Resurrect biology/linux-foldingathome
Special thanks to netchild for inspiring bringing back this piece software to ports! Reviewed by: netchild, pi, salvadore Differential Revision: https://reviews.freebsd.org/D24127
This commit is contained in:
Mateusz Piotrowski
parent
53f1ebfc00
commit
28f362fae3
Notes:
svn2git
2021-03-31 03:12:20 +00:00
svn path=/head/; revision=528886
2
GIDs
2
GIDs
@ -186,7 +186,7 @@ prosody:*:242:
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ot-recorder:*:243:
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mastodon:*:244:
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routinator:*:245:
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# free: 246
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fahclient:*:246:fahclient
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fcron:*:247:
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# free: 248
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# free: 249
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1
LEGAL
1
LEGAL
@ -77,6 +77,7 @@ etqw* games/linux-etqw-demo-server Redistribution limited
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etqw* games/linux-etqw-server Redistribution limited
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ezmlm-* mail/ezmlm No license -- see http://cr.yp.to/softwarelaw.html
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ezmlm-* mail/ezmlm-idx No license -- see http://cr.yp.to/softwarelaw.html
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fahclient-* biology/linux-foldingathome Distribution without permission is prohibited
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fasta2* biology/fasta May not be sold or incorporated into a commercial product
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fasta3* biology/fasta3 May not be sold or incorporated into a commercial product
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festival/festlex_OALD* audio/festlex-oald No commercial use
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1
MOVED
1
MOVED
@ -13089,7 +13089,6 @@ audio/wmsmixer||2019-10-16|Has expired: Unfetchable, unmaintained
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audio/xmms2-scrobbler||2019-10-16|Has expired: Unfetchable, unmaintained
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benchmarks/filebench||2019-10-16|Has expired: Unfetchable, unmaintained
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biology/chemeq||2019-10-16|Has expired: Unfetchable, unmaintained
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biology/linux-foldingathome||2019-10-16|Has expired: Unfetchable, unmaintained
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cad/dxf2fig||2019-10-16|Has expired: Unfetchable, unmaintained
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comms/gsmlib||2019-10-16|Has expired: Unfetchable, unmaintained
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comms/nokryptia||2019-10-16|Has expired: Unfetchable, unmaintained
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2
UIDs
2
UIDs
@ -191,7 +191,7 @@ prosody:*:242:242::0:0:Prosody Jabber Server:/nonexistent:/usr/sbin/nologin
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ot-recorder:*:243:243::0:0:OwnTracks Recorder:/nonexistent:/usr/sbin/nologin
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mastodon:*:244:244::0:0:Mastodon User:/usr/local/www/mastodon:/bin/sh
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routinator:*:245:245::0:0:Routinator 3000 Pseudo User:/nonexistent:/usr/sbin/nologin
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# free: 246
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fahclient:*:246:246::0:0:Folding@home User:/nonexistent:/usr/sbin/nologin
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fcron:*:247:247::0:0:fcron pseudo-user:/nonexistent:/usr/sbin/nologin
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# free: 248
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# free: 249
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@ -68,6 +68,7 @@
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SUBDIR += libbigwig
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SUBDIR += libgtextutils
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SUBDIR += libsbml
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SUBDIR += linux-foldingathome
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SUBDIR += mafft
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SUBDIR += mapm3
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SUBDIR += migrate
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66
biology/linux-foldingathome/Makefile
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66
biology/linux-foldingathome/Makefile
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# Created by: Yonatan <onatan@gmail.com>
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# $FreeBSD$
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PORTNAME= foldingathome
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DISTVERSION= 7.5.1-1
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CATEGORIES= biology linux
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MASTER_SITES= https://download.foldingathome.org/releases/public/release/fahclient/centos-6.7-64bit/v${DISTVERSION:R}/
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PKGNAMEPREFIX= linux-
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DISTNAME= fahclient-${DISTVERSION}
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EXTRACT_SUFX= .x86_64.rpm
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MAINTAINER= 0mp@FreeBSD.org
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COMMENT= Folding@home Client
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LICENSE= FAHSL
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LICENSE_NAME= Folding@home Software License
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LICENSE_FILE= ${WRKSRC}/usr/share/doc/fahclient/copyright
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LICENSE_PERMS= no-dist-mirror no-dist-sell no-pkg-mirror no-pkg-sell \
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auto-accept
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LEGAL_TEXT= Distribution without permission is prohibited
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ONLY_FOR_ARCHS= amd64
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ONLY_FOR_ARCHS_REASON= The i386 client has not been ported
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USES= dos2unix linux
