[package - main-powerpc64le-default][biology/jalview] Failed for jalview-2.11.2.5 in build

Go to: [ bottom of page ] [ top of archives ] [ this month ]
From: <pkg-fallout_at_FreeBSD.org>
Date: Wed, 14 Jun 2023 05:12:21 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:     yuri@FreeBSD.org
Log URL:        https://pkg-status.freebsd.org/foul2/data/main-powerpc64le-default/pd4ca0a7ed8cb_s572b77f8da/logs/jalview-2.11.2.5.log
Build URL:      https://pkg-status.freebsd.org/foul2/build.html?mastername=main-powerpc64le-default&build=pd4ca0a7ed8cb_s572b77f8da
Log:

=>> Building biology/jalview
build started at Wed Jun 14 05:10:35 UTC 2023
port directory: /usr/ports/biology/jalview
package name: jalview-2.11.2.5
building for: FreeBSD main-powerpc64le-default-job-17 14.0-CURRENT FreeBSD 14.0-CURRENT 1400088 powerpc
maintained by: yuri@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-23-ga7f8d188
Host OSVERSION: 1400088
Jail OSVERSION: 1400088
Job Id: 17

---Begin Environment---
SHELL=/bin/sh
OSVERSION=1400088
UNAME_v=FreeBSD 14.0-CURRENT 1400088
UNAME_r=14.0-CURRENT
BLOCKSIZE=K
MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
LOCALBASE=/usr/local
USER=root
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.2.8-23-ga7f8d188
MASTERMNT=/usr/local/poudriere/data/.m/main-powerpc64le-default/ref
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
PWD=/usr/local/poudriere/data/.m/main-powerpc64le-default/ref/.p/pool
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=main-powerpc64le-default
SCRIPTPREFIX=/usr/local/share/poudriere
OLDPWD=/usr/local/poudriere/data/.m/main-powerpc64le-default/ref/.p
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---

---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
---End OPTIONS List---

--MAINTAINER--
yuri@FreeBSD.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/jalview/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/jalview/work  XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/jalview/work/.cache  HOME=/wrkdirs/usr/ports/biology/jalview/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/jalview/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/jalview/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8
--End CONFIGURE_ENV--

--MAKE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/jalview/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/jalview/work  XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/jalview/work/.cache  HOME=/wrkdirs/usr/ports/biology/jalview/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/jalview/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/jalview/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES LANG=en_US.UTF-8 LC_ALL=en_US.UTF-8 PREFIX=/usr/local  LOCALBASE=/usr/local  CC="cc" CFLAGS="-O2 -pipe  -fstack-protector-strong -fno-strict-aliasing "  CPP="cpp" CPPFLAGS=""  LDFLAGS=" -fstack-protector-strong " LIBS=""  CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -fno-strict-aliasing  "  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -m 555"  BSD_INSTALL_LIB="install  -s -m 0644"  BSD_INSTALL_SCRIPT="inst
 all  -m 555"  BSD_INSTALL_DATA="install  -m 0644"  BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
JAVASHAREDIR="share/java"  JAVAJARDIR="share/java/classes" OSREL=14.0 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/jalview"  EXAMPLESDIR="share/examples/jalview"  DATADIR="share/java/jalview"  WWWDIR="www/jalview"  ETCDIR="etc/jalview"
--End PLIST_SUB--

