[package - 111i386-quarterly][devel/R-cran-data.table] Failed for R-cran-data.table-1.11.2 in stage
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Sat Aug 25 06:18:53 UTC 2018
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 at FreeBSD.org
Last committer: tota at 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/477988/logs/R-cran-data.table-1.11.2.log
Build URL: http://beefy1.nyi.freebsd.org/build.html?mastername=111i386-quarterly&build=477988
Log:
=>> Building devel/R-cran-data.table
build started at Sat Aug 25 06:17:42 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-05 11.1-RELEASE-p13 FreeBSD 11.1-RELEASE-p13 i386
maintained by: tota at 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-05] Installing pkg-1.10.5_1...
[111i386-quarterly-job-05] 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
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[111i386-quarterly-job-05] Installing R-3.5.0_1...
[111i386-quarterly-job-05] `-- Installing cairo-1.14.8_1,2...
[111i386-quarterly-job-05] | `-- Installing dri2proto-2.8...
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[111i386-quarterly-job-05] | | `-- Extracting expat-2.2.5: .......... done
[111i386-quarterly-job-05] | | `-- Installing freetype2-2.9.1...
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Make sure that the freetype module is loaded. If it is not, add the following
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===> 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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