printf ' ' | fink --no-use-binary-dist --yes --build-as-nobody rebuild bioconductor-biocgenerics-r31 2>&1 The package 'bioconductor-biocgenerics-r31' will be built without being installed. Reading build dependency for bioconductor-biocgenerics-r31-0.10.0-1... Reading dependency for bioconductor-biocgenerics-r31-0.10.0-1... Reading build conflict for bioconductor-biocgenerics-r31-0.10.0-1... The package 'r-base31-dev' will be installed. Reading dependency for r-base31-dev-3.1.0-4... Reading runtime dependency for r-base31-dev-3.1.0-4... The package 'libgettext8-dev' will be installed. Reading dependency for libgettext8-dev-0.18.3.1-2... Reading runtime dependency for libgettext8-dev-0.18.3.1-2... The package 'netcdf-c7' will be installed. Reading dependency for netcdf-c7-4.3.2-2... Reading runtime dependency for netcdf-c7-4.3.2-2... The package 'r-base31' will be installed. Reading dependency for r-base31-3.1.0-4... Reading runtime dependency for r-base31-3.1.0-4... The package 'r-base31-shlibs' will be installed. Reading dependency for r-base31-shlibs-3.1.0-4... Reading runtime dependency for r-base31-shlibs-3.1.0-4... 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 'netcdf-c7-shlibs' will be installed. Reading dependency for netcdf-c7-shlibs-4.3.2-2... Reading runtime dependency for netcdf-c7-shlibs-4.3.2-2... The package 'netcdf-bin' will be installed. Reading dependency for netcdf-bin-4.3.2-2... Reading runtime dependency for netcdf-bin-4.3.2-2... The package 'cairo-shlibs' will be installed. Reading dependency for cairo-shlibs-1.12.14-1... Reading runtime dependency for cairo-shlibs-1.12.14-1... The package 'gcc49-shlibs' will be installed. Reading dependency for gcc49-shlibs-4.9.1-1000... Reading runtime dependency for gcc49-shlibs-4.9.1-1000... The package 'glib2-shlibs' will be installed. Reading dependency for glib2-shlibs-2.22.4-8... Reading runtime dependency for glib2-shlibs-2.22.4-8... The package 'libicu48-shlibs' will be installed. Reading dependency for libicu48-shlibs-4.8.1.1-2... Reading runtime dependency for libicu48-shlibs-4.8.1.1-2... The package 'libjpeg9-shlibs' will be installed. Reading dependency for libjpeg9-shlibs-9a-1... Reading runtime dependency for libjpeg9-shlibs-9a-1... The package 'liblzma5-shlibs' will be installed. Reading dependency for liblzma5-shlibs-5.0.5-2... Reading runtime dependency for liblzma5-shlibs-5.0.5-2... The package 'libpng16-shlibs' will be installed. Reading dependency for libpng16-shlibs-1.6.12-1... Reading runtime dependency for libpng16-shlibs-1.6.12-1... The package 'libtiff5-shlibs' will be installed. Reading dependency for libtiff5-shlibs-4.0.3-5... Reading runtime dependency for libtiff5-shlibs-4.0.3-5... 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... Reading runtime dependency for readline6-shlibs-6.3.6-1... The package 'tcltk' will be installed. Reading dependency for tcltk-8.6.1-104... Reading runtime dependency for tcltk-8.6.1-104... The package 'hdf5.8-shlibs' will be installed. Reading dependency for hdf5.8-shlibs-1.8.13-1... Reading runtime dependency for hdf5.8-shlibs-1.8.13-1... The package 'libcurl4-shlibs' will be installed. Reading dependency for libcurl4-shlibs-7.37.1-1+10.8... Reading runtime dependency for libcurl4-shlibs-7.37.1-1+10.8... The package 'fontconfig2-shlibs' will be installed. Reading dependency for fontconfig2-shlibs-2.10.2-1... Reading runtime dependency for fontconfig2-shlibs-2.10.2-1... The package 'freetype219-shlibs' will be installed. Reading dependency for freetype219-shlibs-2.4.12-1... Reading runtime dependency for freetype219-shlibs-2.4.12-1... The package 'pixman-shlibs' will be installed. Reading dependency for pixman-shlibs-0.32.4-1... Reading runtime dependency for pixman-shlibs-0.32.4-1... The package 'xdg-base' will be installed. Reading dependency for xdg-base-0.8-2... Reading runtime dependency for xdg-base-0.8-2... The package 'libjbig-shlibs' will