--SUB_LIST--
JAVA=/usr/local/openjdk11/bin/java JAVASHAREDIR="/usr/local/share/java"  JAVAJARDIR="/usr/local/share/java/classes"  JAVALIBDIR="/usr/local/share/java/classes" JAVA_VERSION="11" PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/java/jalview DOCSDIR=/usr/local/share/doc/jalview EXAMPLESDIR=/usr/local/share/examples/jalview  WWWDIR=/usr/local/www/jalview ETCDIR=/usr/local/etc/jalview
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### /usr/local/etc/poudriere.d/make.conf ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure.  It currently retries the same
# failed mirror and then fails rather then trying another.  It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs
MAKE_JOBS_NUMBER=2
#### /usr/ports/Mk/Scripts/ports_env.sh ####
_CCVERSION_921dbbb2=FreeBSD clang version 15.0.7 (https://github.com/llvm/llvm-project.git llvmorg-15.0.7-0-g8dfdcc7b7bf6) Target: powerpc64le-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin
_ALTCCVERSION_921dbbb2=none
_CXXINTERNAL_acaad9ca=FreeBSD clang version 15.0.7 (https://github.com/llvm/llvm-project.git llvmorg-15.0.7-0-g8dfdcc7b7bf6) Target: powerpc64le-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o"
CC_OUTPUT_921dbbb2_58173849=yes
CC_OUTPUT_921dbbb2_9bdba57c=yes
CC_OUTPUT_921dbbb2_6a4fe7f5=yes
CC_OUTPUT_921dbbb2_6bcac02b=yes
CC_OUTPUT_921dbbb2_67d20829=yes
CC_OUTPUT_921dbbb2_bfa62e83=yes
CC_OUTPUT_921dbbb2_f0b4d593=yes
CC_OUTPUT_921dbbb2_308abb44=yes
CC_OUTPUT_921dbbb2_f00456e5=yes
CC_OUTPUT_921dbbb2_65ad290d=yes
CC_OUTPUT_921dbbb2_f2776b26=yes
CC_OUTPUT_921dbbb2_53255a77=yes
CC_OUTPUT_921dbbb2_911cfe02=yes
CC_OUTPUT_921dbbb2_b2657cc3=yes
CC_OUTPUT_921dbbb2_380987f7=yes
CC_OUTPUT_921dbbb2_160933ec=yes
CC_OUTPUT_921dbbb2_fb62803b=yes
CC_OUTPUT_921dbbb2_af59ad06=yes
CC_OUTPUT_921dbbb2_a15f3fcf=yes
_OBJC_CCVERSION_921dbbb2=FreeBSD clang version 15.0.7 (https://github.com/llvm/llvm-project.git llvmorg-15.0.7-0-g8dfdcc7b7bf6) Target: powerpc64le-unknown-freebsd14.0 Thread model: posix InstalledDir: /usr/bin
_OBJC_ALTCCVERSION_921dbbb2=none
ARCH=powerpc64le
OPSYS=FreeBSD
_OSRELEASE=14.0-CURRENT
OSREL=14.0
OSVERSION=1400088
PYTHONBASE=/usr/local
CONFIGURE_MAX_CMD_LEN=524288
HAVE_PORTS_ENV=1
#### Misc Poudriere ####
GID=0
UID=0
---End make.conf---
--Resource limits--
cpu time               (seconds, -t)  unlimited
file size           (512-blocks, -f)  unlimited
data seg size           (kbytes, -d)  33554432
stack size              (kbytes, -s)  524288
core file size      (512-blocks, -c)  unlimited
max memory size         (kbytes, -m)  unlimited
locked memory           (kbytes, -l)  unlimited
max user processes              (-u)  89999
open files                      (-n)  1024
virtual mem size        (kbytes, -v)  unlimited
swap limit              (kbytes, -w)  unlimited
socket buffer size       (bytes, -b)  unlimited
pseudo-terminals                (-p)  unlimited
kqueues                         (-k)  unlimited
umtx shared locks               (-o)  unlimited
--End resource limits--
=======================<phase: check-sanity   >============================
===>  License GPLv3 accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   jalview-2.11.2.5 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.19.1_1.pkg
[main-powerpc64le-default-job-17] Installing pkg-1.19.1_1...
