[package - 124i386-quarterly][math/R-cran-irlba] Failed for R-cran-irlba-2.3.5 in stage
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Date: Thu, 06 Apr 2023 03:59:44 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/beefy4/data/124i386-quarterly/a08939a9435e/logs/R-cran-irlba-2.3.5.log
Build URL: https://pkg-status.freebsd.org/beefy4/build.html?mastername=124i386-quarterly&build=a08939a9435e
Log:
=>> Building math/R-cran-irlba
build started at Thu Apr 6 03:59:12 UTC 2023
port directory: /usr/ports/math/R-cran-irlba
package name: R-cran-irlba-2.3.5
building for: FreeBSD 124i386-quarterly-job-02 12.4-RELEASE-p2 FreeBSD 12.4-RELEASE-p2 i386
maintained by: tota@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> R-cran-irlba-2.3.5 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.19.1_1.pkg
[124i386-quarterly-job-02] Installing pkg-1.19.1_1...
[124i386-quarterly-job-02] Extracting pkg-1.19.1_1: .......... done
===> R-cran-irlba-2.3.5 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of R-cran-irlba-2.3.5
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by R-cran-irlba-2.3.5 for building
===========================================================================
=======================<phase: checksum >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by R-cran-irlba-2.3.5 for building
=> SHA256 Checksum OK for irlba_2.3.5.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License GPLv3 accepted by the user
===> Fetching all distfiles required by R-cran-irlba-2.3.5 for building
===> Extracting for R-cran-irlba-2.3.5
=> SHA256 Checksum OK for irlba_2.3.5.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for R-cran-irlba-2.3.5
===========================================================================
=======================<phase: build-depends >============================
===> R-cran-irlba-2.3.5 depends on file: /usr/local/bin/R - not found
===> Installing existing package /packages/All/R-4.2.3.pkg
[124i386-quarterly-job-02] Installing R-4.2.3...
[124i386-quarterly-job-02] `-- Installing cairo-1.17.4_2,3...
[124i386-quarterly-job-02] | `-- Installing fontconfig-2.14.2,1...
[124i386-quarterly-job-02] | | `-- Installing expat-2.5.0...
[124i386-quarterly-job-02] | | `-- Extracting expat-2.5.0: .......... done
[124i386-quarterly-job-02] | | `-- Installing freetype2-2.12.1_2...
[124i386-quarterly-job-02] | | `-- Installing brotli-1.0.9,1...
[124i386-quarterly-job-02] | | `-- Extracting brotli-1.0.9,1: .......... done
[124i386-quarterly-job-02] | | `-- Installing png-1.6.39...
[124i386-quarterly-job-02] | | `-- Extracting png-1.6.39: .......... done
[124i386-quarterly-job-02] | | `-- Extracting freetype2-2.12.1_2: .......... done
<snip>
[124i386-quarterly-job-02] `-- Extracting gmake-4.3_2: .......... done
[124i386-quarterly-job-02] `-- Installing harfbuzz-7.1.0...
[124i386-quarterly-job-02] | `-- Installing graphite2-1.3.14...
[124i386-quarterly-job-02] | `-- Extracting graphite2-1.3.14: .......... done
[124i386-quarterly-job-02] `-- Extracting harfbuzz-7.1.0: .......... done
[124i386-quarterly-job-02] `-- Installing icu-72.1,1...
[124i386-quarterly-job-02] `-- Extracting icu-72.1,1: .......... done
[124i386-quarterly-job-02] `-- Installing libXScrnSaver-1.2.4...
[124i386-quarterly-job-02] `-- Extracting libXScrnSaver-1.2.4: .......... done
[124i386-quarterly-job-02] `-- Installing libXmu-1.1.3,1...
[124i386-quarterly-job-02] | `-- Installing libXt-1.2.1,1...
[124i386-quarterly-job-02] | `-- Extracting libXt-1.2.1,1: .......... done
[124i386-quarterly-job-02] `-- Extracting libXmu-1.1.3,1: .......... done
[124i386-quarterly-job-02] `-- Installing pango-1.50.9_1...
[124i386-quarterly-job-02] | `-- Installing encodings-1.0.5,1...
[124i386-quarterly-job-02] | `-- Extracting encodings-1.0.5,1: .......... done
[124i386-quarterly-job-02] | `-- Installing fribidi-1.0.12...
[124i386-quarterly-job-02] | `-- Extracting fribidi-1.0.12: .......... done
[124i386-quarterly-job-02] | `-- Installing libXft-2.3.7...
[124i386-quarterly-job-02] | `-- Extracting libXft-2.3.7: .......... done
[124i386-quarterly-job-02] | `-- Installing libthai-0.1.29...
[124i386-quarterly-job-02] | | `-- Installing libdatrie-0.2.13_1...
[124i386-quarterly-job-02] | | `-- Extracting libdatrie-0.2.13_1: .......... done
[124i386-quarterly-job-02] | `-- Extracting libthai-0.1.29: .......... done
[124i386-quarterly-job-02] | `-- Installing xorg-fonts-truetype-7.7_1...
[124i386-quarterly-job-02] | | `-- Installing dejavu-2.37_1...
[124i386-quarterly-job-02] | | `-- Installing mkfontscale-1.2.1...
[124i386-quarterly-job-02] | | | `-- Installing libfontenc-1.1.4...
[124i386-quarterly-job-02] | | | `-- Extracting libfontenc-1.1.4: ......... done
[124i386-quarterly-job-02] | | `-- Extracting mkfontscale-1.2.1: ....... done
[124i386-quarterly-job-02] | | `-- Extracting dejavu-2.37_1: .......... done
[124i386-quarterly-job-02] | | `-- Installing font-bh-ttf-1.0.3_4...
