biology/gffread: remove local poudriere files
This commit is contained in:
Rene Ladan
parent
f1b7a257fe
commit
4e051b961c
2 changed files with 0 additions and 526 deletions
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@ -1,262 +0,0 @@
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build started at Wed Nov 10 14:44:00 CST 2021
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port directory: /usr/ports/wip/gffread
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package name: gffread-0.12.7
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building for: FreeBSD 12-2-amd64-default 12.2-RELEASE-p10 FreeBSD 12.2-RELEASE-p10 amd64
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maintained by: jwb@FreeBSD.org
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Makefile ident:
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Poudriere version: 3.3.7_1
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Host OSVERSION: 1300139
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Jail OSVERSION: 1202000
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Job Id:
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---Begin Environment---
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SHELL=/bin/csh
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OSVERSION=1202000
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UNAME_v=FreeBSD 12.2-RELEASE-p10
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UNAME_r=12.2-RELEASE-p10
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BLOCKSIZE=K
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MAIL=/var/mail/root
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WARNING_WAIT=0
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STATUS=1
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HOME=/root
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PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
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LOCALBASE=/usr/local
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USER=root
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TRYBROKEN=yes
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LIBEXECPREFIX=/usr/local/libexec/poudriere
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POUDRIERE_VERSION=3.3.7_1
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MASTERMNT=/usr/local/poudriere/data/.m/12-2-amd64-default/ref
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DEV_WARNING_WAIT=0
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POUDRIERE_BUILD_TYPE=bulk
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PACKAGE_BUILDING=yes
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SAVED_TERM=xterm-256color
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GID=0
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UID=0
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PWD=/usr/local/poudriere/data/.m/12-2-amd64-default/ref/.p
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NO_WARNING_PKG_INSTALL_EOL=yes
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P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
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MASTERNAME=12-2-amd64-default
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SCRIPTPREFIX=/usr/local/share/poudriere
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OLDPWD=/usr/local/poudriere/data/.m/12-2-amd64-default/ref/.p
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SCRIPTPATH=/usr/local/share/poudriere/testport.sh
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POUDRIEREPATH=/usr/local/bin/poudriere
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---End Environment---
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---Begin Poudriere Port Flags/Env---
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PORT_FLAGS=
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PKGENV=PACKAGES=/tmp/pkgs PKGREPOSITORY=/tmp/pkgs PKGLATESTREPOSITORY=/tmp/pkgs/Latest
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FLAVOR=
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DEPENDS_ARGS=
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MAKE_ARGS=
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---End Poudriere Port Flags/Env---
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---Begin OPTIONS List---
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---End OPTIONS List---
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--MAINTAINER--
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jwb@FreeBSD.org
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--End MAINTAINER--
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--CONFIGURE_ARGS--
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--End CONFIGURE_ARGS--
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--CONFIGURE_ENV--
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MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CACHE_HOME=/wrkdirs/usr/ports/wip/gffread/work/.cache HOME=/wrkdirs/usr/ports/wip/gffread/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/wip/gffread/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh
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--End CONFIGURE_ENV--
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--MAKE_ENV--
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XDG_DATA_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CACHE_HOME=/wrkdirs/usr/ports/wip/gffread/work/.cache HOME=/wrkdirs/usr/ports/wip/gffread/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/wip/gffread/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES 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="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444"
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--End MAKE_ENV--
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--PLIST_SUB--
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OSREL=12.2 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/gffread" EXAMPLESDIR="share/examples/gffread" DATADIR="share/gffread" WWWDIR="www/gffread" ETCDIR="etc/gffread"
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--End PLIST_SUB--
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--SUB_LIST--
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PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/gffread DOCSDIR=/usr/local/share/doc/gffread EXAMPLESDIR=/usr/local/share/examples/gffread WWWDIR=/usr/local/www/gffread ETCDIR=/usr/local/etc/gffread
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--End SUB_LIST--
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---Begin make.conf---
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USE_PACKAGE_DEPENDS=yes
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BATCH=yes
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WRKDIRPREFIX=/wrkdirs
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PORTSDIR=/usr/ports
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PACKAGES=/packages
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DISTDIR=/distfiles
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FORCE_PACKAGE=yes
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PACKAGE_BUILDING=yes
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PACKAGE_BUILDING_FLAVORS=yes
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#### /usr/local/etc/poudriere.d/make.conf ####