[main-powerpc64le-default-job-17] Extracting pkg-1.19.1_1: .......... done
===>   jalview-2.11.2.5 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of jalview-2.11.2.5
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by jalview-2.11.2.5 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by jalview-2.11.2.5 for building
=> SHA256 Checksum OK for jalview_2_11_2_5.tar.gz.
=> SHA256 Checksum OK for jalview-2.11.2.5-deps.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License GPLv3 accepted by the user
===> Fetching all distfiles required by jalview-2.11.2.5 for building
===>  Extracting for jalview-2.11.2.5
=> SHA256 Checksum OK for jalview_2_11_2_5.tar.gz.
=> SHA256 Checksum OK for jalview-2.11.2.5-deps.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for jalview-2.11.2.5
===========================================================================
=======================<phase: build-depends  >============================
===>   jalview-2.11.2.5 depends on executable: gradle - not found
===>   Installing existing package /packages/All/gradle-8.0.1.pkg
[main-powerpc64le-default-job-17] Installing gradle-8.0.1...
[main-powerpc64le-default-job-17] `-- Installing openjdk8-8.372.07.1_1...
[main-powerpc64le-default-job-17] |   `-- Installing alsa-lib-1.2.2_1...
[main-powerpc64le-default-job-17] |   `-- Extracting alsa-lib-1.2.2_1: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing dejavu-2.37_1...
[main-powerpc64le-default-job-17] |   | `-- Installing fontconfig-2.14.2,1...
[main-powerpc64le-default-job-17] |   |   `-- Installing expat-2.5.0...
[main-powerpc64le-default-job-17] |   |   `-- Extracting expat-2.5.0: .......... done
[main-powerpc64le-default-job-17] |   |   `-- Installing freetype2-2.12.1_2...
[main-powerpc64le-default-job-17] |   |   | `-- Installing brotli-1.0.9,1...
[main-powerpc64le-default-job-17] |   |   | `-- Extracting brotli-1.0.9,1: .......... done
[main-powerpc64le-default-job-17] |   |   | `-- Installing png-1.6.39...
<snip>
[main-powerpc64le-default-job-17] |   | `-- Extracting libXfixes-6.0.0: .......... done
[main-powerpc64le-default-job-17] |   `-- Extracting libXi-1.8,1: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing libXrender-0.9.10_2...
[main-powerpc64le-default-job-17] |   `-- Extracting libXrender-0.9.10_2: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing libXt-1.2.1,1...
[main-powerpc64le-default-job-17] |   | `-- Installing libICE-1.1.0_1,1...
[main-powerpc64le-default-job-17] |   | `-- Extracting libICE-1.1.0_1,1: .......... done
[main-powerpc64le-default-job-17] |   | `-- Installing libSM-1.2.3,1...
[main-powerpc64le-default-job-17] |   | `-- Extracting libSM-1.2.3,1: .......... done
[main-powerpc64le-default-job-17] |   `-- Extracting libXt-1.2.1,1: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing libXtst-1.2.3_2...
[main-powerpc64le-default-job-17] |   `-- Extracting libXtst-1.2.3_2: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing libinotify-20211018...
[main-powerpc64le-default-job-17] |   `-- Extracting libinotify-20211018: .......... done
[main-powerpc64le-default-job-17] `-- Extracting openjdk8-8.372.07.1_1: .......... done
[main-powerpc64le-default-job-17] Extracting gradle-8.0.1: .......... done
Running fc-cache to build fontconfig cache...
=====
Message from alsa-lib-1.2.2_1:

--
===>   NOTICE:

The alsa-lib 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 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 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.
=====
Message from libinotify-20211018:

--
You might want to consider increasing the kern.maxfiles tunable if you plan
to use this library for applications that need to monitor activity of a lot
of files.
=====
Message from openjdk8-8.372.07.1_1:

--
This OpenJDK implementation requires fdescfs(5) mounted on /dev/fd and
procfs(5) mounted on /proc.

If you have not done it yet, please do the following:

	mount -t fdescfs fdesc /dev/fd
	mount -t procfs proc /proc

To make it permanent, you need the following lines in /etc/fstab:

	fdesc	/dev/fd		fdescfs		rw	0	0
	proc	/proc		procfs		rw	0	0
===>   jalview-2.11.2.5 depends on executable: gradle - found
===>   Returning to build of jalview-2.11.2.5
===>   jalview-2.11.2.5 depends on file: /usr/local/openjdk11/bin/java - not found
===>   Installing existing package /packages/All/openjdk11-11.0.19+7.1.pkg
[main-powerpc64le-default-job-17] Installing openjdk11-11.0.19+7.1...
[main-powerpc64le-default-job-17] `-- Installing jpeg-turbo-2.1.5.1...
[main-powerpc64le-default-job-17] `-- Extracting jpeg-turbo-2.1.5.1: .......... done
[main-powerpc64le-default-job-17] `-- Installing lcms2-2.15_1...
[main-powerpc64le-default-job-17] |   `-- Installing tiff-4.4.0_1...
[main-powerpc64le-default-job-17] |   | `-- Installing jbigkit-2.1_1...
[main-powerpc64le-default-job-17] |   | `-- Extracting jbigkit-2.1_1: .......... done
[main-powerpc64le-default-job-17] |   | `-- Installing libdeflate-1.18...
[main-powerpc64le-default-job-17] |   | `-- Extracting libdeflate-1.18: .......... done
[main-powerpc64le-default-job-17] |   | `-- Installing zstd-1.5.5...
[main-powerpc64le-default-job-17] |   |   `-- Installing liblz4-1.9.4,1...
[main-powerpc64le-default-job-17] |   |   `-- Extracting liblz4-1.9.4,1: .......... done
[main-powerpc64le-default-job-17] |   | `-- Extracting zstd-1.5.5: .......... done
[main-powerpc64le-default-job-17] |   `-- Extracting tiff-4.4.0_1: .......... done
[main-powerpc64le-default-job-17] `-- Extracting lcms2-2.15_1: .......... done
[main-powerpc64le-default-job-17] `-- Installing libXrandr-1.5.2...
[main-powerpc64le-default-job-17] `-- Extracting libXrandr-1.5.2: .......... done
[main-powerpc64le-default-job-17] `-- Installing xorg-fonts-truetype-7.7_1...
[main-powerpc64le-default-job-17] |   `-- Installing encodings-1.0.5,1...
[main-powerpc64le-default-job-17] |   `-- Extracting encodings-1.0.5,1: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing font-bh-ttf-1.0.3_4...
[main-powerpc64le-default-job-17] |   `-- Extracting font-bh-ttf-1.0.3_4: .......... done
[main-powerpc64le-default-job-17] |   `-- Installing font-misc-ethiopic-1.0.4...
[main-powerpc64le-default-job-17] |   `-- Extracting font-misc-ethiopic-1.0.4: ...... done
[main-powerpc64le-default-job-17] |   `-- Installing font-misc-meltho-1.0.3_4...
[main-powerpc64le-default-job-17] |   `-- Extracting font-misc-meltho-1.0.3_4: .......... done
[main-powerpc64le-default-job-17] `-- Extracting xorg-fonts-truetype-7.7_1: ... done
[main-powerpc64le-default-job-17] Extracting openjdk11-11.0.19+7.1: .......... done
Running fc-cache to build fontconfig cache...
=====
Message from openjdk11-11.0.19+7.1:

--
This OpenJDK implementation requires fdescfs(5) mounted on /dev/fd and
procfs(5) mounted on /proc.

If you have not done it yet, please do the following:

	mount -t fdescfs fdesc /dev/fd
	mount -t procfs proc /proc

To make it permanent, you need the following lines in /etc/fstab:

	fdesc	/dev/fd		fdescfs		rw	0	0
	proc	/proc		procfs		rw	0	0
===>   jalview-2.11.2.5 depends on file: /usr/local/openjdk11/bin/java - found
===>   Returning to build of jalview-2.11.2.5
===========================================================================
=======================<phase: lib-depends    >============================
===========================================================================
=======================<phase: configure      >============================
===>  Configuring for jalview-2.11.2.5
===========================================================================
=======================<phase: build          >============================
===>  Building for jalview-2.11.2.5

Welcome to Gradle 8.0.1!

Here are the highlights of this release:
 - Improvements to the Kotlin DSL
 - Fine-grained parallelism from the first build with configuration cache
 - Configurable Gradle user home cache cleanup

For more details see https://docs.gradle.org/8.0.1/release-notes.html

Starting a Gradle Daemon (subsequent builds will be faster)

FAILURE: Build failed with an exception.

* Where:
Build file '/wrkdirs/usr/ports/biology/jalview/work/jalview/build.gradle' line: 48

* What went wrong:
Plugin [id: 'com.diffplug.gradle.spotless', version: '3.28.0'] was not found in any of the following sources:

- Gradle Core Plugins (plugin is not in 'org.gradle' namespace)
- Plugin Repositories (could not resolve plugin artifact 'com.diffplug.gradle.spotless:com.diffplug.gradle.spotless.gradle.plugin:3.28.0')
  Searched in the following repositories:
    Gradle Central Plugin Repository

* Try:
> Run with --stacktrace option to get the stack trace.
> Run with --info or --debug option to get more log output.
> Run with --scan to get full insights.

* Get more help at https://help.gradle.org

BUILD FAILED in 52s
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/jalview