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BUILD BIN report for ACME on merida2

This page was generated on 2018-10-17 08:47:18 -0400 (Wed, 17 Oct 2018).

Package 12/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ACME 2.36.0
Sean Davis
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/ACME
Branch: RELEASE_3_7
Last Commit: 39e0564
Last Changed Date: 2018-04-30 10:35:07 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK [ OK ]UNNEEDED, same version exists in internal repository

Summary

Package: ACME
Version: 2.36.0
Command: rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.36.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ACME.buildbin-libdir
StartedAt: 2018-10-17 00:52:48 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 00:53:16 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 27.7 seconds
RetCode: 0
Status:  OK 
PackageFile: ACME_2.36.0.tgz
PackageFileSize: 9.63 MiB

Command output

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###
### Running command:
###
###   rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.36.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ACME.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ACME.buildbin-libdir ACME_2.36.0.tar.gz'
>>>>>>> 

* installing *source* package ‘ACME’ ...
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c windowChisq.c -o windowChisq.o
windowChisq.c:57:71: warning: & has lower precedence than >; > will be evaluated first [-Wparentheses]
    while((xlocations[i]-xlocations[firstprobe-1] < (halfWindowSize)) &
                                                                      ^
windowChisq.c:57:71: note: place parentheses around the '>' expression to silence this warning
    while((xlocations[i]-xlocations[firstprobe-1] < (halfWindowSize)) &
                                                                      ^
windowChisq.c:57:71: note: place parentheses around the & expression to evaluate it first
    while((xlocations[i]-xlocations[firstprobe-1] < (halfWindowSize)) &
                                                                      ^
windowChisq.c:62:70: warning: & has lower precedence than <; < will be evaluated first [-Wparentheses]
    while((xlocations[lastprobe+1]-xlocations[i] < (halfWindowSize)) &
                                                                     ^
windowChisq.c:62:70: note: place parentheses around the '<' expression to silence this warning
    while((xlocations[lastprobe+1]-xlocations[i] < (halfWindowSize)) &
                                                                     ^
windowChisq.c:62:70: note: place parentheses around the & expression to evaluate it first
    while((xlocations[lastprobe+1]-xlocations[i] < (halfWindowSize)) &
                                                                     ^
windowChisq.c:21:11: warning: unused variable 'xa' [-Wunused-variable]
  double *xa,*xlocations,*xchivals;
          ^
windowChisq.c:86:20: warning: incompatible function pointer types initializing 'DL_FUNC' (aka 'void *(*)()') with an expression of type 'SEXP (*)(SEXP, SEXP, SEXP, SEXP, SEXP)' (aka 'struct SEXPREC *(*)(struct SEXPREC *, struct SEXPREC *, struct SEXPREC *, struct SEXPREC *, struct SEXPREC *)') [-Wincompatible-function-pointer-types]
    {"windowChisq",&windowChisq,5},
                   ^˜˜˜˜˜˜˜˜˜˜˜
4 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o ACME.so windowChisq.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.7-bioc/meat/ACME.buildbin-libdir/ACME/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
* DONE (ACME)


>>>>>>> 
>>>>>>> FIXING LINKS FOR ACME.buildbin-libdir/ACME/libs//ACME.so
>>>>>>> 

install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgcc_s.1.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libgfortran.3.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.5.2.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libreadline.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.5/Resources/lib/libquadmath.0.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"