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# Added by auto-admin from /usr/local/sbin/port-poudriere-setup
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USE_LOCAL_MK=yes
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# End auto-admin addition
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#### Misc Poudriere ####
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.include "/etc/make.conf.ports_env"
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---End make.conf---
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--Resource limits--
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cpu time (seconds, -t) unlimited
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file size (512-blocks, -f) unlimited
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data seg size (kbytes, -d) 33554432
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stack size (kbytes, -s) 524288
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core file size (512-blocks, -c) unlimited
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max memory size (kbytes, -m) unlimited
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locked memory (kbytes, -l) unlimited
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max user processes (-u) 12013
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open files (-n) 1024
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virtual mem size (kbytes, -v) unlimited
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swap limit (kbytes, -w) unlimited
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socket buffer size (bytes, -b) unlimited
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pseudo-terminals (-p) unlimited
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kqueues (-k) unlimited
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umtx shared locks (-o) unlimited
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--End resource limits--
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=======================<phase: check-sanity >============================
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===> License MIT accepted by the user
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===========================================================================
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=======================<phase: pkg-depends >============================
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===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - not found
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===> Installing existing package /packages/All/pkg-1.17.3.pkg
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[12-2-amd64-default] Installing pkg-1.17.3...
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[12-2-amd64-default] Extracting pkg-1.17.3: .......... done
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===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
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===> Returning to build of gffread-0.12.7
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===========================================================================
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=======================<phase: fetch-depends >============================
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===========================================================================
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=======================<phase: fetch >============================
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===> License MIT accepted by the user
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===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
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===> Fetching all distfiles required by gffread-0.12.7 for building
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===========================================================================
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=======================<phase: checksum >============================
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===> License MIT accepted by the user
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===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
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===> Fetching all distfiles required by gffread-0.12.7 for building
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=> SHA256 Checksum OK for gpertea-gffread-v0.12.7_GH0.tar.gz.
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=> SHA256 Checksum OK for gpertea-gclib-v0.12.7_GH0.tar.gz.
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===========================================================================
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=======================<phase: extract-depends>============================
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===========================================================================
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=======================<phase: extract >============================
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===> License MIT accepted by the user
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===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
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===> Fetching all distfiles required by gffread-0.12.7 for building
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===> Extracting for gffread-0.12.7
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=> SHA256 Checksum OK for gpertea-gffread-v0.12.7_GH0.tar.gz.
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=> SHA256 Checksum OK for gpertea-gclib-v0.12.7_GH0.tar.gz.
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===========================================================================
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=======================<phase: patch-depends >============================
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===========================================================================
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=======================<phase: patch >============================
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===> Patching for gffread-0.12.7
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===> Applying FreeBSD patches for gffread-0.12.7 from /usr/ports/wip/gffread/files
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===========================================================================
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=======================<phase: build-depends >============================
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===> gffread-0.12.7 depends on package: gmake>=4.3 - not found
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===> Installing existing package /packages/All/gmake-4.3_2.pkg
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[12-2-amd64-default] Installing gmake-4.3_2...
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[12-2-amd64-default] `-- Installing gettext-runtime-0.21...
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[12-2-amd64-default] | `-- Installing indexinfo-0.3.1...
