Back to Mac ARM64 build report for BioC 3.16
[A]BCDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2023-04-19 11:01:53 -0400 (Wed, 19 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnsonmacOS 13.0 Venturaarm644.2.2 (2022-10-31) -- "Innocent and Trusting" 4256
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

BUILD BIN results for ACME on kjohnson


To the developers/maintainers of the ACME package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 13/2183HostnameOS / ArchINSTALLBUILDBUILD BIN
ACME 2.54.0  (landing page)
Sean Davis
Snapshot Date: 2023-04-12 13:00:02 -0400 (Wed, 12 Apr 2023)
git_url: https://git.bioconductor.org/packages/ACME
git_branch: RELEASE_3_16
git_last_commit: 8d39d9d
git_last_commit_date: 2022-11-01 11:03:24 -0400 (Tue, 01 Nov 2022)
kjohnsonmacOS 13.0 Ventura / arm64  OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: ACME
Version: 2.54.0
Command: rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.54.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R ACME.buildbin-libdir
StartedAt: 2023-04-18 13:27:18 -0400 (Tue, 18 Apr 2023)
EndedAt: 2023-04-18 13:27:39 -0400 (Tue, 18 Apr 2023)
EllapsedTime: 21.0 seconds
RetCode: 0
Status:   OK  
PackageFile: ACME_2.54.0.tgz
PackageFileSize: 10.14 MiB

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf ACME.buildbin-libdir && mkdir ACME.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh ACME_2.54.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R ACME.buildbin-libdir
###
##############################################################################
##############################################################################


>>>>>>> 
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=ACME.buildbin-libdir ACME_2.54.0.tar.gz'
>>>>>>> 

* installing *source* package ‘ACME’ ...
** using staged installation
** libs
clang -arch arm64 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include   -fPIC  -falign-functions=64 -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 -arch arm64 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/lib -o ACME.so windowChisq.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
ld: warning: -undefined dynamic_lookup may not work with chained fixups
installing to /Volumes/External/bbs-3.16-bioc-m1/meat/ACME.buildbin-libdir/00LOCK-ACME/00new/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 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 (ACME)


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

install_name_tool -change "/opt/R/arm64/lib/libgcc_s.1.1.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgcc_s.1.1.dylib" "ACME.buildbin-libdir/ACME/libs/ACME.so"
install_name_tool -change "/opt/R/arm64/lib/libgfortran.5.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libgfortran.5.dylib" "ACME.buildbin-libdir/ACME/libs/ACME.so"
install_name_tool -change "/opt/R/arm64/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libquadmath.0.dylib" "ACME.buildbin-libdir/ACME/libs/ACME.so"