r on macOS 10.12.6 - Homebrew build logs

# r - 2017-08-18_14-41-40.txt

Homebrew build logs for r on macOS 10.12.6
Build date: 2017-08-18 14:41:40

00.config.out

HOMEBREW_VERSION: 1.3.1
ORIGIN: https://github.com/Homebrew/brew.git
HEAD: 69799d97b1e7314912b2ee234dec2c179c5fb969
Last commit: 11 days ago
Core tap ORIGIN: https://github.com/Homebrew/homebrew-core
Core tap HEAD: eb16820de48f879a31ba1cbe0e1895811da19a68
Core tap last commit: 8 minutes ago
HOMEBREW_PREFIX: /usr/local
HOMEBREW_REPOSITORY: /usr/local/Homebrew
HOMEBREW_CELLAR: /usr/local/Cellar
HOMEBREW_BOTTLE_DOMAIN: https://homebrew.bintray.com
CPU: quad-core 64-bit haswell
Homebrew Ruby: 2.0.0-p648
Clang: 8.1 build 802
Git: 2.11.0 => /Applications/Xcode.app/Contents/Developer/usr/bin/git
Perl: /usr/bin/perl
Python: /usr/bin/python
Ruby: /usr/bin/ruby => /System/Library/Frameworks/Ruby.framework/Versions/2.0/usr/bin/ruby
Java: N/A
macOS: 10.12.6-x86_64
Xcode: 8.3.3
CLT: 8.3.2.0.1.1492020469
X11: 2.7.11 => /opt/X11

00.doctor.out

Your system is ready to brew.

00.options.out

r

01.configure

2017-08-18 14:41:39 +0200

./configure
--prefix=/usr/local/Cellar/r/3.4.1_1
--enable-memory-profiling
--without-cairo
--without-x
--with-aqua
--with-lapack
--enable-R-shlib
SED=/usr/bin/sed
--with-blas=-framework Accelerate
--disable-java

checking build system type... x86_64-apple-darwin16.7.0
checking host system type... x86_64-apple-darwin16.7.0
loading site script './config.site'
loading build-specific script './config.site'
checking for pwd... /bin/pwd
checking whether builddir is srcdir... yes
checking for working aclocal... missing
checking for working autoconf... missing
checking for working automake... missing
checking for working autoheader... missing
checking whether ln -s works... yes
checking for bison... bison -y
checking for ar... ar
checking for a BSD-compatible install... /usr/bin/install -c
checking for sed... /usr/bin/sed
checking for which... /usr/bin/which
checking for less... /usr/bin/less
checking for gtar... no
checking for gnutar... no
checking for tar... /usr/bin/tar
checking for tex... no
checking for pdftex... no
configure: WARNING: you cannot build PDF versions of the R manuals
checking for pdflatex... no
configure: WARNING: you cannot build PDF versions of vignettes and help pages
checking for makeindex... no
checking for texi2any... no
configure: WARNING: you cannot build info or HTML versions of the R manuals
checking for texi2dvi... /usr/bin/texi2dvi
checking for kpsewhich... no
checking for latex inconsolata package... checking for unzip... /usr/bin/unzip
checking for zip... /usr/bin/zip
checking for gzip... /usr/bin/gzip
checking for bzip2... /usr/bin/bzip2
checking for firefox... no
checking for mozilla... no
checking for galeon... no
checking for opera... no
checking for xdg-open... no
checking for kfmclient... no
checking for gnome-moz-remote... no
checking for open... /usr/bin/open
using default browser ... /usr/bin/open
checking for acroread... no
checking for acroread4... no
checking for xdg-open... no
checking for evince... no
checking for xpdf... no
checking for gv... no
checking for gnome-gv... no
checking for ggv... no
checking for okular... no
checking for kpdf... no
checking for open... /usr/bin/open
checking for notangle... false
checking for realpath... false
checking for pkg-config... /usr/local/opt/pkg-config/bin/pkg-config
checking for gcc... clang

01.configure.cc

clang called with: --version
superenv added:    -pipe -Os -march=native -isystem/usr/local/include -isystem/usr/include/libxml2 -isystem/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -I/usr/local/opt/gettext/include -I/usr/local/opt/readline/include -L/usr/local/opt/gettext/lib -L/usr/local/opt/readline/lib -L/usr/local/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names
superenv executed: clang -pipe -Os -march=native --version -isystem/usr/local/include -isystem/usr/include/libxml2 -isystem/System/Library/Frameworks/OpenGL.framework/Versions/Current/Headers -I/usr/local/opt/gettext/include -I/usr/local/opt/readline/include -L/usr/local/opt/gettext/lib -L/usr/local/opt/readline/lib -L/usr/local/lib -L/System/Library/Frameworks/OpenGL.framework/Versions/Current/Libraries -Wl,-headerpad_max_install_names

config.log

This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.

It was created by R configure 3.4.1, which was
generated by GNU Autoconf 2.69.  Invocation command line was

  $ ./configure --prefix=/usr/local/Cellar/r/3.4.1_1 --enable-memory-profiling --without-cairo --without-x --with-aqua --with-lapack --enable-R-shlib SED=/usr/bin/sed --with-blas=-framework Accelerate --disable-java

## --------- ##
## Platform. ##
## --------- ##

hostname = skywalker.local
uname -m = x86_64
uname -r = 16.7.0
uname -s = Darwin
uname -v = Darwin Kernel Version 16.7.0: Thu Jun 15 17:36:27 PDT 2017; root:xnu-3789.70.16~2/RELEASE_X86_64

