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Date:      Sat, 14 Jul 2018 05:43:41 GMT
From:      pkg-fallout@FreeBSD.org
To:        tota@FreeBSD.org
Cc:        pkg-fallout@FreeBSD.org
Subject:   [package - 111i386-quarterly][devel/R-cran-data.table] Failed for R-cran-data.table-1.11.2 in stage
Message-ID:  <201807140543.w6E5hfCH043675@beefy1.nyi.freebsd.org>

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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
Last committer: tota@FreeBSD.org
Ident:          $FreeBSD: branches/2018Q3/devel/R-cran-data.table/Makefile 470189 2018-05-17 02:18:52Z tota $
Log URL:        http://beefy1.nyi.freebsd.org/data/111i386-quarterly/474606/logs/R-cran-data.table-1.11.2.log
Build URL:      http://beefy1.nyi.freebsd.org/build.html?mastername=111i386-quarterly&build=474606
Log:

=>> Building devel/R-cran-data.table
build started at Sat Jul 14 05:42:25 UTC 2018
port directory: /usr/ports/devel/R-cran-data.table
package name: R-cran-data.table-1.11.2
building for: FreeBSD 111i386-quarterly-job-12 11.1-RELEASE-p11 FreeBSD 11.1-RELEASE-p11 i386
maintained by: tota@FreeBSD.org
Makefile ident:      $FreeBSD: branches/2018Q3/devel/R-cran-data.table/Makefile 470189 2018-05-17 02:18:52Z tota $
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=======================<phase: check-sanity   >============================
===>  License MPL20 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.10.5_1.txz
[111i386-quarterly-job-12] Installing pkg-1.10.5_1...
[111i386-quarterly-job-12] Extracting pkg-1.10.5_1: .......... done
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of R-cran-data.table-1.11.2
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License MPL20 accepted by the user
===> Fetching all distfiles required by R-cran-data.table-1.11.2 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License MPL20 accepted by the user
===> Fetching all distfiles required by R-cran-data.table-1.11.2 for building
=> SHA256 Checksum OK for data.table_1.11.2.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License MPL20 accepted by the user
===> Fetching all distfiles required by R-cran-data.table-1.11.2 for building
===>  Extracting for R-cran-data.table-1.11.2
=> SHA256 Checksum OK for data.table_1.11.2.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for R-cran-data.table-1.11.2
===========================================================================
=======================<phase: build-depends  >============================
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/bin/R - not found
===>   Installing existing package /packages/All/R-3.5.0_1.txz
[111i386-quarterly-job-12] Installing R-3.5.0_1...
[111i386-quarterly-job-12] `-- Installing cairo-1.14.8_1,2...
[111i386-quarterly-job-12] |   `-- Installing dri2proto-2.8...
[111i386-quarterly-job-12] |   `-- Extracting dri2proto-2.8: .... done
[111i386-quarterly-job-12] |   `-- Installing fontconfig-2.12.6,1...
[111i386-quarterly-job-12] |   | `-- Installing expat-2.2.5...
[111i386-quarterly-job-12] |   | `-- Extracting expat-2.2.5: .......... done
[111i386-quarterly-job-12] |   | `-- Installing freetype2-2.9.1...
<snip>

FREETYPE_PROPERTIES=truetype:interpreter-version=35 \
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	autofitter:warping=1

This allows to select, say, the subpixel hinting mode at runtime for a given
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The controllable properties are listed in the section "Controlling FreeType
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(/usr/local/share/doc/freetype2/reference/ft2-toc.html, if documentation was installed).
Message from perl5-5.26.2:

The /usr/bin/perl symlink has been removed starting with Perl 5.20.
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#!/usr/local/bin/perl

or

#!/usr/bin/env perl

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===========================================================================

Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:

bsddb           databases/py-bsddb
gdbm            databases/py-gdbm
sqlite3         databases/py-sqlite3
tkinter         x11-toolkits/py-tkinter

===========================================================================
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********************************* WARNING *********************************

FreeBSD does not, and can not warrant that the certification authorities
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audited for trustworthiness or RFC 3647 compliance.

Assessment and verification of trust is the complete responsibility of the
system administrator.

*********************************** NOTE **********************************

This package installs symlinks to support root certificates discovery by
default for software that uses OpenSSL.

This enables SSL Certificate Verification by client software without manual
intervention.

If you prefer to do this manually, replace the following symlinks with
either an empty file or your site-local certificate bundle.

  * /etc/ssl/cert.pem
  * /usr/local/etc/ssl/cert.pem
  * /usr/local/openssl/cert.pem

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Message from gcc6-6.4.0_7:

To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using

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For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
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Message from trousers-0.3.14_2:

To run tcsd automatically, add the following line to /etc/rc.conf:

tcsd_enable="YES"

You might want to edit /usr/local/etc/tcsd.conf to reflect your setup.

