[package - 124i386-default][math/R-cran-NMF] Failed for R-cran-NMF-0.21.0_4 in stage
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Date: Tue, 09 May 2023 09:22:31 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: tota@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/beefy5/data/124i386-default/c4c4e4c0bcec/logs/R-cran-NMF-0.21.0_4.log
Build URL: https://pkg-status.freebsd.org/beefy5/build.html?mastername=124i386-default&build=c4c4e4c0bcec
Log:
=>> Building math/R-cran-NMF
build started at Tue May 9 09:21:53 UTC 2023
port directory: /usr/ports/math/R-cran-NMF
package name: R-cran-NMF-0.21.0_4
building for: FreeBSD 124i386-default-job-05 12.4-RELEASE-p2 FreeBSD 12.4-RELEASE-p2 i386
maintained by: tota@FreeBSD.org
Makefile ident:
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tota@FreeBSD.org
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F77="gfortran12" F90="gfortran12" FC="gfortran12" FFLAGS="-O -Wl,-rpath=/usr/local/lib/gcc12" F90FLAGS="-O -Wl,-rpath=/usr/local/lib/gcc12" FCFLAGS="-Wl,-rpath=/usr/local/lib/gcc12" XDG_DATA_HOME=/wrkdirs/usr/ports/math/R-cran-NMF/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/math/R-cran-NMF/work XDG_CACHE_HOME=/wrkdirs/usr/ports/math/R-cran-NMF/work/.cache HOME=/wrkdirs/usr/ports/math/R-cran-NMF/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/math/R-cran-NMF/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/math/R-cran-NMF/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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--End PLIST_SUB--
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=======================<phase: check-sanity >============================
===> License GPLv2+ accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> R-cran-NMF-0.21.0_4 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.19.1_1.pkg
[124i386-default-job-05] Installing pkg-1.19.1_1...
[124i386-default-job-05] Extracting pkg-1.19.1_1: .......... done
===> R-cran-NMF-0.21.0_4 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of R-cran-NMF-0.21.0_4
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by R-cran-NMF-0.21.0_4 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by R-cran-NMF-0.21.0_4 for building
=> SHA256 Checksum OK for NMF_0.21.0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv2+ accepted by the user
===> Fetching all distfiles required by R-cran-NMF-0.21.0_4 for building
===> Extracting for R-cran-NMF-0.21.0_4
=> SHA256 Checksum OK for NMF_0.21.0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for R-cran-NMF-0.21.0_4
===========================================================================
=======================<phase: build-depends >============================
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-pkgmaker>=0.20 - not found
===> Installing existing package /packages/All/R-cran-pkgmaker-0.32.2_1.pkg
[124i386-default-job-05] Installing R-cran-pkgmaker-0.32.2_1...
[124i386-default-job-05] `-- Installing R-4.3.0...
[124i386-default-job-05] | `-- Installing cairo-1.17.4_2,3...
[124i386-default-job-05] | | `-- Installing fontconfig-2.14.2,1...
[124i386-default-job-05] | | `-- Installing expat-2.5.0...
[124i386-default-job-05] | | `-- Extracting expat-2.5.0: .......... done
[124i386-default-job-05] | | `-- Installing freetype2-2.12.1_2...
[124i386-default-job-05] | | | `-- Installing brotli-1.0.9,1...
[124i386-default-job-05] | | | `-- Extracting brotli-1.0.9,1: .......... done
[124i386-default-job-05] | | | `-- Installing png-1.6.39...
<snip>
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-foreach>0 - not found
===> Installing existing package /packages/All/R-cran-foreach-1.5.2_1.pkg
[124i386-default-job-05] Installing R-cran-foreach-1.5.2_1...
[124i386-default-job-05] `-- Installing R-cran-iterators-1.0.14_1...
