[package - 131releng-armv7-quarterly][biology/hyphy] Failed for hyphy-2.5.49 in configure
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Date: Fri, 28 Apr 2023 07:39:46 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: jrm@FreeBSD.org
Log URL: https://pkg-status.freebsd.org/ampere1/data/131releng-armv7-quarterly/60e7cbc83321/logs/hyphy-2.5.49.log
Build URL: https://pkg-status.freebsd.org/ampere1/build.html?mastername=131releng-armv7-quarterly&build=60e7cbc83321
Log:
=>> Building biology/hyphy
build started at Fri Apr 28 07:39:34 UTC 2023
port directory: /usr/ports/biology/hyphy
package name: hyphy-2.5.49
building for: FreeBSD 131releng-armv7-quarterly-job-08 13.1-RELEASE-p7 FreeBSD 13.1-RELEASE-p7 1301000 arm
maintained by: jrm@FreeBSD.org
Makefile ident:
Poudriere version: 3.2.8-23-ga7f8d188
Host OSVERSION: 1400073
Jail OSVERSION: 1301000
Job Id: 08
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---Begin OPTIONS List---
===> The following configuration options are available for hyphy-2.5.49:
AVX=off: Advanced vector extensions support
===> Use 'make config' to modify these settings
---End OPTIONS List---
--MAINTAINER--
jrm@FreeBSD.org
--End MAINTAINER--
--CONFIGURE_ARGS--
--End CONFIGURE_ARGS--
--CONFIGURE_ENV--
XDG_DATA_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/hyphy/work/.cache HOME=/wrkdirs/usr/ports/biology/hyphy/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/hyphy/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/hyphy/work/.pkgconfig:/usr/local/libdata/pkgconfig:/usr/local/share/pkgconfig:/usr/libdata/pkgconfig SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local"
--End CONFIGURE_ENV--
--MAKE_ENV--
NINJA_STATUS="[%p %s/%t] " XDG_DATA_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/hyphy/work XDG_CACHE_HOME=/wrkdirs/usr/ports/biology/hyphy/work/.cache HOME=/wrkdirs/usr/ports/biology/hyphy/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/hyphy/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin PKG_CONFIG_LIBDIR=/wrkdirs/usr/ports/biology/hyphy/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 DESTDIR=/wrkdirs/usr/ports/biology/hyphy/work/stage PREFIX=/usr/local LOCALBASE=/usr/local CC="cc" CFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing " CPP="cpp" CPPFLAGS="-isystem /usr/local/include" LDFLAGS=" -fstack-protector-strong -L/usr/local/lib " LIBS="" CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing
-isystem /usr/local/include " MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -m 555" BSD_INSTALL_LIB="install -s -m 0644" BSD_INSTALL_SCRIPT="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444"
--End MAKE_ENV--
--PLIST_SUB--
CMAKE_BUILD_TYPE="release" OSREL=13.1 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/hyphy" EXAMPLESDIR="share/examples/hyphy" DATADIR="share/hyphy" WWWDIR="www/hyphy" ETCDIR="etc/hyphy"
--End PLIST_SUB--
--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/hyphy DOCSDIR=/usr/local/share/doc/hyphy EXAMPLESDIR=/usr/local/share/examples/hyphy WWWDIR=/usr/local/www/hyphy ETCDIR=/usr/local/etc/hyphy
--End SUB_LIST--
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USE_PACKAGE_DEPENDS=yes
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=======================<phase: check-sanity >============================
===> License MIT accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> hyphy-2.5.49 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.19.1_1.pkg
[131releng-armv7-quarterly-job-08] Installing pkg-1.19.1_1...
[131releng-armv7-quarterly-job-08] Extracting pkg-1.19.1_1: .......... done
===> hyphy-2.5.49 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of hyphy-2.5.49
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License MIT accepted by the user
===> Fetching all distfiles required by hyphy-2.5.49 for building
===========================================================================
=======================<phase: checksum >============================
===> License MIT accepted by the user
===> Fetching all distfiles required by hyphy-2.5.49 for building
=> SHA256 Checksum OK for veg-hyphy-2.5.49_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License MIT accepted by the user
===> Fetching all distfiles required by hyphy-2.5.49 for building
===> Extracting for hyphy-2.5.49
=> SHA256 Checksum OK for veg-hyphy-2.5.49_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for hyphy-2.5.49
===========================================================================
=======================<phase: build-depends >============================
===> hyphy-2.5.49 depends on file: /usr/local/bin/cmake - not found
===> Installing existing package /packages/All/cmake-core-3.25.1.pkg
[131releng-armv7-quarterly-job-08] Installing cmake-core-3.25.1...
[131releng-armv7-quarterly-job-08] `-- Installing expat-2.5.0...
[131releng-armv7-quarterly-job-08] `-- Extracting expat-2.5.0: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing jsoncpp-1.9.5...
[131releng-armv7-quarterly-job-08] `-- Extracting jsoncpp-1.9.5: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing libuv-1.44.2...
[131releng-armv7-quarterly-job-08] `-- Extracting libuv-1.44.2: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing rhash-1.4.3...
