printf '
' | fink --no-use-binary-dist --yes --build-as-nobody rebuild cran-gsl-r30 2>&1
The package 'cran-gsl-r30' will be built without being installed.
Reading build dependency for cran-gsl-r30-1.9-10-1...
Reading dependency for cran-gsl-r30-1.9-10-1...
Reading build conflict for cran-gsl-r30-1.9-10-1...
The package 'r-base30-dev' will be installed.
Reading dependency for r-base30-dev-3.0.3-8...
Reading runtime dependency for r-base30-dev-3.0.3-8...
The package 'gsl' will be installed.
Reading dependency for gsl-1.16-1...
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The package 'libgettext8-dev' will be installed.
Reading dependency for libgettext8-dev-0.18.3.1-2...
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The package 'r-base30' will be installed.
Reading dependency for r-base30-3.0.3-8...
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The package 'gsl-shlibs' will be installed.
Reading dependency for gsl-shlibs-1.16-1...
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The package 'r-base30-shlibs' will be installed.
Reading dependency for r-base30-shlibs-3.0.3-8...
Reading runtime dependency for r-base30-shlibs-3.0.3-8...
The package 'gettext-bin' will be installed.
Reading dependency for gettext-bin-0.18.3.1-2...
Reading runtime dependency for gettext-bin-0.18.3.1-2...
The package 'flag-sort' will be installed.
Reading dependency for flag-sort-0.5-1...
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The package 'cairo-shlibs' will be installed.
Reading dependency for cairo-shlibs-1.12.14-1...
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The package 'gcc49-shlibs' will be installed.
Reading dependency for gcc49-shlibs-4.9.1-1000...
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The package 'glib2-shlibs' will be installed.
Reading dependency for glib2-shlibs-2.22.4-8...
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The package 'libicu48-shlibs' will be installed.
Reading dependency for libicu48-shlibs-4.8.1.1-2...
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The package 'libjpeg9-shlibs' will be installed.
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The package 'liblzma5-shlibs' will be installed.
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The package 'libpng16-shlibs' will be installed.
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The package 'libtiff5-shlibs' will be installed.
Reading dependency for libtiff5-shlibs-4.0.3-5...
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The package 'pango1-xft2-ft219-shlibs' will be installed.
Reading dependency for pango1-xft2-ft219-shlibs-1.24.5-9...
Reading runtime dependency for pango1-xft2-ft219-shlibs-1.24.5-9...
The package 'libpcre1-shlibs' will be installed.
Reading dependency for libpcre1-shlibs-8.35-1...
Reading runtime dependency for libpcre1-shlibs-8.35-1...
The package 'readline6-shlibs' will be installed.
Reading dependency for readline6-shlibs-6.3.6-1...
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The package 'tcltk' will be installed.
Reading dependency for tcltk-8.6.1-104...
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The package 'fontconfig2-shlibs' will be installed.
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The package 'freetype219-shlibs' will be installed.
Reading dependency for freetype219-shlibs-2.4.12-1...
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The package 'pixman-shlibs' will be installed.
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The package 'xdg-base' will be installed.
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The package 'libjbig-shlibs' will be installed.
Reading dependency for libjbig-shlibs-2.0-1...
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The package 'libthai-shlibs' will be installed.
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The package 'xft2-shlibs' will be installed.
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The package 'tcltk-shlibs' will be installed.
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The package 'fontconfig-config' will be installed.
Reading dependency for fontconfig-config-2.10.2-1...
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The package 'expat1-shlibs' will be installed.
Reading dependency for expat1-shlibs-2.1.0-1...
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The package 'libdatrie1-shlibs' will be installed.
Reading dependency for libdatrie1-shlibs-0.2.8-2...
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The package 'libthai' will be installed.
Reading dependency for libthai-0.1.20-1...
Reading runtime dependency for libthai-0.1.20-1...
The following package will be rebuilt:
cran-gsl-r30
The following 32 additional packages will be installed:
cairo-shlibs expat1-shlibs flag-sort fontconfig-config fontconfig2-shlibs
freetype219-shlibs gcc49-shlibs gettext-bin glib2-shlibs gsl gsl-shlibs
libdatrie1-shlibs libgettext8-dev libicu48-shlibs libjbig-shlibs
libjpeg9-shlibs liblzma5-shlibs libpcre1-shlibs libpng16-shlibs libthai
libthai-shlibs libtiff5-shlibs pango1-xft2-ft219-shlibs pixman-shlibs
r-base30 r-base30-dev r-base30-shlibs readline6-shlibs tcltk tcltk-shlibs
xdg-base xft2-shlibs
Do you want to continue? [Y/n] (assuming default)
Reading buildlock packages...
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/base/expat1-shlibs_2.1.0-1_darwin-x86_64.deb
Selecting previously deselected package expat1-shlibs.