[124i386-default-job-05] `-- Extracting R-cran-iterators-1.0.14_1: .......... done
[124i386-default-job-05] Extracting R-cran-foreach-1.5.2_1: .......... done
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-foreach>0 - found
===> Returning to build of R-cran-NMF-0.21.0_4
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-doParallel>0 - not found
===> Installing existing package /packages/All/R-cran-doParallel-1.0.17_1.pkg
[124i386-default-job-05] Installing R-cran-doParallel-1.0.17_1...
[124i386-default-job-05] Extracting R-cran-doParallel-1.0.17_1: .......... done
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-doParallel>0 - found
===> Returning to build of R-cran-NMF-0.21.0_4
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-ggplot2>0 - not found
===> Installing existing package /packages/All/R-cran-ggplot2-3.4.2.pkg
[124i386-default-job-05] Installing R-cran-ggplot2-3.4.2...
[124i386-default-job-05] `-- Installing R-cran-gtable-0.3.3...
[124i386-default-job-05] `-- Extracting R-cran-gtable-0.3.3: .......... done
[124i386-default-job-05] `-- Installing R-cran-isoband-0.2.7...
[124i386-default-job-05] `-- Extracting R-cran-isoband-0.2.7: .......... done
[124i386-default-job-05] `-- Installing R-cran-scales-1.2.1_1...
[124i386-default-job-05] | `-- Installing R-cran-R6-2.5.1_1...
[124i386-default-job-05] | `-- Extracting R-cran-R6-2.5.1_1: .......... done
[124i386-default-job-05] | `-- Installing R-cran-farver-2.1.1_1...
[124i386-default-job-05] | `-- Extracting R-cran-farver-2.1.1_1: .......... done
[124i386-default-job-05] | `-- Installing R-cran-labeling-0.4.2_1...
[124i386-default-job-05] | `-- Extracting R-cran-labeling-0.4.2_1: .......... done
[124i386-default-job-05] | `-- Installing R-cran-munsell-0.5.0_4...
[124i386-default-job-05] | `-- Extracting R-cran-munsell-0.5.0_4: .......... done
[124i386-default-job-05] | `-- Installing R-cran-viridisLite-0.4.1_1...
[124i386-default-job-05] | `-- Extracting R-cran-viridisLite-0.4.1_1: .......... done
[124i386-default-job-05] `-- Extracting R-cran-scales-1.2.1_1: .......... done
[124i386-default-job-05] `-- Installing R-cran-tibble-3.2.1_1...
[124i386-default-job-05] | `-- Installing R-cran-fansi-1.0.4...
[124i386-default-job-05] | `-- Extracting R-cran-fansi-1.0.4: .......... done
[124i386-default-job-05] | `-- Installing R-cran-pillar-1.9.0...
[124i386-default-job-05] | | `-- Installing R-cran-utf8-1.2.3...
[124i386-default-job-05] | | `-- Extracting R-cran-utf8-1.2.3: .......... done
[124i386-default-job-05] | `-- Extracting R-cran-pillar-1.9.0: .......... done
[124i386-default-job-05] | `-- Installing R-cran-pkgconfig-2.0.3_2...
[124i386-default-job-05] | `-- Extracting R-cran-pkgconfig-2.0.3_2: .......... done
[124i386-default-job-05] `-- Extracting R-cran-tibble-3.2.1_1: .......... done
[124i386-default-job-05] Extracting R-cran-ggplot2-3.4.2: .......... done
=====
Message from R-cran-gtable-0.3.3:
--
===> NOTICE:
The R-cran-gtable port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from R-cran-isoband-0.2.7:
--
===> NOTICE:
The R-cran-isoband port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from R-cran-fansi-1.0.4:
--
===> NOTICE:
The R-cran-fansi port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from R-cran-utf8-1.2.3:
--
===> NOTICE:
The R-cran-utf8 port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
=====
Message from R-cran-ggplot2-3.4.2:
--
===> NOTICE:
The R-cran-ggplot2 port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-ggplot2>0 - found
===> Returning to build of R-cran-NMF-0.21.0_4
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-reshape2>0 - not found
===> Installing existing package /packages/All/R-cran-reshape2-1.4.4_2.pkg
[124i386-default-job-05] Installing R-cran-reshape2-1.4.4_2...