If you want to use tcsd with software TPM emulator, use the following
configuration in /etc/rc.conf:

tcsd_enable="YES"
tcsd_mode="emulator"
tpmd_enable="YES"

To use TPM, add your_account to '_tss' group like following:

# pw groupmod _tss -m your_account
Message from libijs-0.35_5:

===>   NOTICE:

The libijs 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:

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More information about port maintainership is available at:

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Message from ghostscript9-agpl-base-9.23_1:

This package installs a script named dvipdf that depends on dvips.  If you
want to use this script you need to install print/tex-dvipsk.
Message from dejavu-2.37:

Make sure that the freetype module is loaded.  If it is not, add the following
line to the "Modules" section of your X Windows configuration file:

	Load "freetype"

Add the following line to the "Files" section of X Windows configuration file:

	FontPath "/usr/local/share/fonts/dejavu/"

Note: your X Windows configuration file is typically /etc/X11/XF86Config
if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org.
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/bin/R - found
===>   Returning to build of R-cran-data.table-1.11.2
===>   R-cran-data.table-1.11.2 depends on executable: gfortran6 - found
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/bin/as - found
===========================================================================
=======================<phase: lib-depends    >============================
===>   R-cran-data.table-1.11.2 depends on shared library: libomp.so - found (/usr/local/lib/libomp.so)
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for R-cran-data.table-1.11.2
===========================================================================
=======================<phase: build          >============================
===========================================================================
=======================<phase: run-depends    >============================
===>   R-cran-data.table-1.11.2 depends on file: /usr/local/bin/R - found
===>   R-cran-data.table-1.11.2 depends on executable: gfortran6 - found
===========================================================================
=======================<phase: stage          >============================
===>  Staging for R-cran-data.table-1.11.2
===>   Generating temporary packing list
* installing *source* package 'data.table' ...
** package 'data.table' successfully unpacked and MD5 sums checked
** libs
gmake[1]: Entering directory '/wrkdirs/usr/ports/devel/R-cran-data.table/work/data.table/src'
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c assign.c -o assign.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c between.c -o between.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c bmerge.c -o bmerge.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c chmatch.c -o chmatch.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c dogroups.c -o dogroups.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fastmean.c -o fastmean.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fcast.c -o fcast.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fmelt.c -o fmelt.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c forder.c -o forder.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c frank.c -o frank.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fread.c -o fread.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c freadR.c -o freadR.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fsort.c -o fsort.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fwrite.c -o fwrite.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c fwriteR.c -o fwriteR.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c gsumm.c -o gsumm.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c ijoin.c -o ijoin.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c init.c -o init.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c inrange.c -o inrange.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c nqrecreateindices.c -o nqrecreateindices.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c openmp-utils.c -o openmp-utils.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c quickselect.c -o quickselect.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c rbindlist.c -o rbindlist.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c reorder.c -o reorder.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c shift.c -o shift.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c subset.c -o subset.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c transpose.c -o transpose.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c uniqlist.c -o uniqlist.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c vecseq.c -o vecseq.o
cc -I"/usr/local/lib/R/include" -DNDEBUG   -DLIBICONV_PLUG -I/usr/local/include -isystem /usr/local/include  -fopenmp -fpic  -O2 -pipe  -DLIBICONV_PLUG -fstack-protector -isystem /usr/local/include -fno-strict-aliasing  -c wrappers.c -o wrappers.o
cc -shared -L/usr/local/lib/R/lib -L/usr/local/lib -Wl,-rpath=/usr/local/lib/gcc6 -L/usr/local/lib/gcc6 -B/usr/local/bin -fstack-protector -o data.table.so assign.o between.o bmerge.o chmatch.o dogroups.o fastmean.o fcast.o fmelt.o forder.o frank.o fread.o freadR.o fsort.o fwrite.o fwriteR.o gsumm.o ijoin.o init.o inrange.o nqrecreateindices.o openmp-utils.o quickselect.o rbindlist.o reorder.o shift.o subset.o transpose.o uniqlist.o vecseq.o wrappers.o -fopenmp -L/usr/local/lib/R/lib -lR
mv data.table.so datatable.so
if [ "" != "Windows_NT" ] && [ `uname -s` = 'Darwin' ]; then install_name_tool -id datatable.so datatable.so; fi
gmake[1]: Leaving directory '/wrkdirs/usr/ports/devel/R-cran-data.table/work/data.table/src'
installing to /wrkdirs/usr/ports/devel/R-cran-data.table/work/stage/usr/local/lib/R/library/data.table/libs
** R
** inst
** tests
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Error: package or namespace load failed for 'data.table' in dyn.load(file, DLLpath = DLLpath, ...):
 unable to load shared object '/wrkdirs/usr/ports/devel/R-cran-data.table/work/stage/usr/local/lib/R/library/data.table/libs/datatable.so':
  /wrkdirs/usr/ports/devel/R-cran-data.table/work/stage/usr/local/lib/R/library/data.table/libs/datatable.so: Undefined symbol "__atomic_load"
Error: loading failed
Execution halted
ERROR: loading failed
* removing '/wrkdirs/usr/ports/devel/R-cran-data.table/work/stage/usr/local/lib/R/library/data.table'
*** Error code 1

Stop.
make: stopped in /usr/ports/devel/R-cran-data.table



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