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/sw/bin/dpkg-lockwait -i /sw/fink/debs/flag-sort_0.5-1_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/freetype219-shlibs_2.4.12-1_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/gcc49-shlibs_4.9.1-1000_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/debs/gsl_1.16-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/gsl-shlibs_1.16-1_darwin-x86_64.deb
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* gsl-ref: (gsl-ref). GNU Scientific Library - Reference
install-info(/sw/share/info/gsl-ref.info): creating new section `Software libraries'
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libdatrie1-shlibs_0.2.8-2_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/base/libgettext8-dev_0.18.3.1-2_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/base/gettext-bin_0.18.3.1-2_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libicu48-shlibs_4.8.1.1-2_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/utils/liblzma5-shlibs_5.0.5-2_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libpcre1-shlibs_8.35-1_darwin-x86_64.deb
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/sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/fontconfig2-shlibs_2.10.2-1_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/fontconfig-config_2.10.2-1_darwin-x86_64.deb
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dpkg-deb -b /sw/build.build/root-fink-buildlock-cran-gsl-r30-1.9-10-1 /sw/build.build
dpkg-deb: building package `fink-buildlock-cran-gsl-r30-1.9-10-1' in `/sw/build.build/fink-buildlock-cran-gsl-r30-1.9-10-1_2014.07.29-23.17.29_darwin-x86_64.deb'.
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sudo -u fink-bld [ENV] sh -c /tmp/fink.BAyHH
env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/gsl_1.9-10.tar.gz
gsl/
gsl/inst/
gsl/inst/CITATION
gsl/inst/doc/
gsl/inst/doc/gslpaper.Rnw
gsl/inst/doc/gslpaper.pdf
gsl/inst/doc/gslpaper.R
gsl/configure.ac
gsl/src/
gsl/src/hyperg.c
gsl/src/qrng.c
gsl/src/gamma.c
gsl/src/poly.c
gsl/src/pow_int.c
gsl/src/bessel.c
gsl/src/coupling.c
gsl/src/debye.c
gsl/src/dawson.c
gsl/src/lambert.c
gsl/src/transport.c
gsl/src/rng.c
gsl/src/vector.c
gsl/src/laguerre.c
gsl/src/synchrotron.c
gsl/src/vector.h
gsl/src/error.c
gsl/src/clausen.c
gsl/src/elljac.c
gsl/src/Makevars.in
gsl/src/ellint.c
gsl/src/psi.c
gsl/src/gegenbauer.c
gsl/src/fermi_dirac.c
gsl/src/coulomb.c
gsl/src/Makevars.win
gsl/src/legendre.c
gsl/src/airy.c
gsl/src/expint.c
gsl/src/multimin.c
gsl/src/log.c
gsl/src/trig.c
gsl/src/zeta.c
gsl/src/dilog.c
gsl/NAMESPACE
gsl/INSTALL
gsl/R/
gsl/R/trig.R
gsl/R/poly.R
gsl/R/pow_int.R
gsl/R/coulomb.R
gsl/R/aaa.R
gsl/R/rng.R
gsl/R/elljac.R
gsl/R/hyperg.R
gsl/R/lambert.R
gsl/R/laguerre.R
gsl/R/psi.R
gsl/R/debye.R
gsl/R/airy.R
gsl/R/zeta.R
gsl/R/log.R
gsl/R/expint.R
gsl/R/fermi_dirac.R
gsl/R/bessel.R
gsl/R/error.R
gsl/R/multimin.R
gsl/R/transport.R
gsl/R/clausen.R
gsl/R/dilog.R
gsl/R/synchrotron.R
gsl/R/qrng.R
gsl/R/gegenbauer.R
gsl/R/legendre.R
gsl/R/ellint.R
gsl/R/gamma.R
gsl/R/dawson.R
gsl/R/zzz.R
gsl/R/coupling.R
gsl/vignettes/
gsl/vignettes/gslpaper.Rnw
gsl/vignettes/gsl.bib
gsl/MD5
gsl/build/
gsl/build/vignette.rds
gsl/DESCRIPTION
gsl/configure
gsl/man/
gsl/man/Error.Rd
gsl/man/Pow_int.Rd
gsl/man/Misc.Rd
gsl/man/Expint.Rd
gsl/man/Debye.Rd
gsl/man/Poly.Rd
gsl/man/Qrng.Rd
gsl/man/Synchrotron.Rd
gsl/man/Fermi-Dirac.Rd
gsl/man/Lambert.Rd
gsl/man/Zeta.Rd
gsl/man/Log.Rd
gsl/man/Dilog.Rd
gsl/man/Gegenbauer.Rd
gsl/man/Transport.Rd
gsl/man/Gamma.Rd
gsl/man/Multimin.Rd
gsl/man/Rng.Rd
gsl/man/Laguerre.Rd
gsl/man/gsl-package.Rd
gsl/man/Trig.Rd
gsl/man/Hyperg.Rd
gsl/man/Coulomb.Rd
gsl/man/Airy.Rd
gsl/man/Ellint.Rd
gsl/man/Dawson.Rd
gsl/man/Coupling.Rd
gsl/man/Legendre.Rd
gsl/man/Bessel.Rd
gsl/man/Psi.Rd
gsl/man/Clausen.Rd
gsl/man/Elljac.Rd
gsl/cleanup
sudo -u fink-bld [ENV] sh -c /tmp/fink.ckaQJ
/tmp/fink.BkuI7
#!/bin/bash -ev
export TMPDIR=/sw/build.build/cran-gsl-r30-1.9-10-1/gsl/tmp
BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/bin/R
pushd ..