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DOS2UNIX_FILES= usr/share/doc/fahclient/*
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USE_RC_SUBR= fahclient
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ETCDIR= ${PREFIX}/etc/fahclient
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DOCSDIR= ${PREFIX}/share/doc/fahclient
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NO_BUILD= yes
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SUB_FILES= pkg-message
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SUB_LIST= FAHCLIENT_CONFIG_XML=${_FAHCLIENT_CONFIG_XML} \
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FAHCLIENT_PROGRAM=${_FAHCLIENT_PROGRAM} \
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FAHCLIENT_WORK_DIR=${_FAHCLIENT_WORK_DIR}
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NO_WRKSUBDIR= yes
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USERS= fahclient
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GROUPS= fahclient
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PLIST_SUB= FAHCLIENT_WORK_DIR=${_FAHCLIENT_WORK_DIR}
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PORTDOCS= CHANGELOG.md README.md
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OPTIONS_DEFINE= DOCS
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_FAHCLIENT_CONFIG_XML= ${ETCDIR}/config.xml
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_FAHCLIENT_WORK_DIR= /var/db/fahclient
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_FAHCLIENT_PROGRAM= ${PREFIX}/bin/FAHClient
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do-install:
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${INSTALL_PROGRAM} ${WRKSRC}/usr/bin/FAHClient ${STAGEDIR}${PREFIX}/bin/
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${INSTALL_PROGRAM} ${WRKSRC}/usr/bin/FAHCoreWrapper ${STAGEDIR}${PREFIX}/bin/
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@${MKDIR} ${STAGEDIR}${ETCDIR}
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${INSTALL_DATA} ${WRKSRC}/usr/share/doc/fahclient/sample-config.xml \
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${STAGEDIR}${_FAHCLIENT_CONFIG_XML}.sample
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@${MKDIR} ${STAGEDIR}${_FAHCLIENT_WORK_DIR}
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post-install-DOCS-on:
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@${MKDIR} ${STAGEDIR}${DOCSDIR}
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${INSTALL_MAN} ${PORTDOCS:S|^|${WRKSRC}/usr/share/doc/fahclient/|} \
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${STAGEDIR}${DOCSDIR}
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.include <bsd.port.mk>
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3
biology/linux-foldingathome/distinfo
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3
biology/linux-foldingathome/distinfo
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TIMESTAMP = 1584818074
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SHA256 (fahclient-7.5.1-1.x86_64.rpm) = da579fa02df66fc6fb48dc2bc81c4b6f46fe4f6696afe20d70b9bd5e5941837f
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SIZE (fahclient-7.5.1-1.x86_64.rpm) = 3025708
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66
biology/linux-foldingathome/files/fahclient.in
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66
biology/linux-foldingathome/files/fahclient.in
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#! /bin/sh -
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#
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# $FreeBSD$
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#
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# SPDX-License-Identifier: BSD-2-Clause
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#
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# Copyright (c) 2020 Mateusz Piotrowski <0mp@FreeBSD.org>
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#
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# Redistribution and use in source and binary forms, with or without
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# modification, are permitted provided that the following conditions are met:
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#
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# 1. Redistributions of source code must retain the above copyright notice,
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# this list of conditions and the following disclaimer.
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# 2. Redistributions in binary form must reproduce the above copyright
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# notice, this list of conditions and the following disclaimer in the
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# documentation and/or other materials provided with the distribution.
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#
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# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
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# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
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# ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
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# LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
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# CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
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# SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
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# INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
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# CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
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# ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
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# POSSIBILITY OF SUCH DAMAGE.
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# PROVIDE: fahclient
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# REQUIRE: DAEMON LOGIN NETWORKING linux
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. /etc/rc.subr
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name='fahclient'
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rcvar='fahclient_enable'
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load_rc_config 'fahclient'
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# Default settings.