[124i386-quarterly-job-02] | | `-- Extracting font-bh-ttf-1.0.3_4: .......... done
[124i386-quarterly-job-02] | | `-- Installing font-misc-ethiopic-1.0.4...
[124i386-quarterly-job-02] | | `-- Extracting font-misc-ethiopic-1.0.4: ...... done
[124i386-quarterly-job-02] | | `-- Installing font-misc-meltho-1.0.3_4...
[124i386-quarterly-job-02] | | `-- Extracting font-misc-meltho-1.0.3_4: .......... done
[124i386-quarterly-job-02] | `-- Extracting xorg-fonts-truetype-7.7_1: ... done
[124i386-quarterly-job-02] `-- Extracting pango-1.50.9_1: .......... done
[124i386-quarterly-job-02] `-- Installing tcl86-8.6.13...
[124i386-quarterly-job-02] `-- Extracting tcl86-8.6.13: .......... done
[124i386-quarterly-job-02] `-- Installing tk86-8.6.13...
[124i386-quarterly-job-02] `-- Extracting tk86-8.6.13: .......... done
[124i386-quarterly-job-02] Extracting R-4.2.3: .......... done
Running fc-cache to build fontconfig cache...
Generating GIO modules cache
Compiling glib schemas
No schema files found: doing nothing.
=====
Message from freetype2-2.12.1_2:
--
The 2.7.x series now uses the new subpixel hinting mode (V40 port's option) as
the default, emulating a modern version of ClearType. This change inevitably
leads to different rendering results, and you might change port's options to
adapt it to your taste (or use the new "FREETYPE_PROPERTIES" environment
variable).
The environment variable "FREETYPE_PROPERTIES" can be used to control the
driver properties. Example:
FREETYPE_PROPERTIES=truetype:interpreter-version=35 \
cff:no-stem-darkening=1 \
autofitter:warping=1
This allows to select, say, the subpixel hinting mode at runtime for a given
application.
If LONG_PCF_NAMES port's option was enabled, the PCF family names may include
the foundry and information whether they contain wide characters. For example,
"Sony Fixed" or "Misc Fixed Wide", instead of "Fixed". This can be disabled at
run time with using pcf:no-long-family-names property, if needed. Example:
FREETYPE_PROPERTIES=pcf:no-long-family-names=1
How to recreate fontconfig cache with using such environment variable,
if needed:
# env FREETYPE_PROPERTIES=pcf:no-long-family-names=1 fc-cache -fsv
The controllable properties are listed in the section "Controlling FreeType
Modules" in the reference's table of contents
(/usr/local/share/doc/freetype2/reference/index.html, if documentation was installed).
=====
Message from python39-3.9.16_2:
--
Note that some standard Python modules are provided as separate ports
as they require additional dependencies. They are available as:
py39-gdbm databases/py-gdbm@py39
py39-sqlite3 databases/py-sqlite3@py39
py39-tkinter x11-toolkits/py-tkinter@py39
=====
Message from ca_root_nss-3.89:
--
FreeBSD does not, and can not warrant that the certification authorities
whose certificates are included in this package have in any way been
audited for trustworthiness or RFC 3647 compliance.
Assessment and verification of trust is the complete responsibility of the
system administrator.
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
=====
Message from gcc12-12.2.0_5:
--
To ensure binaries built with this toolchain find appropriate versions
of the necessary run-time libraries, you may want to link using
-Wl,-rpath=/usr/local/lib/gcc12
For ports leveraging USE_GCC, USES=compiler, or USES=fortran this happens
transparently.
=====
Message from ghostscript9-agpl-base-9.56.1_8:
--
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 libthai-0.1.29:
--
===> NOTICE:
The libthai 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 dejavu-2.37_1:
--
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-irlba-2.3.5 depends on file: /usr/local/bin/R - found
===> Returning to build of R-cran-irlba-2.3.5
===> R-cran-irlba-2.3.5 depends on executable: gfortran12 - found
===> R-cran-irlba-2.3.5 depends on file: /usr/local/bin/as - found
===========================================================================
=======================<phase: lib-depends >============================
===========================================================================
=======================<phase: configure >============================
===> Configuring for R-cran-irlba-2.3.5
===========================================================================
=======================<phase: build >============================
===========================================================================
=======================<phase: run-depends >============================
===> R-cran-irlba-2.3.5 depends on file: /usr/local/bin/R - found
===> R-cran-irlba-2.3.5 depends on executable: gfortran12 - found
===========================================================================
=======================<phase: stage >============================
===> Staging for R-cran-irlba-2.3.5
===> Generating temporary packing list
* installing *source* package 'irlba' ...
** package 'irlba' successfully unpacked and MD5 sums checked
** using staged installation
** libs
gmake[1]: Entering directory '/wrkdirs/usr/ports/math/R-cran-irlba/work/irlba/src'
cc -I"/usr/local/lib/R/include" -DNDEBUG -I'/usr/local/lib/R/library/Matrix/include' -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 irlb.c -o irlb.o
irlb.c:590:11: error: too many arguments to function call, expected 0, have 7
sdmult (cha, t, one, zero, &chb, &chc, &chol_c);
~~~~~~ ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1 error generated.
gmake[1]: *** [/usr/local/lib/R/etc/Makeconf:169: irlb.o] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/math/R-cran-irlba/work/irlba/src'
ERROR: compilation failed for package 'irlba'
* removing '/wrkdirs/usr/ports/math/R-cran-irlba/work/stage/usr/local/lib/R/library/irlba'
*** Error code 1
Stop.
make: stopped in /usr/ports/math/R-cran-irlba