/sw/build.build/cran-gsl-r30-1.9-10-1 /sw/build.build/cran-gsl-r30-1.9-10-1/gsl
if [[ 3.0 > 2.15 ]]; then
$BIN_R --verbose CMD build --no-build-vignettes gsl
else
$BIN_R --verbose CMD build --no-vignettes gsl
fi
* checking for file 'gsl/DESCRIPTION' ... OK
* preparing 'gsl':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running 'cleanup'
* checking vignette meta-information ... OK
* checking for LF line-endings in source and make files
* checking for empty or unneeded directories
* building 'gsl_1.9-10.tar.gz'
/bin/rm -rf /sw/build.build/root-cran-gsl-r30-1.9-10-1
/bin/mkdir -p /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw
/bin/mkdir -p /sw/build.build/root-cran-gsl-r30-1.9-10-1/DEBIAN
/usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-cran-gsl-r30-1.9-10-1
sudo -u fink-bld [ENV] sh -c /tmp/fink.rsmpL
/tmp/fink.tnjnK
#!/bin/sh -ev
BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/bin/R
mkdir -p /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/lib/R/3.0/site-library
pushd /sw/build.build/cran-gsl-r30-1.9-10-1/gsl/.. && $BIN_R --verbose CMD install --library=/sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/lib/R/3.0/site-library gsl
/sw/build.build/cran-gsl-r30-1.9-10-1 /sw/build.build/cran-gsl-r30-1.9-10-1/gsl
* installing *source* package 'gsl' ...
** package 'gsl' successfully unpacked and MD5 sums checked
checking for gsl-config... /sw/bin/gsl-config
checking if GSL version >= 1.12... checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c airy.c -o airy.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c bessel.c -o bessel.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c clausen.c -o clausen.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c coulomb.c -o coulomb.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c coupling.c -o coupling.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c dawson.c -o dawson.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c debye.c -o debye.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c dilog.c -o dilog.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c ellint.c -o ellint.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c elljac.c -o elljac.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c error.c -o error.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c expint.c -o expint.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c fermi_dirac.c -o fermi_dirac.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c gamma.c -o gamma.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c gegenbauer.c -o gegenbauer.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c hyperg.c -o hyperg.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c laguerre.c -o laguerre.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c lambert.c -o lambert.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c legendre.c -o legendre.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c log.c -o log.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c multimin.c -o multimin.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c poly.c -o poly.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c pow_int.c -o pow_int.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c psi.c -o psi.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c qrng.c -o qrng.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c rng.c -o rng.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c synchrotron.c -o synchrotron.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c transport.c -o transport.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c trig.c -o trig.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c vector.c -o vector.o
flag-sort -r gcc -ffor-scope -I/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/include -DNDEBUG -I/sw/include -I. -I/sw/include -fPIC -g -O3 -c zeta.c -o zeta.o
flag-sort -r gcc -ffor-scope -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/sw/lib -o gsl.dylib airy.o bessel.o clausen.o coulomb.o coupling.o dawson.o debye.o dilog.o ellint.o elljac.o error.o expint.o fermi_dirac.o gamma.o gegenbauer.o hyperg.o laguerre.o lambert.o legendre.o log.o multimin.o poly.o pow_int.o psi.o qrng.o rng.o synchrotron.o transport.o trig.o vector.o zeta.o -L/sw/lib -lgsl -lgslcblas -L/sw/Library/Frameworks/R.framework/Versions/3.0/Resources/lib -lR -lintl -Wl,-framework -Wl,CoreFoundation
installing to /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/lib/R/3.0/site-library/gsl/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (gsl)
install_name_tool -id /sw/lib/R/3.0/site-library/gsl/libs/gsl.dylib /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/lib/R/3.0/site-library/gsl/libs/gsl.dylib
sudo -u fink-bld [ENV] sh -c /tmp/fink.ShmGQ
/bin/rm -f /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/info/dir /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/info/dir.old /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/share/info/dir /sw/build.build/root-cran-gsl-r30-1.9-10-1/sw/share/info/dir.old
Reverting ownership of install dir to root
Writing control file...
Creating shlibs files...
Writing md5sums file...
env LANG=C LC_ALL=C dpkg-deb -b root-cran-gsl-r30-1.9-10-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods
dpkg-deb: building package `cran-gsl-r30' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods/cran-gsl-r30_1.9-10-1_darwin-x86_64.deb'.
Removing runtime build-lock...
Removing build-lock package...
/sw/bin/dpkg-lockwait -r fink-buildlock-cran-gsl-r30-1.9-10-1
(Reading database ... 7634 files and directories currently installed.)
Removing fink-buildlock-cran-gsl-r30-1.9-10-1 ...