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[12-2-amd64-default] | `-- Extracting indexinfo-0.3.1: .... done
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[12-2-amd64-default] `-- Extracting gettext-runtime-0.21: .......... done
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[12-2-amd64-default] Extracting gmake-4.3_2: .......... done
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===> gffread-0.12.7 depends on package: gmake>=4.3 - found
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===> Returning to build of gffread-0.12.7
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===========================================================================
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=======================<phase: lib-depends >============================
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===========================================================================
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=>> Recording filesystem state for prebuild... done
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=======================<phase: configure >============================
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===> gffread-0.12.7 depends on package: gmake>=4.3 - found
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===> Configuring for gffread-0.12.7
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===========================================================================
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=======================<phase: build >============================
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===> Building for gffread-0.12.7
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gmake[1]: Entering directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GBase.cpp -o gclib/GBase.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GArgs.cpp -o gclib/GArgs.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GFaSeqGet.cpp -o gclib/GFaSeqGet.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/gdna.cpp -o gclib/gdna.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/codons.cpp -o gclib/codons.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/gff.cpp -o gclib/gff.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GStr.cpp -o gclib/GStr.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GFastaIndex.cpp -o gclib/GFastaIndex.o
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gff_utils.cpp -o gff_utils.o
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gclib/gff.cpp:37:12: warning: unused variable 'CLASSCODE_J_RANK' [-Wunused-const-variable]
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const byte CLASSCODE_J_RANK = 6; // all junctional based overlaps
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^
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c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gffread.cpp -o gffread.o
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1 warning generated.
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c++ -fstack-protector-strong -o gffread gclib/GBase.o gclib/GArgs.o gclib/GFaSeqGet.o gclib/gdna.o gclib/codons.o gclib/gff.o gclib/GStr.o gclib/GFastaIndex.o gff_utils.o gffread.o
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gmake[1]: Leaving directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
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===========================================================================
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=>> Checking for filesystem violations... done
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=======================<phase: run-depends >============================
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===========================================================================
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=>> Recording filesystem state for prestage... done
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=======================<phase: stage >============================
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===> Staging for gffread-0.12.7
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===> Generating temporary packing list
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gmake[1]: Entering directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
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install -c gffread /wrkdirs/usr/ports/wip/gffread/work/stage/usr/local/bin
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strip /wrkdirs/usr/ports/wip/gffread/work/stage/usr/local/bin/gffread
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gmake[1]: Leaving directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
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====> Compressing man pages (compress-man)
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===========================================================================
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====> Running Q/A tests (stage-qa)
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====> Checking for pkg-plist issues (check-plist)
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===> Parsing plist
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===> Checking for items in STAGEDIR missing from pkg-plist
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===> Checking for items in pkg-plist which are not in STAGEDIR
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===> No pkg-plist issues found (check-plist)
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=>> Checking for staging violations... done
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=======================<phase: package >============================
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===> Building package for gffread-0.12.7
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install -l rs /tmp/pkgs/gffread-0.12.7.pkg /tmp/pkgs/gffread-0.12.7.txz
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===========================================================================
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=>> Recording filesystem state for preinst... done
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=======================<phase: install >============================
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===> Installing for gffread-0.12.7
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===> Checking if gffread is already installed
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===> Registering installation for gffread-0.12.7
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[12-2-amd64-default] Installing gffread-0.12.7...
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===========================================================================
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=>> Checking shared library dependencies
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0x0000000000000001 NEEDED Shared library: [libc++.so.1]
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0x0000000000000001 NEEDED Shared library: [libc.so.7]
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0x0000000000000001 NEEDED Shared library: [libcxxrt.so.1]
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0x0000000000000001 NEEDED Shared library: [libm.so.5]
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=======================<phase: deinstall >============================
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===> Deinstalling for gffread
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===> Deinstalling gffread-0.12.7
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Updating database digests format: ..... done
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Checking integrity... done (0 conflicting)
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Deinstallation has been requested for the following 1 packages (of 0 packages in the universe):
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Installed packages to be REMOVED:
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gffread: 0.12.7
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Number of packages to be removed: 1
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[12-2-amd64-default] [1/1] Deinstalling gffread-0.12.7...