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: "${fahclient_enable:=NO}"
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: "${fahclient_user:=fahclient}"
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: "${fahclient_chdir:=%%FAHCLIENT_WORK_DIR%%}"
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: "${fahclient_pidfile:=%%FAHCLIENT_WORK_DIR%%/fahclient.pid}"
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: "${fahclient_config:=%%ETCDIR%%/config.xml}"
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: "${fahclient_logfile:=%%FAHCLIENT_WORK_DIR%%/log.txt}"
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pidfile="${fahclient_pidfile}"
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command='%%FAHCLIENT_PROGRAM%%'
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# Some notes on the specified options:
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# - --config is necessary to point the program to the correct configuration
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# file.
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# - --chdir is used to switch to a desired work directory. The program is going
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# to create a lot of files in its current working directory so should not be
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# just any directory on the system.
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# - --pid-file specifies the location for the PID file.
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# - --daemon is to detach the program from the terminal and run it
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# in the background.
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command_args="--config ${fahclient_config} --chdir ${fahclient_chdir}"
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command_args="${command_args} --pid-file ${pidfile} --daemon"
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extra_commands="log"
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log_cmd="tail -F -- ${fahclient_logfile}"
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required_modules='linprocfs linsysfs linuxcommon'
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run_rc_command "$1"
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56
biology/linux-foldingathome/files/pkg-message.in
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56
biology/linux-foldingathome/files/pkg-message.in
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[
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{ type: install
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message: <<EOM
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Quick start
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===========
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Here is a list of steps to quickly get started with Folding@home on FreeBSD:
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1. Mount linprocfs(5) in /compat/linux/proc.
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2. Mount linsysfs(5) in /compat/linux/sys.
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3. Enable the fahclient service:
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sysrc fahclient_enable="YES"
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4. Start the service:
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service fahclient start
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At this point, the daemon should be up and folding.
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Additional notes
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================
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- The current status of folding can be inspected by running
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the following command:
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service fahclient log
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- The default working directory for fahclient is %%FAHCLIENT_WORK_DIR%%.
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In order to function properly, fahclient requires its working directory
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to be on a partition/dataset with execute permissions on. For example
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if /var/db is on a ZFS dataset with exec=off, then %%FAHCLIENT_WORK_DIR%%
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needs to have exec=on.
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Note, that usually the permissions are on unless the system
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configuration was modified by the administrator.
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- The ID of the FreeBSD team is 11743. In order to join
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the team add the following line to %%FAHCLIENT_CONFIG_XML%%:
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<team value="11743"/>
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The service has to be restarted to pick up the change.
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Statistics for the FreeBSD team can be viewed here:
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https://apps.foldingathome.org/teamstats/team11743.html
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- More information about configuring and running the Folding@home
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software is available on those websites:
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- https://foldingforum.org/
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- https://foldingathome.org/support/faq/
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EOM
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}
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]
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17
biology/linux-foldingathome/pkg-descr
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17
biology/linux-foldingathome/pkg-descr
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Folding@home is a distributed computing project -- people from throughout
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the world download and run software to band together to make one of the
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largest supercomputers in the world. Every computer takes the project
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closer to our goals.
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Folding@home uses novel computational methods coupled to distributed
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computing, to simulate problems millions of times more challenging than
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previously achieved.
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Protein folding is linked to disease, such as Alzheimer's, ALS,
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Huntington's, Parkinson's disease, and many Cancers. Moreover, when
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proteins do not fold correctly (i.e. "misfold"), there can be serious
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consequences, including many well known diseases, such as Alzheimer's,
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Mad Cow (BSE), CJD, ALS, Huntington's, Parkinson's disease, and many
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cancers and cancer-related syndromes.
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WWW: http://folding.stanford.edu/
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5
biology/linux-foldingathome/pkg-plist
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5
biology/linux-foldingathome/pkg-plist
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bin/FAHClient
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bin/FAHCoreWrapper
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@dir(fahclient,fahclient,) %%ETCDIR%%
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@sample(fahclient,fahclient,) %%ETCDIR%%/config.xml.sample
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@dir(fahclient,fahclient,) %%FAHCLIENT_WORK_DIR%%
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