be installed. Reading dependency for libjbig-shlibs-2.0-1... Reading runtime dependency for libjbig-shlibs-2.0-1... The package 'libthai-shlibs' will be installed. Reading dependency for libthai-shlibs-0.1.20-1... Reading runtime dependency for libthai-shlibs-0.1.20-1... The package 'xft2-shlibs' will be installed. Reading dependency for xft2-shlibs-2.2.0-3... Reading runtime dependency for xft2-shlibs-2.2.0-3... The package 'tcltk-shlibs' will be installed. Reading dependency for tcltk-shlibs-8.6.1-104... Reading runtime dependency for tcltk-shlibs-8.6.1-104... The package 'szip-shlibs' will be installed. Reading dependency for szip-shlibs-2.1-3... Reading runtime dependency for szip-shlibs-2.1-3... The package 'librtmp-shlibs' will be installed. Reading dependency for librtmp-shlibs-2.3-4... Reading runtime dependency for librtmp-shlibs-2.3-4... The package 'libssh2.1-shlibs' will be installed. Reading dependency for libssh2.1-shlibs-1.4.3-1... Reading runtime dependency for libssh2.1-shlibs-1.4.3-1... The package 'fontconfig-config' will be installed. Reading dependency for fontconfig-config-2.10.2-1... Reading runtime dependency for fontconfig-config-2.10.2-1... The package 'expat1-shlibs' will be installed. Reading dependency for expat1-shlibs-2.1.0-1... Reading runtime dependency for expat1-shlibs-2.1.0-1... The package 'libdatrie1-shlibs' will be installed. Reading dependency for libdatrie1-shlibs-0.2.8-2... Reading runtime dependency for libdatrie1-shlibs-0.2.8-2... The package 'libthai' will be installed. Reading dependency for libthai-0.1.20-1... Reading runtime dependency for libthai-0.1.20-1... The package 'openssl100-shlibs' will be installed. Reading dependency for openssl100-shlibs-1.0.1h-1... Reading runtime dependency for openssl100-shlibs-1.0.1h-1... The following package will be rebuilt: bioconductor-biocgenerics-r31 The following 38 additional packages will be installed: cairo-shlibs expat1-shlibs fontconfig-config fontconfig2-shlibs freetype219-shlibs gcc49-shlibs gettext-bin glib2-shlibs hdf5.8-shlibs libcurl4-shlibs libdatrie1-shlibs libgettext8-dev libicu48-shlibs libjbig-shlibs libjpeg9-shlibs liblzma5-shlibs libpcre1-shlibs libpng16-shlibs librtmp-shlibs libssh2.1-shlibs libthai libthai-shlibs libtiff5-shlibs netcdf-bin netcdf-c7 netcdf-c7-shlibs openssl100-shlibs pango1-xft2-ft219-shlibs pixman-shlibs r-base31 r-base31-dev r-base31-shlibs readline6-shlibs szip-shlibs tcltk tcltk-shlibs xdg-base xft2-shlibs Do you want to continue? [Y/n] (assuming default) curl --connect-timeout 30 -f -L -A 'fink/0.37.0' -O http://distfiles.master.finkmirrors.net/distfiles/BiocGenerics_0.10.0.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 32180 100 32180 0 0 47187 0 --:--:-- --:--:-- --:--:-- 47254 Reading buildlock packages... All buildlocks accounted for. /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. (Reading database ... 4296 files and directories currently installed.) Unpacking expat1-shlibs (from .../expat1-shlibs_2.1.0-1_darwin-x86_64.deb) ... Setting up expat1-shlibs (2.1.0-1) ... Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package freetype219-shlibs. (Reading database ... 4301 files and directories currently installed.) Unpacking freetype219-shlibs (from .../freetype219-shlibs_2.4.12-1_darwin-x86_64.deb) ... Setting up freetype219-shlibs (2.4.12-1) ... Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package gcc49-shlibs. (Reading database ... 4312 files and directories currently installed.) Unpacking gcc49-shlibs (from .../gcc49-shlibs_4.9.1-1000_darwin-x86_64.deb) ... Setting up gcc49-shlibs (4.9.1-1000) ... Clearing dependency_libs of .la files being installed Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package libdatrie1-shlibs. (Reading database ... 4357 files and directories currently installed.) Unpacking libdatrie1-shlibs (from .../libdatrie1-shlibs_0.2.8-2_darwin-x86_64.deb) ... Setting up libdatrie1-shlibs (0.2.8-2) ... Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package libgettext8-dev. (Reading database ... 4364 files and directories currently installed.) Unpacking libgettext8-dev (from .../libgettext8-dev_0.18.3.1-2_darwin-x86_64.deb) ... Selecting previously deselected package gettext-bin. Unpacking gettext-bin (from .../gettext-bin_0.18.3.1-2_darwin-x86_64.deb) ... Setting up gettext-bin (0.18.3.1-2) ... Setting up libgettext8-dev (0.18.3.1-2) ... Clearing dependency_libs of .la files being installed Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package libicu48-shlibs. (Reading database ... 4458 files and directories currently installed.) Unpacking libicu48-shlibs (from .../libicu48-shlibs_4.8.1.1-2_darwin-x86_64.deb) ... Setting up libicu48-shlibs (4.8.1.1-2) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/libjbig-shlibs_2.0-1_darwin-x86_64.deb Selecting previously deselected package libjbig-shlibs. (Reading database ... 4472 files and directories currently installed.) Unpacking libjbig-shlibs (from .../libjbig-shlibs_2.0-1_darwin-x86_64.deb) ... Setting up libjbig-shlibs (2.0-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/libjpeg9-shlibs_9a-1_darwin-x86_64.deb Selecting previously deselected package libjpeg9-shlibs. (Reading database ... 4479 files and directories currently installed.) Unpacking libjpeg9-shlibs (from .../libjpeg9-shlibs_9a-1_darwin-x86_64.deb) ... Setting up libjpeg9-shlibs (9a-1) ... Reading buildlock packages... All buildlocks accounted for. /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 Selecting previously deselected package liblzma5-shlibs. (Reading database ... 4482 files and directories currently installed.) Unpacking liblzma5-shlibs (from .../liblzma5-shlibs_5.0.5-2_darwin-x86_64.deb) ... Setting up liblzma5-shlibs (5.0.5-2) ... 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All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/libs/libthai-shlibs_0.1.20-1_darwin-x86_64.deb /sw/fink/debs/libthai_0.1.20-1_darwin-x86_64.deb Selecting previously deselected package libthai-shlibs. (Reading database ... 4514 files and directories currently installed.) Unpacking libthai-shlibs (from .../libthai-shlibs_0.1.20-1_darwin-x86_64.deb) ... Selecting previously deselected package libthai. Unpacking libthai (from .../libthai_0.1.20-1_darwin-x86_64.deb) ... Setting up libthai (0.1.20-1) ... Setting up libthai-shlibs (0.1.20-1) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/libtiff5-shlibs_4.0.3-5_darwin-x86_64.deb Selecting previously deselected package libtiff5-shlibs. (Reading database ... 4529 files and directories currently installed.) Unpacking libtiff5-shlibs (from .../libtiff5-shlibs_4.0.3-5_darwin-x86_64.deb) ... Setting up libtiff5-shlibs (4.0.3-5) ... 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All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/x11/xft2-shlibs_2.2.0-3_darwin-x86_64.deb Selecting previously deselected package xft2-shlibs. (Reading database ... 4905 files and directories currently installed.) Unpacking xft2-shlibs (from .../xft2-shlibs_2.2.0-3_darwin-x86_64.deb) ... Setting up xft2-shlibs (2.2.0-3) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/dists/stable/main/binary-darwin-x86_64/graphics/cairo-shlibs_1.12.14-1_darwin-x86_64.deb Selecting previously deselected package cairo-shlibs. (Reading database ... 4914 files and directories currently installed.) Unpacking cairo-shlibs (from .../cairo-shlibs_1.12.14-1_darwin-x86_64.deb) ... Setting up cairo-shlibs (1.12.14-1) ... Reading buildlock packages... 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All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/tcltk_8.6.1-104_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/languages/tcltk-shlibs_8.6.1-104_darwin-x86_64.deb Selecting previously deselected package tcltk. (Reading database ... 