/usr/bin/uname -p = i386
/bin/uname -X     = unknown

/bin/arch              = unknown
/usr/bin/arch -k       = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo      = Mach kernel version:
	 Darwin Kernel Version 16.7.0: Thu Jun 15 17:36:27 PDT 2017; root:xnu-3789.70.16~2/RELEASE_X86_64
Kernel configured for up to 4 processors.
2 processors are physically available.
4 processors are logically available.
Processor type: x86_64h (Intel x86-64h Haswell)
Processors active: 0 1 2 3
Primary memory available: 8.00 gigabytes
Default processor set: 304 tasks, 1096 threads, 4 processors
Load average: 2.42, Mach factor: 1.91
/bin/machine           = unknown
/usr/bin/oslevel       = unknown
/bin/universe          = unknown

PATH: /usr/local/Homebrew/Library/Homebrew/shims/super
PATH: /usr/local/opt/pkg-config/bin
PATH: /usr/local/opt/gettext/bin
PATH: /usr/local/opt/jpeg/bin
PATH: /usr/local/opt/libpng/bin
PATH: /usr/local/opt/pcre/bin
PATH: /usr/local/opt/xz/bin
PATH: /usr/local/opt/gcc/bin
PATH: /usr/bin
PATH: /bin
PATH: /usr/sbin
PATH: /sbin
PATH: /usr/local/Cellar/gcc/7.2.0/bin


## ----------- ##
## Core tests. ##
## ----------- ##

configure:3640: checking build system type
configure:3654: result: x86_64-apple-darwin16.7.0
configure:3674: checking host system type
configure:3687: result: x86_64-apple-darwin16.7.0
configure:4385: checking for pwd
configure:4403: found /bin/pwd
configure:4416: result: /bin/pwd
configure:4424: checking whether builddir is srcdir
configure:4432: result: yes
configure:4437: checking for working aclocal
configure:4445: result: missing
configure:4450: checking for working autoconf
configure:4458: result: missing
configure:4463: checking for working automake
configure:4471: result: missing
configure:4476: checking for working autoheader
configure:4484: result: missing
configure:4489: checking whether ln -s works
configure:4493: result: yes
configure:4504: checking for bison
configure:4520: found /usr/bin/bison
configure:4531: result: bison -y
configure:4547: checking for ar
configure:4563: found /usr/bin/ar
configure:4574: result: ar
configure:4602: checking for a BSD-compatible install
configure:4670: result: /usr/bin/install -c
configure:4705: checking for sed
configure:4736: result: /usr/bin/sed
configure:4754: checking for which
configure:4772: found /usr/bin/which
configure:4784: result: /usr/bin/which
configure:4804: checking for less
configure:4822: found /usr/bin/less
configure:4834: result: /usr/bin/less
configure:4857: checking for gtar
configure:4890: result: no
configure:4857: checking for gnutar
configure:4890: result: no
configure:4857: checking for tar
configure:4875: found /usr/bin/tar
configure:4887: result: /usr/bin/tar
configure:4909: checking for tex
configure:4942: result: no
configure:4954: checking for pdftex
configure:4987: result: no
configure:4997: WARNING: you cannot build PDF versions of the R manuals
configure:5004: checking for pdflatex
configure:5037: result: no
configure:5047: WARNING: you cannot build PDF versions of vignettes and help pages
configure:5054: checking for makeindex
configure:5087: result: no
configure:5099: checking for texi2any
configure:5132: result: no
configure:5221: WARNING: you cannot build info or HTML versions of the R manuals
configure:5232: checking for texi2dvi
configure:5250: found /usr/bin/texi2dvi
configure:5262: result: /usr/bin/texi2dvi
configure:5282: checking for kpsewhich
configure:5315: result: no
configure:5324: checking for latex inconsolata package
configure:5357: checking for unzip
configure:5375: found /usr/bin/unzip
configure:5387: result: /usr/bin/unzip
configure:5403: checking for zip
configure:5421: found /usr/bin/zip
configure:5433: result: /usr/bin/zip
configure:5449: checking for gzip
configure:5467: found /usr/bin/gzip
configure:5479: result: /usr/bin/gzip
configure:5495: checking for bzip2
configure:5513: found /usr/bin/bzip2
configure:5525: result: /usr/bin/bzip2
configure:5543: checking for firefox
configure:5576: result: no
configure:5543: checking for mozilla
configure:5576: result: no
configure:5543: checking for galeon
configure:5576: result: no
configure:5543: checking for opera
configure:5576: result: no
configure:5543: checking for xdg-open
configure:5576: result: no
configure:5543: checking for kfmclient
configure:5576: result: no
configure:5543: checking for gnome-moz-remote
configure:5576: result: no
configure:5543: checking for open
configure:5561: found /usr/bin/open
configure:5573: result: /usr/bin/open
configure:5590: result: using default browser ... /usr/bin/open
configure:5600: checking for acroread
configure:5633: result: no
configure:5600: checking for acroread4
configure:5633: result: no
configure:5600: checking for xdg-open
configure:5633: result: no
configure:5600: checking for evince
configure:5633: result: no
configure:5600: checking for xpdf
configure:5633: result: no
configure:5600: checking for gv
configure:5633: result: no
configure:5600: checking for gnome-gv
configure:5633: result: no
configure:5600: checking for ggv
configure:5633: result: no
configure:5600: checking for okular
configure:5633: result: no
configure:5600: checking for kpdf
configure:5633: result: no
configure:5600: checking for open
configure:5618: found /usr/bin/open
configure:5630: result: /usr/bin/open
configure:5651: checking for notangle
configure:5682: result: false
configure:5698: checking for realpath
configure:5729: result: false
configure:5743: checking for pkg-config
configure:5762: found /usr/local/opt/pkg-config/bin/pkg-config
configure:5774: result: /usr/local/opt/pkg-config/bin/pkg-config
configure:5834: checking for gcc
configure:5861: result: clang
configure:6090: checking for C compiler version
configure:6099: clang --version >&5