downloading reverse dependencies ...
downloading UpSetVP_1.0.0.tar.gz ... ok

installing dependencies ‘adespatial’, ‘rdacca.hp’

also installing the dependency ‘adephylo’

begin installing package ‘adephylo’
begin installing package ‘rdacca.hp’
* installing *source* package ‘rdacca.hp’ ...
** using staged installation
** R
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (rdacca.hp)
* installing *source* package ‘adephylo’ ...
** package ‘adephylo’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-1) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpT6trJF/R.INSTALLec6612580d937/adephylo/src'
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c adesub.c -o adesub.o
adesub.c: In function ‘getpermutation’:
adesub.c:479:15: warning: unused variable ‘seed’ [-Wunused-variable]
  479 |     int i, n, seed;
      |               ^~~~
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c distPhylo.c -o distPhylo.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c misc.c -o misc.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c phylog.c -o phylog.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c sptips.c -o sptips.o
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o adephylo.so adesub.o distPhylo.o init.o misc.o phylog.o sptips.o -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpT6trJF/R.INSTALLec6612580d937/adephylo/src'
installing to /home/hornik/tmp/CRAN/Library/00LOCK-adephylo/00new/adephylo/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (adephylo)
begin installing package ‘adespatial’
* installing *source* package ‘adespatial’ ...
** package ‘adespatial’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘gcc-14 (Debian 14.2.0-1) 14.2.0’
make[1]: Entering directory '/home/hornik/tmp/scratch/RtmpiWUQqk/R.INSTALLec6f158738f7f/adespatial/src'
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c WRperiodogram.c -o WRperiodogram.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c adesub.c -o adesub.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c betadiv.c -o betadiv.o
betadiv.c: In function ‘euclidean’:
betadiv.c:36:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
   36 |     for (i = 0; i < I; i++)
      |     ^~~
In file included from betadiv.c:7:
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:42:9: note: in expansion of macro ‘UNPROTECT’
   42 |         UNPROTECT(3);
      |         ^~~~~~~~~
betadiv.c: In function ‘manhattan’:
betadiv.c:476:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  476 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:483:9: note: in expansion of macro ‘UNPROTECT’
  483 |         UNPROTECT(3);
      |         ^~~~~~~~~
betadiv.c: In function ‘canberra’:
betadiv.c:506:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  506 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:530:9: note: in expansion of macro ‘UNPROTECT’
  530 |         UNPROTECT(4);
      |         ^~~~~~~~~
betadiv.c: In function ‘kulczynski’:
betadiv.c:549:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  549 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:563:9: note: in expansion of macro ‘UNPROTECT’
  563 |         UNPROTECT(3);
      |         ^~~~~~~~~
betadiv.c: In function ‘divergence’:
betadiv.c:586:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  586 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:608:9: note: in expansion of macro ‘UNPROTECT’
  608 |         UNPROTECT(4);
      |         ^~~~~~~~~
betadiv.c: In function ‘modmean’:
betadiv.c:630:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  630 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:646:9: note: in expansion of macro ‘UNPROTECT’
  646 |         UNPROTECT(4);
      |         ^~~~~~~~~
betadiv.c: In function ‘whittaker’:
betadiv.c:701:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  701 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:718:9: note: in expansion of macro ‘UNPROTECT’
  718 |         UNPROTECT(3);
      |         ^~~~~~~~~
betadiv.c: In function ‘wishart’:
betadiv.c:737:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  737 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:752:9: note: in expansion of macro ‘UNPROTECT’
  752 |         UNPROTECT(3);
      |         ^~~~~~~~~
betadiv.c: In function ‘percentdiff’:
betadiv.c:982:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
  982 |     for (i = 0; i < I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:1000:9: note: in expansion of macro ‘UNPROTECT’
 1000 |         UNPROTECT(6);
      |         ^~~~~~~~~
betadiv.c: In function ‘binary_D’:
betadiv.c:1020:5: warning: this ‘for’ clause does not guard... [-Wmisleading-indentation]
 1020 |     for (i=0; i<I; i++)
      |     ^~~
/home/hornik/tmp/R-d-gcc-14/include/Rinternals.h:386:25: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘for’
  386 | #define UNPROTECT(n)    Rf_unprotect(n)
      |                         ^~~~~~~~~~~~
betadiv.c:1035:9: note: in expansion of macro ‘UNPROTECT’
 1035 |         UNPROTECT(4);
      |         ^~~~~~~~~
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c buildbinary.c -o buildbinary.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c constr.hclust.c -o constr.hclust.o
constr.hclust.c: In function ‘initNNlist’:
constr.hclust.c:109:15: warning: ‘nn’ may be used uninitialized [-Wmaybe-uninitialized]
  109 |     nn_idx[i] = nn;
      |     ~~~~~~~~~~^~~~
constr.hclust.c:99:25: note: ‘nn’ was declared here
   99 |   unsigned int i, j, k, nn;
      |                         ^~
constr.hclust.c: In function ‘updateNNlist’:
constr.hclust.c:130:13: warning: ‘nn’ may be used uninitialized [-Wmaybe-uninitialized]
  130 |   nn_idx[i] = nn;
      |   ~~~~~~~~~~^~~~
constr.hclust.c:121:22: note: ‘nn’ was declared here
  121 |   unsigned int j, k, nn;
      |                      ^~
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c forward.c -o forward.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c init.c -o init.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c stipermute.c -o stipermute.o
gcc-14  -I"/home/hornik/tmp/R-d-gcc-14/include" -DNDEBUG   -I/usr/local/include -DUSE_TYPE_CHECKING_STRICT -D_FORTIFY_SOURCE=3   -fpic  -g -O2 -Wall -Wstrict-prototypes -pedantic -mtune=native  -c testsmoran.c -o testsmoran.o
gcc-14 -shared -L/home/hornik/tmp/R-d-gcc-14/lib -Wl,-O1 -o adespatial.so WRperiodogram.o adesub.o betadiv.o buildbinary.o constr.hclust.o forward.o init.o stipermute.o testsmoran.o -llapack -L/home/hornik/tmp/R-d-gcc-14/lib -lRblas -lgfortran -lm -lquadmath -L/home/hornik/tmp/R-d-gcc-14/lib -lR
make[1]: Leaving directory '/home/hornik/tmp/scratch/RtmpiWUQqk/R.INSTALLec6f158738f7f/adespatial/src'
installing to /home/hornik/tmp/CRAN/Library/00LOCK-adespatial/00new/adespatial/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (adespatial)

checking rdacca.hp_1.1-1.tar.gz ...
checking UpSetVP_1.0.0.tar.gz ...

Depends:
Package: rdacca.hp
  Depends: R (>= 3.4.0),vegan,ggplot2

Timings:
            user system elapsed
rdacca.hp 47.277  5.166  54.237

Results:
Check status summary:
                  NOTE OK
  Source packages    0  1
  Reverse depends    1  0

Check results summary:
rdacca.hp ... OK
rdepends_UpSetVP ... NOTE
* checking Rd cross-references ... NOTE