[124i386-default-job-05] `-- Installing R-cran-Rcpp-1.0.10_1...
[124i386-default-job-05] `-- Extracting R-cran-Rcpp-1.0.10_1: .......... done
[124i386-default-job-05] `-- Installing R-cran-plyr-1.8.8...
[124i386-default-job-05] `-- Extracting R-cran-plyr-1.8.8: .......... done
[124i386-default-job-05] Extracting R-cran-reshape2-1.4.4_2: .......... done
=====
Message from R-cran-plyr-1.8.8:
--
===> NOTICE:
The R-cran-plyr port currently does not have a maintainer. As a result, it is
more likely to have unresolved issues, not be up-to-date, or even be removed in
the future. To volunteer to maintain this port, please create an issue at:
https://bugs.freebsd.org/bugzilla
More information about port maintainership is available at:
https://docs.freebsd.org/en/articles/contributing/#ports-contributing
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-reshape2>0 - found
===> Returning to build of R-cran-NMF-0.21.0_4
===> R-cran-NMF-0.21.0_4 depends on file: /usr/local/bin/R - found
===> R-cran-NMF-0.21.0_4 depends on executable: gfortran12 - found
===> R-cran-NMF-0.21.0_4 depends on file: /usr/local/bin/as - found
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for R-cran-NMF-0.21.0_4
===========================================================================
=======================<phase: build >============================
===========================================================================
=======================<phase: run-depends >============================
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-pkgmaker>=0.20 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-registry>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-rngtools>=1.2.3 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-stringr>=1.0.0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-digest>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-gridBase>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-colorspace>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-RColorBrewer>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-foreach>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-doParallel>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-ggplot2>0 - found
===> R-cran-NMF-0.21.0_4 depends on package: R-cran-reshape2>0 - found
===> R-cran-NMF-0.21.0_4 depends on file: /usr/local/bin/R - found
===> R-cran-NMF-0.21.0_4 depends on executable: gfortran12 - found
===========================================================================
=======================<phase: stage >============================
===> Staging for R-cran-NMF-0.21.0_4
===> Generating temporary packing list
* installing *source* package 'NMF' ...
** package 'NMF' successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C compiler: 'FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303)'
using C++ compiler: 'FreeBSD clang version 13.0.0 (git@github.com:llvm/llvm-project.git llvmorg-13.0.0-0-gd7b669b3a303)'
gmake[1]: Entering directory '/wrkdirs/usr/ports/math/R-cran-NMF/work/NMF/src'
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c distance.cpp -o distance.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c divergence.cpp -o divergence.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c euclidean.cpp -o euclidean.o
cc -I"/usr/local/lib/R/include" -DNDEBUG -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -c registerDynamicSymbol.c -o registerDynamicSymbol.o
c++ -std=gnu++17 -I"/usr/local/lib/R/include" -DNDEBUG -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include -fpic -O2 -pipe -DLIBICONV_PLUG -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing -DLIBICONV_PLUG -isystem /usr/local/include -c utils.cpp -o utils.o
utils.cpp:118:20: error: use of undeclared identifier 'DOUBLE_EPS'
double eps = sqrt(DOUBLE_EPS);
^
1 error generated.
gmake[1]: *** [/usr/local/lib/R/etc/Makeconf:198: utils.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/math/R-cran-NMF/work/NMF/src'
ERROR: compilation failed for package 'NMF'
* removing '/wrkdirs/usr/ports/math/R-cran-NMF/work/stage/usr/local/lib/R/library/NMF'
*** Error code 1
Stop.
make: stopped in /usr/ports/math/R-cran-NMF