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[12-2-amd64-default] [1/1] Deleting files for gffread-0.12.7: .... done
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===========================================================================
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=>> Checking for extra files and directories
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[00:00:24] Installing from package
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[12-2-amd64-default] Installing gffread-0.12.7...
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[12-2-amd64-default] Extracting gffread-0.12.7: .... done
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[00:00:24] Cleaning up
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===> Cleaning for gffread-0.12.7
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[00:00:24] Deinstalling package
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Updating database digests format: . done
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Checking integrity... done (0 conflicting)
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Deinstallation has been requested for the following 1 packages (of 0 packages in the universe):
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Installed packages to be REMOVED:
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gffread: 0.12.7
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Number of packages to be removed: 1
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[12-2-amd64-default] [1/1] Deinstalling gffread-0.12.7...
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[12-2-amd64-default] [1/1] Deleting files for gffread-0.12.7: .... done
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build of wip/gffread | gffread-0.12.7 ended at Wed Nov 10 14:44:09 CST 2021
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build time: 00:00:09
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@ -1,264 +0,0 @@
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build started at Wed Nov 10 14:44:25 CST 2021
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port directory: /usr/ports/wip/gffread
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package name: gffread-0.12.7
|
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building for: FreeBSD 13-0-amd64-default 13.0-RELEASE-p4 FreeBSD 13.0-RELEASE-p4 amd64
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maintained by: jwb@FreeBSD.org
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Makefile ident:
|
||||
Poudriere version: 3.3.7_1
|
||||
Host OSVERSION: 1300139
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||||
Jail OSVERSION: 1300139
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Job Id:
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||||
|
||||
---Begin Environment---
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||||
SHELL=/bin/csh
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OSVERSION=1300139
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UNAME_v=FreeBSD 13.0-RELEASE-p4
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UNAME_r=13.0-RELEASE-p4
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BLOCKSIZE=K
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MAIL=/var/mail/root
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MM_CHARSET=UTF-8
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LANG=C.UTF-8
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WARNING_WAIT=0
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STATUS=1
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HOME=/root
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PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
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LOCALBASE=/usr/local
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||||
USER=root
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||||
TRYBROKEN=yes
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||||
LIBEXECPREFIX=/usr/local/libexec/poudriere
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||||
POUDRIERE_VERSION=3.3.7_1
|
||||
MASTERMNT=/usr/local/poudriere/data/.m/13-0-amd64-default/ref
|
||||
DEV_WARNING_WAIT=0
|
||||
POUDRIERE_BUILD_TYPE=bulk
|
||||
PACKAGE_BUILDING=yes
|
||||
SAVED_TERM=xterm-256color
|
||||
GID=0
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||||
UID=0
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||||
PWD=/usr/local/poudriere/data/.m/13-0-amd64-default/ref/.p