[131releng-armv7-quarterly-job-08] | `-- Installing gettext-runtime-0.21.1...
[131releng-armv7-quarterly-job-08] | | `-- Installing indexinfo-0.3.1...
[131releng-armv7-quarterly-job-08] | | `-- Extracting indexinfo-0.3.1: .... done
[131releng-armv7-quarterly-job-08] | `-- Extracting gettext-runtime-0.21.1: .......... done
[131releng-armv7-quarterly-job-08] `-- Extracting rhash-1.4.3: .......... done
[131releng-armv7-quarterly-job-08] Extracting cmake-core-3.25.1: .......... done
===> hyphy-2.5.49 depends on file: /usr/local/bin/cmake - found
===> Returning to build of hyphy-2.5.49
===> hyphy-2.5.49 depends on executable: ninja - not found
===> Installing existing package /packages/All/ninja-1.11.1,2.pkg
[131releng-armv7-quarterly-job-08] Installing ninja-1.11.1,2...
[131releng-armv7-quarterly-job-08] `-- Installing python39-3.9.16_2...
[131releng-armv7-quarterly-job-08] | `-- Installing libffi-3.4.4...
[131releng-armv7-quarterly-job-08] | `-- Extracting libffi-3.4.4: .......... done
[131releng-armv7-quarterly-job-08] | `-- Installing mpdecimal-2.5.1...
[131releng-armv7-quarterly-job-08] | `-- Extracting mpdecimal-2.5.1: .......... done
[131releng-armv7-quarterly-job-08] | `-- Installing readline-8.2.0...
[131releng-armv7-quarterly-job-08] | `-- Extracting readline-8.2.0: .......... done
[131releng-armv7-quarterly-job-08] `-- Extracting python39-3.9.16_2: .......... done
[131releng-armv7-quarterly-job-08] Extracting ninja-1.11.1,2: ........ done
=====
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
===> hyphy-2.5.49 depends on executable: ninja - found
===> Returning to build of hyphy-2.5.49
===========================================================================
=======================<phase: lib-depends >============================
===> hyphy-2.5.49 depends on shared library: libcurl.so - not found
===> Installing existing package /packages/All/curl-8.0.1.pkg
[131releng-armv7-quarterly-job-08] Installing curl-8.0.1...
[131releng-armv7-quarterly-job-08] `-- Installing ca_root_nss-3.89...
[131releng-armv7-quarterly-job-08] `-- Extracting ca_root_nss-3.89: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing libnghttp2-1.52.0...
[131releng-armv7-quarterly-job-08] `-- Extracting libnghttp2-1.52.0: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing libpsl-0.21.2_2...
[131releng-armv7-quarterly-job-08] | `-- Installing libidn2-2.3.4...
[131releng-armv7-quarterly-job-08] | | `-- Installing libunistring-1.1...
[131releng-armv7-quarterly-job-08] | | `-- Extracting libunistring-1.1: .......... done
[131releng-armv7-quarterly-job-08] | `-- Extracting libidn2-2.3.4: .......... done
[131releng-armv7-quarterly-job-08] `-- Extracting libpsl-0.21.2_2: .......... done
[131releng-armv7-quarterly-job-08] `-- Installing libssh2-1.10.0_1,3...
[131releng-armv7-quarterly-job-08] `-- Extracting libssh2-1.10.0_1,3: .......... done
[131releng-armv7-quarterly-job-08] Extracting curl-8.0.1: .......... done
=====
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
===> hyphy-2.5.49 depends on shared library: libcurl.so - found (/usr/local/lib/libcurl.so)
===> Returning to build of hyphy-2.5.49
===========================================================================
=======================<phase: configure >============================
===> Configuring for hyphy-2.5.49
===> Performing in-source build
/bin/mkdir -p /wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.49
-- The C compiler identification is Clang 13.0.0
-- The CXX compiler identification is Clang 13.0.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Performing Test HAVE_SSE4_EXTENSIONS
-- Performing Test HAVE_SSE4_EXTENSIONS - Failed
-- Performing Test HAVE_NEON_EXTENSIONS
-- Performing Test HAVE_NEON_EXTENSIONS - Failed
Set default compiler flags to -fsigned-char -O3 -D_FORTIFY_SOURCE=2 -Wall
CMake Error at /wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.49/CMakeFiles/CMakeTmp/CMakeLists.txt:15 (add_executable):
No SOURCES given to target: cmTC_ae314
CMake Error at /usr/local/share/cmake/Modules/FindOpenMP.cmake:261 (try_compile):
Failed to generate test project build system.
Call Stack (most recent call first):
/usr/local/share/cmake/Modules/FindOpenMP.cmake:537 (_OPENMP_GET_FLAGS)
CMakeLists.txt:290 (find_package)
-- Configuring incomplete, errors occurred!
See also "/wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.49/CMakeFiles/CMakeOutput.log".
See also "/wrkdirs/usr/ports/biology/hyphy/work/hyphy-2.5.49/CMakeFiles/CMakeError.log".
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/hyphy