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### Running command:
###
### rm -rf scGraphVerse.buildbin-libdir && mkdir scGraphVerse.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh scGraphVerse_0.99.19.tar.gz /Library/Frameworks/R.framework/Resources/bin/R scGraphVerse.buildbin-libdir
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>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=scGraphVerse.buildbin-libdir scGraphVerse_0.99.19.tar.gz'
>>>>>>>
* installing *source* package ‘scGraphVerse’ ...
** this is package ‘scGraphVerse’ version ‘0.99.19’
** using staged installation
** libs
using C compiler: ‘Apple clang version 14.0.0 (clang-1400.0.29.202)’
using SDK: ‘MacOSX11.3.1.sdk’
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c init.c -o init.o
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c regTree.c -o regTree.o
regTree.c:232:15: warning: variable 'lc' set but not used [-Wunused-but-set-variable]
int last, lc, nl, nr, npopl, npopr;
^
regTree.c:418:19: warning: unused variable 'cbestsplit' [-Wunused-variable]
int i, k, m, *cbestsplit, s;
^
2 warnings generated.
clang -arch x86_64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/opt/R/x86_64/include -fPIC -falign-functions=64 -Wall -g -O2 -c regrf.c -o regrf.o
regrf.c:62:12: warning: unused variable 'errts' [-Wunused-variable]
double errts = 0.0, averrb, *meanYts, *varYts, r, *xrand,
^
regrf.c:65:30: warning: variable 'ytr' set but not used [-Wunused-but-set-variable]
double *yb, *xtmp, *xb, *ytr, *ytree, *tgini, *meanY, *varY, *ww;
^
regrf.c:71:22: warning: variable 'nodex' set but not used [-Wunused-but-set-variable]
int *in, *nind, *nodex, *nodexts;
^
regrf.c:71:30: warning: unused variable 'nodexts' [-Wunused-variable]
int *in, *nind, *nodex, *nodexts;
^
regrf.c:67:61: warning: variable 'nPerm' set but not used [-Wunused-but-set-variable]
int k, m, mr, n, nOOB, j, jout, idx, ntest, last, ktmp, nPerm,
^
regrf.c:65:18: warning: variable 'xtmp' set but not used [-Wunused-but-set-variable]
double *yb, *xtmp, *xb, *ytr, *ytree, *tgini, *meanY, *varY, *ww;
^
regrf.c:63:51: warning: variable 'resOOB' set but not used [-Wunused-but-set-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:63:43: warning: unused variable 'delta' [-Wunused-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:63:31: warning: unused variable 'ooberrperm' [-Wunused-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:63:23: warning: variable 'ooberr' set but not used [-Wunused-but-set-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:67:15: warning: unused variable 'mr' [-Wunused-variable]
int k, m, mr, n, nOOB, j, jout, idx, ntest, last, ktmp, nPerm,
^
regrf.c:69:10: warning: variable 'oobpair' set but not used [-Wunused-but-set-variable]
int *oobpair, varImp, localImp, *varUsed, kk;
^
regrf.c:63:11: warning: unused variable 'resid' [-Wunused-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:67:22: warning: unused variable 'nOOB' [-Wunused-variable]
int k, m, mr, n, nOOB, j, jout, idx, ntest, last, ktmp, nPerm,
^
regrf.c:63:5: warning: variable 'errb' set but not used [-Wunused-but-set-variable]
*errb, resid=0.0, *ooberr, ooberrperm, delta, *resOOB;
^
regrf.c:62:53: warning: unused variable 'r' [-Wunused-variable]
double errts = 0.0, averrb, *meanYts, *varYts, r, *xrand,
^
regrf.c:67:31: warning: unused variable 'jout' [-Wunused-variable]
int k, m, mr, n, nOOB, j, jout, idx, ntest, last, ktmp, nPerm,
^
regrf.c:65:36: warning: unused variable 'ytree' [-Wunused-variable]
double *yb, *xtmp, *xb, *ytr, *ytree, *tgini, *meanY, *varY, *ww;
^
regrf.c:62:25: warning: variable 'averrb' set but not used [-Wunused-but-set-variable]
double errts = 0.0, averrb, *meanYts, *varYts, r, *xrand,
^
19 warnings generated.
clang -arch x86_64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/x86_64/lib -o scGraphVerse.so init.o regTree.o regrf.o -F/Library/Frameworks/R.framework/.. -framework R
installing to /Users/biocbuild/bbs-3.22-bioc/meat/scGraphVerse.buildbin-libdir/00LOCK-scGraphVerse/00new/scGraphVerse/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 (scGraphVerse)
>>>>>>>
>>>>>>> FIXING PATHS TO DYNAMIC LIBRARIES FOR scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so
>>>>>>>
>>>>>>> Paths before fix:
scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so:
scGraphVerse.so (compatibility version 0.0.0, current version 0.0.0)
/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.1)
/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)
>>>>>>> Fix with install_name_tool:
install_name_tool -change "/usr/local/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libgcc_s.1.1.dylib" "scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so"
install_name_tool -change "/usr/local/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libgfortran.5.dylib" "scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libquadmath.0.dylib" "scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so"
>>>>>>> Paths after fix:
scGraphVerse.buildbin-libdir/scGraphVerse/libs/scGraphVerse.so:
scGraphVerse.so (compatibility version 0.0.0, current version 0.0.0)
/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/lib/libR.dylib (compatibility version 4.5.0, current version 4.5.1)
/usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version 1292.100.5)