|
||||
NO_WARNING_PKG_INSTALL_EOL=yes
|
||||
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
|
||||
MASTERNAME=13-0-amd64-default
|
||||
SCRIPTPREFIX=/usr/local/share/poudriere
|
||||
OLDPWD=/usr/local/poudriere/data/.m/13-0-amd64-default/ref/.p
|
||||
SCRIPTPATH=/usr/local/share/poudriere/testport.sh
|
||||
POUDRIEREPATH=/usr/local/bin/poudriere
|
||||
---End Environment---
|
||||
|
||||
---Begin Poudriere Port Flags/Env---
|
||||
PORT_FLAGS=
|
||||
PKGENV=PACKAGES=/tmp/pkgs PKGREPOSITORY=/tmp/pkgs PKGLATESTREPOSITORY=/tmp/pkgs/Latest
|
||||
FLAVOR=
|
||||
DEPENDS_ARGS=
|
||||
MAKE_ARGS=
|
||||
---End Poudriere Port Flags/Env---
|
||||
|
||||
---Begin OPTIONS List---
|
||||
---End OPTIONS List---
|
||||
|
||||
--MAINTAINER--
|
||||
jwb@FreeBSD.org
|
||||
--End MAINTAINER--
|
||||
|
||||
--CONFIGURE_ARGS--
|
||||
|
||||
--End CONFIGURE_ARGS--
|
||||
|
||||
--CONFIGURE_ENV--
|
||||
MAKE=gmake XDG_DATA_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CACHE_HOME=/wrkdirs/usr/ports/wip/gffread/work/.cache HOME=/wrkdirs/usr/ports/wip/gffread/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/wip/gffread/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh
|
||||
--End CONFIGURE_ENV--
|
||||
|
||||
--MAKE_ENV--
|
||||
XDG_DATA_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CONFIG_HOME=/wrkdirs/usr/ports/wip/gffread/work XDG_CACHE_HOME=/wrkdirs/usr/ports/wip/gffread/work/.cache HOME=/wrkdirs/usr/ports/wip/gffread/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/wip/gffread/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES 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="install -m 555" BSD_INSTALL_DATA="install -m 0644" BSD_INSTALL_MAN="install -m 444"
|
||||
--End MAKE_ENV--
|
||||
|
||||
--PLIST_SUB--
|
||||
OSREL=13.0 PREFIX=%D LOCALBASE=/usr/local RESETPREFIX=/usr/local LIB32DIR=lib DOCSDIR="share/doc/gffread" EXAMPLESDIR="share/examples/gffread" DATADIR="share/gffread" WWWDIR="www/gffread" ETCDIR="etc/gffread"
|
||||
--End PLIST_SUB--
|
||||
|
||||
--SUB_LIST--
|
||||
PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/gffread DOCSDIR=/usr/local/share/doc/gffread EXAMPLESDIR=/usr/local/share/examples/gffread WWWDIR=/usr/local/www/gffread ETCDIR=/usr/local/etc/gffread
|
||||
--End SUB_LIST--
|
||||
|
||||
---Begin make.conf---
|
||||
USE_PACKAGE_DEPENDS=yes
|
||||
BATCH=yes
|
||||
WRKDIRPREFIX=/wrkdirs
|
||||
PORTSDIR=/usr/ports
|
||||
PACKAGES=/packages
|
||||
DISTDIR=/distfiles
|
||||
FORCE_PACKAGE=yes
|
||||
PACKAGE_BUILDING=yes
|
||||
PACKAGE_BUILDING_FLAVORS=yes
|
||||
#### /usr/local/etc/poudriere.d/make.conf ####
|
||||
# Added by auto-admin from /usr/local/sbin/port-poudriere-setup
|
||||
USE_LOCAL_MK=yes
|
||||
# End auto-admin addition
|
||||
#### Misc Poudriere ####
|
||||
.include "/etc/make.conf.ports_env"
|
||||
---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) 12013
|
||||
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 MIT accepted by the user
|
||||
===========================================================================
|
||||
=======================<phase: pkg-depends >============================
|
||||
===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - not found
|
||||
===> Installing existing package /packages/All/pkg-1.17.3.pkg
|
||||
[13-0-amd64-default] Installing pkg-1.17.3...
|
||||
[13-0-amd64-default] Extracting pkg-1.17.3: .......... done
|
||||
===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
|
||||
===> Returning to build of gffread-0.12.7
|
||||
===========================================================================
|
||||
=======================<phase: fetch-depends >============================
|
||||
===========================================================================
|
||||
=======================<phase: fetch >============================
|
||||
===> License MIT accepted by the user
|
||||
===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
|
||||
===> Fetching all distfiles required by gffread-0.12.7 for building
|
||||
===========================================================================
|
||||
=======================<phase: checksum >============================
|
||||
===> License MIT accepted by the user
|
||||
===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
|
||||
===> Fetching all distfiles required by gffread-0.12.7 for building
|
||||
=> SHA256 Checksum OK for gpertea-gffread-v0.12.7_GH0.tar.gz.
|
||||
=> SHA256 Checksum OK for gpertea-gclib-v0.12.7_GH0.tar.gz.