5040 files and directories currently installed.) Unpacking tcltk (from .../tcltk_8.6.1-104_darwin-x86_64.deb) ... Selecting previously deselected package tcltk-shlibs. Unpacking tcltk-shlibs (from .../tcltk-shlibs_8.6.1-104_darwin-x86_64.deb) ... Setting up tcltk-shlibs (8.6.1-104) ... Setting up tcltk (8.6.1-104) ... Reading buildlock packages... All buildlocks accounted for. /sw/bin/dpkg-lockwait -i /sw/fink/debs/r-base31_3.1.0-4_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/r-base31-shlibs_3.1.0-4_darwin-x86_64.deb /sw/fink/dists/stable/main/binary-darwin-x86_64/sci/r-base31-dev_3.1.0-4_darwin-x86_64.deb Selecting previously deselected package r-base31. (Reading database ... 5515 files and directories currently installed.) Unpacking r-base31 (from .../r-base31_3.1.0-4_darwin-x86_64.deb) ... Selecting previously deselected package r-base31-shlibs. Unpacking r-base31-shlibs (from .../r-base31-shlibs_3.1.0-4_darwin-x86_64.deb) ... Selecting previously deselected package r-base31-dev. Unpacking r-base31-dev (from .../r-base31-dev_3.1.0-4_darwin-x86_64.deb) ... Setting up r-base31-shlibs (3.1.0-4) ... Setting up r-base31-dev (3.1.0-4) ... Setting up r-base31 (3.1.0-4) ... Setting runtime build-lock... dpkg-deb -b /sw/build.build/root-fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1 /sw/build.build dpkg-deb: building package `fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1' in `/sw/build.build/fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1_2014.07.26-01.40.13_darwin-x86_64.deb'. Installing build-lock package... /sw/bin/dpkg-lockwait -i /sw/build.build/fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1_2014.07.26-01.40.13_darwin-x86_64.deb Selecting previously deselected package fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1. (Reading database ... 7482 files and directories currently installed.) Unpacking fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1 (from .../fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1_2014.07.26-01.40.13_darwin-x86_64.deb) ... Setting up fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1 (2014.07.26-01.40.13) ... sudo -u fink-bld [ENV] sh -c /tmp/fink.B7s5c env LANG=C LC_ALL=C /sw/bin/tar --no-same-owner --no-same-permissions -xvf /sw/src/BiocGenerics_0.10.0.tar.gz BiocGenerics/DESCRIPTION BiocGenerics/NAMESPACE BiocGenerics/R/ BiocGenerics/R/Extremes.R BiocGenerics/R/S3-classes-as-S4-classes.R BiocGenerics/R/annotation.R BiocGenerics/R/append.R BiocGenerics/R/as.data.frame.R BiocGenerics/R/as.vector.R BiocGenerics/R/boxplot.R BiocGenerics/R/cbind.R BiocGenerics/R/clusterApply.R BiocGenerics/R/combine.R BiocGenerics/R/density.R BiocGenerics/R/dge.R BiocGenerics/R/do.call.R BiocGenerics/R/duplicated.R BiocGenerics/R/eval.R BiocGenerics/R/funprog.R BiocGenerics/R/get.R BiocGenerics/R/image.R BiocGenerics/R/is.unsorted.R BiocGenerics/R/lapply.R BiocGenerics/R/mapply.R BiocGenerics/R/match.R BiocGenerics/R/normalize.R BiocGenerics/R/normarg-utils.R BiocGenerics/R/nrow.R BiocGenerics/R/order.R BiocGenerics/R/paste.R BiocGenerics/R/plotMA.R BiocGenerics/R/rank.R BiocGenerics/R/relist.R BiocGenerics/R/rep.R BiocGenerics/R/residuals.R BiocGenerics/R/row_colnames.R BiocGenerics/R/sets.R BiocGenerics/R/show-utils.R BiocGenerics/R/sort.R BiocGenerics/R/strand.R BiocGenerics/R/table.R BiocGenerics/R/tapply.R BiocGenerics/R/testPackage.R BiocGenerics/R/test_BiocGenerics_package.R BiocGenerics/R/unique.R BiocGenerics/R/unlist.R BiocGenerics/R/update.R BiocGenerics/R/updateObject.R BiocGenerics/R/weights.R BiocGenerics/R/xtabs.R BiocGenerics/R/zzz.R BiocGenerics/TODO BiocGenerics/inst/ BiocGenerics/inst/unitTests/ BiocGenerics/inst/unitTests/test_combine.R BiocGenerics/inst/unitTests/test_updateObject.R BiocGenerics/man/ BiocGenerics/man/BiocGenerics-package.Rd BiocGenerics/man/Extremes.Rd BiocGenerics/man/S3-classes-as-S4-classes.Rd BiocGenerics/man/annotation.Rd BiocGenerics/man/append.Rd BiocGenerics/man/as.data.frame.Rd BiocGenerics/man/as.vector.Rd