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BioC 2.14: BUILD BIN report for ACME on morelia

This page was generated on 2014-10-08 09:03:09 -0700 (Wed, 08 Oct 2014).

Package 10/824HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ACME 2.20.0
Sean Davis
Snapshot Date: 2014-10-07 17:20:37 -0700 (Tue, 07 Oct 2014)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/ACME
Last Changed Rev: 88838 / Revision: 95116
Last Changed Date: 2014-04-11 14:07:21 -0700 (Fri, 11 Apr 2014)
zin2 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK 
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK [ OK ]

Summary

Package: ACME
Version: 2.20.0
Command: rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.20.0.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R ACME.buildbin-libdir
StartedAt: 2014-10-08 02:44:57 -0700 (Wed, 08 Oct 2014)
EndedAt: 2014-10-08 02:45:06 -0700 (Wed, 08 Oct 2014)
EllapsedTime: 8.8 seconds
RetCode: 0
Status:  OK 
PackageFile: ACME_2.20.0.tgz
PackageFileSize: 9.539 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.20.0.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_2.20.0.tar.gz'
>>>>>>> 

* installing *source* package ‘ACME’ ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include    -fPIC  -Wall -mtune=core2 -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 pointer types initializing 'DL_FUNC' (aka 'void *(*)()') with an expression of type 'SEXP (*)(SEXP, SEXP, SEXP, SEXP, SEXP)' [-Wincompatible-pointer-types]
    {"windowChisq",&windowChisq,5},
                   ^˜˜˜˜˜˜˜˜˜˜˜
4 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -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-2.14-bioc/meat/ACME.buildbin-libdir/ACME/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for ‘print’ from package ‘base’ in package ‘ACME’
** 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/3.1/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/3.1/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/3.1/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/3.1/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/3.1/Resources/lib/libquadmath.0.dylib" "ACME.buildbin-libdir/ACME/libs//ACME.so"