|
||||
===========================================================================
|
||||
=======================<phase: extract-depends>============================
|
||||
===========================================================================
|
||||
=======================<phase: extract >============================
|
||||
===> License MIT accepted by the user
|
||||
===> gffread-0.12.7 depends on file: /usr/local/sbin/pkg - found
|
||||
===> Fetching all distfiles required by gffread-0.12.7 for building
|
||||
===> Extracting for gffread-0.12.7
|
||||
=> SHA256 Checksum OK for gpertea-gffread-v0.12.7_GH0.tar.gz.
|
||||
=> SHA256 Checksum OK for gpertea-gclib-v0.12.7_GH0.tar.gz.
|
||||
===========================================================================
|
||||
=======================<phase: patch-depends >============================
|
||||
===========================================================================
|
||||
=======================<phase: patch >============================
|
||||
===> Patching for gffread-0.12.7
|
||||
===> Applying FreeBSD patches for gffread-0.12.7 from /usr/ports/wip/gffread/files
|
||||
===========================================================================
|
||||
=======================<phase: build-depends >============================
|
||||
===> gffread-0.12.7 depends on package: gmake>=4.3 - not found
|
||||
===> Installing existing package /packages/All/gmake-4.3_2.pkg
|
||||
[13-0-amd64-default] Installing gmake-4.3_2...
|
||||
[13-0-amd64-default] `-- Installing gettext-runtime-0.21...
|
||||
[13-0-amd64-default] | `-- Installing indexinfo-0.3.1...
|
||||
[13-0-amd64-default] | `-- Extracting indexinfo-0.3.1: .... done
|
||||
[13-0-amd64-default] `-- Extracting gettext-runtime-0.21: .......... done
|
||||
[13-0-amd64-default] Extracting gmake-4.3_2: .......... done
|
||||
===> gffread-0.12.7 depends on package: gmake>=4.3 - found
|
||||
===> Returning to build of gffread-0.12.7
|
||||
===========================================================================
|
||||
=======================<phase: lib-depends >============================
|
||||
===========================================================================
|
||||
=>> Recording filesystem state for prebuild... done
|
||||
=======================<phase: configure >============================
|
||||
===> gffread-0.12.7 depends on package: gmake>=4.3 - found
|
||||
===> Configuring for gffread-0.12.7
|
||||
===========================================================================
|
||||
=======================<phase: build >============================
|
||||
===> Building for gffread-0.12.7
|
||||
gmake[1]: Entering directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GBase.cpp -o gclib/GBase.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GArgs.cpp -o gclib/GArgs.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GFaSeqGet.cpp -o gclib/GFaSeqGet.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/gdna.cpp -o gclib/gdna.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/codons.cpp -o gclib/codons.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/gff.cpp -o gclib/gff.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GStr.cpp -o gclib/GStr.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gclib/GFastaIndex.cpp -o gclib/GFastaIndex.o
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gff_utils.cpp -o gff_utils.o
|
||||
gclib/gff.cpp:37:12: warning: unused variable 'CLASSCODE_J_RANK' [-Wunused-const-variable]
|
||||
const byte CLASSCODE_J_RANK = 6; // all junctional based overlaps
|
||||
^
|
||||
c++ -Wall -Wextra -std=c++11 -I. -Igclib -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -D_REENTRANT -fno-strict-aliasing -fno-exceptions -fno-rtti -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -c gffread.cpp -o gffread.o
|
||||
1 warning generated.