BiocGenerics/man/boxplot.Rd BiocGenerics/man/cbind.Rd BiocGenerics/man/clusterApply.Rd BiocGenerics/man/combine.Rd BiocGenerics/man/density.Rd BiocGenerics/man/dge.Rd BiocGenerics/man/do.call.Rd BiocGenerics/man/duplicated.Rd BiocGenerics/man/eval.Rd BiocGenerics/man/evalq.Rd BiocGenerics/man/funprog.Rd BiocGenerics/man/get.Rd BiocGenerics/man/image.Rd BiocGenerics/man/is.unsorted.Rd BiocGenerics/man/lapply.Rd BiocGenerics/man/mapply.Rd BiocGenerics/man/match.Rd BiocGenerics/man/normalize.Rd BiocGenerics/man/nrow.Rd BiocGenerics/man/order.Rd BiocGenerics/man/paste.Rd BiocGenerics/man/plotMA.Rd BiocGenerics/man/rank.Rd BiocGenerics/man/relist.Rd BiocGenerics/man/rep.Rd BiocGenerics/man/residuals.Rd BiocGenerics/man/row_colnames.Rd BiocGenerics/man/sets.Rd BiocGenerics/man/sort.Rd BiocGenerics/man/strand.Rd BiocGenerics/man/table.Rd BiocGenerics/man/tapply.Rd BiocGenerics/man/unique.Rd BiocGenerics/man/unlist.Rd BiocGenerics/man/updateObject.Rd BiocGenerics/man/weights.Rd BiocGenerics/man/xtabs.Rd BiocGenerics/tests/ BiocGenerics/tests/BiocGenerics_unit_tests.R sudo -u fink-bld [ENV] sh -c /tmp/fink.H7gJr /tmp/fink.IwKjZ #!/bin/bash -ev export TMPDIR=/sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1/BiocGenerics/tmp BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.1/Resources/bin/R pushd .. /sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1 /sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1/BiocGenerics $BIN_R --verbose CMD build --no-build-vignettes BiocGenerics * checking for file 'BiocGenerics/DESCRIPTION' ... OK * preparing 'BiocGenerics': * checking DESCRIPTION meta-information ... OK * checking for LF line-endings in source and make files * checking for empty or unneeded directories * building 'BiocGenerics_0.10.0.tar.gz' /bin/rm -rf /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1 /bin/mkdir -p /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw /bin/mkdir -p /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/DEBIAN /usr/sbin/chown -R fink-bld:fink-bld /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1 sudo -u fink-bld [ENV] sh -c /tmp/fink.ArzT3 /tmp/fink.gKVXp #!/bin/sh -ev BIN_R=/sw/Library/Frameworks/R.framework/Versions/3.1/Resources/bin/R mkdir -p /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/lib/R/3.1/site-library pushd /sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1/BiocGenerics/.. && $BIN_R --verbose CMD install --library=/sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/lib/R/3.1/site-library BiocGenerics /sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1 /sw/build.build/bioconductor-biocgenerics-r31-0.10.0-1/BiocGenerics * installing *source* package 'BiocGenerics' ... ** R ** inst ** preparing package for lazy loading Creating a new generic function for 'append' in package 'BiocGenerics' Creating a new generic function for 'as.data.frame' in package 'BiocGenerics' Creating a new generic function for 'as.vector' in package 'BiocGenerics' Creating a new generic function for 'cbind' in package 'BiocGenerics' Creating a new generic function for 'rbind' in package 'BiocGenerics' Creating a new generic function for 'do.call' in package 'BiocGenerics' Creating a new generic function for 'duplicated' in package 'BiocGenerics' Creating a new generic function for 'anyDuplicated' in package 'BiocGenerics' Creating a new generic function for 'eval' in package 'BiocGenerics' Creating a new generic function for 'pmax' in package 'BiocGenerics' Creating a new generic function for 'pmin' in package 'BiocGenerics' Creating a new generic function for 'pmax.int' in package 'BiocGenerics' Creating a new generic function for 'pmin.int' in package 'BiocGenerics' Creating a new generic function for 'Reduce' in package 'BiocGenerics' Creating a new generic function for 'Filter' in package 'BiocGenerics' Creating a new generic function for 'Find' in package 'BiocGenerics' Creating a new