry.o GetDICE.o GetPPN.o RcppExports.o -L/home/biocbuild/R/R/lib -lR
installing to /home/biocbuild/R/R-devel_2025-02-19/site-library/00LOCK-SMAD/00new/SMAD/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
sh: line 1: /bin/kstat: No such file or directory
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
sh: line 1: /bin/kstat: No such file or directory
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
sh: line 1: /bin/kstat: No such file or directory
** testing if installed package keeps a record of temporary installation path
* DONE (SMAD)