|
||||
c++ -fstack-protector-strong -o gffread gclib/GBase.o gclib/GArgs.o gclib/GFaSeqGet.o gclib/gdna.o gclib/codons.o gclib/gff.o gclib/GStr.o gclib/GFastaIndex.o gff_utils.o gffread.o
|
||||
gmake[1]: Leaving directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
|
||||
===========================================================================
|
||||
=>> Checking for filesystem violations... done
|
||||
=======================<phase: run-depends >============================
|
||||
===========================================================================
|
||||
=>> Recording filesystem state for prestage... done
|
||||
=======================<phase: stage >============================
|
||||
===> Staging for gffread-0.12.7
|
||||
===> Generating temporary packing list
|
||||
gmake[1]: Entering directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
|
||||
install -c gffread /wrkdirs/usr/ports/wip/gffread/work/stage/usr/local/bin
|
||||
strip /wrkdirs/usr/ports/wip/gffread/work/stage/usr/local/bin/gffread
|
||||
gmake[1]: Leaving directory '/wrkdirs/usr/ports/wip/gffread/work/gffread-0.12.7'
|
||||
====> Compressing man pages (compress-man)
|
||||
===========================================================================
|
||||
====> Running Q/A tests (stage-qa)
|
||||
====> Checking for pkg-plist issues (check-plist)
|
||||
===> Parsing plist
|
||||
===> Checking for items in STAGEDIR missing from pkg-plist
|
||||
===> Checking for items in pkg-plist which are not in STAGEDIR
|
||||
===> No pkg-plist issues found (check-plist)
|
||||
=>> Checking for staging violations... done
|
||||
=======================<phase: package >============================
|
||||
===> Building package for gffread-0.12.7
|
||||
install -l rs /tmp/pkgs/gffread-0.12.7.pkg /tmp/pkgs/gffread-0.12.7.txz
|
||||
===========================================================================
|
||||
=>> Recording filesystem state for preinst... done
|
||||
=======================<phase: install >============================
|
||||
===> Installing for gffread-0.12.7
|
||||
===> Checking if gffread is already installed
|
||||
===> Registering installation for gffread-0.12.7
|
||||
[13-0-amd64-default] Installing gffread-0.12.7...
|
||||
===========================================================================
|
||||
=>> Checking shared library dependencies
|
||||
0x0000000000000001 NEEDED Shared library: [libc++.so.1]
|
||||
0x0000000000000001 NEEDED Shared library: [libc.so.7]
|
||||
0x0000000000000001 NEEDED Shared library: [libcxxrt.so.1]
|
||||
0x0000000000000001 NEEDED Shared library: [libm.so.5]
|
||||
=======================<phase: deinstall >============================
|
||||
===> Deinstalling for gffread
|
||||
===> Deinstalling gffread-0.12.7
|
||||
Updating database digests format: ..... done
|
||||
Checking integrity... done (0 conflicting)
|
||||
Deinstallation has been requested for the following 1 packages (of 0 packages in the universe):
|
||||
|
||||
Installed packages to be REMOVED:
|
||||
gffread: 0.12.7
|
||||
|
||||
Number of packages to be removed: 1
|
||||
[13-0-amd64-default] [1/1] Deinstalling gffread-0.12.7...
|
||||
[13-0-amd64-default] [1/1] Deleting files for gffread-0.12.7: .... done
|
||||
===========================================================================
|
||||
=>> Checking for extra files and directories
|
||||
[00:00:25] Installing from package
|
||||
[13-0-amd64-default] Installing gffread-0.12.7...
|
||||
[13-0-amd64-default] Extracting gffread-0.12.7: .... done
|
||||
[00:00:25] Cleaning up
|
||||
===> Cleaning for gffread-0.12.7
|
||||
[00:00:25] Deinstalling package
|
||||
Updating database digests format: . done
|
||||
Checking integrity... done (0 conflicting)
|
||||
Deinstallation has been requested for the following 1 packages (of 0 packages in the universe):
|
||||
|
||||
Installed packages to be REMOVED:
|
||||
gffread: 0.12.7
|
||||
|
||||
Number of packages to be removed: 1
|
||||
[13-0-amd64-default] [1/1] Deinstalling gffread-0.12.7...
|
||||
[13-0-amd64-default] [1/1] Deleting files for gffread-0.12.7: .... done
|
||||
build of wip/gffread | gffread-0.12.7 ended at Wed Nov 10 14:44:34 CST 2021
|
||||
build time: 00:00:09
|
||||
Loading…
Reference in a new issue