generic function for 'Map' in package 'BiocGenerics' Creating a new generic function for 'Position' in package 'BiocGenerics' Creating a new generic function for 'get' in package 'BiocGenerics' Creating a new generic function for 'mget' in package 'BiocGenerics' Creating a new generic function for 'is.unsorted' in package 'BiocGenerics' Creating a new generic function for 'lapply' in package 'BiocGenerics' Creating a new generic function for 'sapply' in package 'BiocGenerics' Creating a new generic function for 'mapply' in package 'BiocGenerics' Creating a new generic function for 'match' in package 'BiocGenerics' Creating a new generic function for 'order' in package 'BiocGenerics' Creating a new generic function for 'paste' in package 'BiocGenerics' Creating a new generic function for 'rank' in package 'BiocGenerics' Creating a new generic function for 'rep.int' in package 'BiocGenerics' Creating a new generic function for 'rownames' in package 'BiocGenerics' Creating a new generic function for 'colnames' in package 'BiocGenerics' Creating a new generic function for 'union' in package 'BiocGenerics' Creating a new generic function for 'intersect' in package 'BiocGenerics' Creating a new generic function for 'setdiff' in package 'BiocGenerics' Creating a new generic function for 'sort' in package 'BiocGenerics' Creating a new generic function for 'table' in package 'BiocGenerics' Creating a new generic function for 'tapply' in package 'BiocGenerics' Creating a new generic function for 'unique' in package 'BiocGenerics' Creating a new generic function for 'unlist' in package 'BiocGenerics' Creating a new generic function for 'xtabs' in package 'BiocGenerics' Creating a new generic function for 'clusterCall' in package 'BiocGenerics' Creating a new generic function for 'clusterApply' in package 'BiocGenerics' Creating a new generic function for 'clusterApplyLB' in package 'BiocGenerics' Creating a new generic function for 'clusterEvalQ' in package 'BiocGenerics' Warning in getPackageName(environment(fdef)) : Created a package name, '2014-07-26 01:40:19', when none found Creating a new generic function for 'clusterExport' in package 'BiocGenerics' Creating a new generic function for 'clusterMap' in package 'BiocGenerics' Creating a new generic function for 'parLapply' in package 'BiocGenerics' Creating a new generic function for 'parSapply' in package 'BiocGenerics' Creating a new generic function for 'parApply' in package 'BiocGenerics' Creating a new generic function for 'parRapply' in package 'BiocGenerics' Creating a new generic function for 'parCapply' in package 'BiocGenerics' Creating a new generic function for 'parLapplyLB' in package 'BiocGenerics' Creating a new generic function for 'parSapplyLB' in package 'BiocGenerics' ** help *** installing help indices ** building package indices ** testing if installed package can be loaded * DONE (BiocGenerics) sudo -u fink-bld [ENV] sh -c /tmp/fink.P3KZw /bin/rm -f /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/info/dir /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/info/dir.old /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/share/info/dir /sw/build.build/root-bioconductor-biocgenerics-r31-0.10.0-1/sw/share/info/dir.old Reverting ownership of install dir to root Writing control file... Writing md5sums file... env LANG=C LC_ALL=C dpkg-deb -b root-bioconductor-biocgenerics-r31-0.10.0-1 /sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods dpkg-deb: building package `bioconductor-biocgenerics-r31' in `/sw/fink/10.9/stable/main/binary-darwin-x86_64/libs/rmods/bioconductor-biocgenerics-r31_0.10.0-1_darwin-x86_64.deb'. Removing runtime build-lock... Removing build-lock package... /sw/bin/dpkg-lockwait -r fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1 (Reading database ... 7483 files and directories currently installed.) Removing fink-buildlock-bioconductor-biocgenerics-r31-0.10.0-1 ...