* installing *source* package ‘Cubist’ ...
** package ‘Cubist’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: ‘clang version 18.1.2’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Cubist/src'
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c construct.c -o construct.o
In file included from construct.c:37:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from construct.c:37:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c contin.c -o contin.o
In file included from contin.c:49:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from contin.c:49:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c discr.c -o discr.o
In file included from discr.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from discr.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c formrules.c -o formrules.o
In file included from formrules.c:43:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from formrules.c:43:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
formrules.c:245:14: warning: variable 'Bestid' set but not used [-Wunused-but-set-variable]
245 | int d, id, Bestid, Remaining = NCond;
| ^
3 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c formtree.c -o formtree.o
In file included from formtree.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from formtree.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c getdata.c -o getdata.o
In file included from getdata.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from getdata.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c getnames.c -o getnames.o
In file included from getnames.c:40:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from getnames.c:40:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c global.c -o global.o
In file included from global.c:35:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from global.c:35:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c hash.c -o hash.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c implicitatt.c -o implicitatt.o
In file included from implicitatt.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from implicitatt.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c instance.c -o instance.o
In file included from instance.c:29:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from instance.c:29:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
instance.c:237:21: warning: variable 'IErr' set but not used [-Wunused-but-set-variable]
237 | double RSErr = 0, IErr = 0, RSIErr = 0, AvRules = 0;
| ^
3 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c modelfiles.c -o modelfiles.o
In file included from modelfiles.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from modelfiles.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c predict.c -o predict.o
In file included from predict.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from predict.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c prunetree.c -o prunetree.o
In file included from prunetree.c:29:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from prunetree.c:29:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rcubist.c -o rcubist.o
In file included from rcubist.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from rcubist.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c redefine.c -o redefine.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c regress.c -o regress.o
In file included from regress.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from regress.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rsample.c -o rsample.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rulebasedmodels.c -o rulebasedmodels.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c rules.c -o rules.o
In file included from rules.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from rules.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sample.c -o sample.o
sample.c:20:10: warning: variable 'pval' set but not used [-Wunused-but-set-variable]
20 | double pval;
| ^
1 warning generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c sort.c -o sort.o
In file included from sort.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from sort.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c stats.c -o stats.o
In file included from stats.c:29:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from stats.c:29:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c strbuf.c -o strbuf.o
strbuf.c:193:11: warning: unused variable 'ap3' [-Wunused-variable]
193 | va_list ap3;
| ^~~
1 warning generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c top.c -o top.o
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c trees.c -o trees.o
In file included from trees.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from trees.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c update.c -o update.o
In file included from update.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from update.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c utility.c -o utility.o
In file included from utility.c:38:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from utility.c:38:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -I"/data/gannet/ripley/R/R-clang/include" -DNDEBUG -isystem /usr/local/clang18/include -I/usr/local/clang/include -fpic -O3 -Wall -pedantic -Wp,-D_FORTIFY_SOURCE=3 -c xval.c -o xval.o
In file included from xval.c:36:
./transform.h:17:9: warning: 'fprintf' macro redefined [-Wmacro-redefined]
17 | #define fprintf rbm_fprintf
| ^
/usr/include/bits/stdio2.h:91:11: note: previous definition is here
91 | # define fprintf(stream, ...) \
| ^
In file included from xval.c:36:
./transform.h:25:9: warning: 'printf' macro redefined [-Wmacro-redefined]
25 | #define printf Rprintf
| ^
/usr/include/bits/stdio2.h:89:11: note: previous definition is here
89 | # define printf(...) \
| ^
2 warnings generated.
/usr/local/clang18/bin/clang -shared -L/usr/local/clang/lib64 -L/usr/local/clang18/lib -L/usr/local/clang18/lib/x86_64-unknown-linux-gnu -L/usr/local/gcc13/lib64 -L/usr/local/lib64 -o Cubist.so construct.o contin.o discr.o formrules.o formtree.o getdata.o getnames.o global.o hash.o implicitatt.o instance.o modelfiles.o predict.o prunetree.o rcubist.o redefine.o regress.o rsample.o rulebasedmodels.o rules.o sample.o sort.o stats.o strbuf.o top.o trees.o update.o utility.o xval.o
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Cubist/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-clang/Cubist/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-clang/Cubist/src'
installing to /data/gannet/ripley/R/packages/tests-clang/Cubist.Rcheck/00LOCK-Cubist/00new/Cubist/libs
** R
** 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 (Cubist)