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Released as 20171222 ('Jerusalem')

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This commit is contained in:
Ole Tange 2017-12-23 00:58:02 +01:00
parent da545d53ff
commit d9bac1136f
12 changed files with 68 additions and 38 deletions
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22
NEWS
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@ -1,3 +1,25 @@
20171222
* env_parset for ash, dash, ksh, sh, zsh
* Automatically create hostgroups if argument ends in @sshlogin
* Tips for running jobs on your VM
https://support.ehelp.edu.au/support/solutions/articles/6000089713-tips-for-running-jobs-on-your-vm#parallel
* Node-local scheduling
https://mogonwiki.zdv.uni-mainz.de/dokuwiki/node_local_scheduling
* GNU Parallel https://docs.computecanada.ca/wiki/GNU_Parallel
* GNU Parallel のエラー処理 https://qiita.com/inouet/items/bfc208668c86caf8ff74
* Using GNU Parallel
https://wiki.ncsa.illinois.edu/display/ROGER/Using+GNU+Parallel
* Bug fixes and man page updates.
20171122 20171122
* Using GNU Parallel to speed up Google Cloud Infrastructure * Using GNU Parallel to speed up Google Cloud Infrastructure

12
README
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@ -44,9 +44,9 @@ document.
Full installation of GNU Parallel is as simple as: Full installation of GNU Parallel is as simple as:
wget http://ftpmirror.gnu.org/parallel/parallel-20171122.tar.bz2 wget http://ftpmirror.gnu.org/parallel/parallel-20171222.tar.bz2
bzip2 -dc parallel-20171122.tar.bz2 | tar xvf - bzip2 -dc parallel-20171222.tar.bz2 | tar xvf -
cd parallel-20171122 cd parallel-20171222
./configure && make && sudo make install ./configure && make && sudo make install
@ -55,9 +55,9 @@ Full installation of GNU Parallel is as simple as:
If you are not root you can add ~/bin to your path and install in If you are not root you can add ~/bin to your path and install in
~/bin and ~/share: ~/bin and ~/share:
wget http://ftpmirror.gnu.org/parallel/parallel-20171122.tar.bz2 wget http://ftpmirror.gnu.org/parallel/parallel-20171222.tar.bz2
bzip2 -dc parallel-20171122.tar.bz2 | tar xvf - bzip2 -dc parallel-20171222.tar.bz2 | tar xvf -
cd parallel-20171122 cd parallel-20171222
./configure --prefix=$HOME && make && make install ./configure --prefix=$HOME && make && make install
Or if your system lacks 'make' you can simply copy src/parallel Or if your system lacks 'make' you can simply copy src/parallel

20
configure vendored
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@ -1,6 +1,6 @@
#! /bin/sh #! /bin/sh
# Guess values for system-dependent variables and create Makefiles. # Guess values for system-dependent variables and create Makefiles.
# Generated by GNU Autoconf 2.69 for parallel 20171122. # Generated by GNU Autoconf 2.69 for parallel 20171222.
# #
# Report bugs to <bug-parallel@gnu.org>. # Report bugs to <bug-parallel@gnu.org>.
# #
@ -579,8 +579,8 @@ MAKEFLAGS=
# Identity of this package. # Identity of this package.
PACKAGE_NAME='parallel' PACKAGE_NAME='parallel'
PACKAGE_TARNAME='parallel' PACKAGE_TARNAME='parallel'
PACKAGE_VERSION='20171122' PACKAGE_VERSION='20171222'
PACKAGE_STRING='parallel 20171122' PACKAGE_STRING='parallel 20171222'
PACKAGE_BUGREPORT='bug-parallel@gnu.org' PACKAGE_BUGREPORT='bug-parallel@gnu.org'
PACKAGE_URL='' PACKAGE_URL=''
@ -1214,7 +1214,7 @@ if test "$ac_init_help" = "long"; then
# Omit some internal or obsolete options to make the list less imposing. # Omit some internal or obsolete options to make the list less imposing.
# This message is too long to be a string in the A/UX 3.1 sh. # This message is too long to be a string in the A/UX 3.1 sh.
cat <<_ACEOF cat <<_ACEOF
\`configure' configures parallel 20171122 to adapt to many kinds of systems. \`configure' configures parallel 20171222 to adapt to many kinds of systems.
Usage: $0 [OPTION]... [VAR=VALUE]... Usage: $0 [OPTION]... [VAR=VALUE]...
@ -1281,7 +1281,7 @@ fi
if test -n "$ac_init_help"; then if test -n "$ac_init_help"; then
case $ac_init_help in case $ac_init_help in
short | recursive ) echo "Configuration of parallel 20171122:";; short | recursive ) echo "Configuration of parallel 20171222:";;
esac esac
cat <<\_ACEOF cat <<\_ACEOF
@ -1357,7 +1357,7 @@ fi
test -n "$ac_init_help" && exit $ac_status test -n "$ac_init_help" && exit $ac_status
if $ac_init_version; then if $ac_init_version; then
cat <<\_ACEOF cat <<\_ACEOF
parallel configure 20171122 parallel configure 20171222
generated by GNU Autoconf 2.69 generated by GNU Autoconf 2.69
Copyright (C) 2012 Free Software Foundation, Inc. Copyright (C) 2012 Free Software Foundation, Inc.
@ -1374,7 +1374,7 @@ cat >config.log <<_ACEOF
This file contains any messages produced by compilers while This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake. running configure, to aid debugging if configure makes a mistake.
It was created by parallel $as_me 20171122, which was It was created by parallel $as_me 20171222, which was
generated by GNU Autoconf 2.69. Invocation command line was generated by GNU Autoconf 2.69. Invocation command line was
$ $0 $@ $ $0 $@
@ -2237,7 +2237,7 @@ fi
# Define the identity of the package. # Define the identity of the package.
PACKAGE='parallel' PACKAGE='parallel'
VERSION='20171122' VERSION='20171222'
cat >>confdefs.h <<_ACEOF cat >>confdefs.h <<_ACEOF
@ -2880,7 +2880,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
# report actual input values of CONFIG_FILES etc. instead of their # report actual input values of CONFIG_FILES etc. instead of their
# values after options handling. # values after options handling.
ac_log=" ac_log="
This file was extended by parallel $as_me 20171122, which was This file was extended by parallel $as_me 20171222, which was
generated by GNU Autoconf 2.69. Invocation command line was generated by GNU Autoconf 2.69. Invocation command line was
CONFIG_FILES = $CONFIG_FILES CONFIG_FILES = $CONFIG_FILES
@ -2942,7 +2942,7 @@ _ACEOF
cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1 cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`" ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
ac_cs_version="\\ ac_cs_version="\\
parallel config.status 20171122 parallel config.status 20171222
configured by $0, generated by GNU Autoconf 2.69, configured by $0, generated by GNU Autoconf 2.69,
with options \\"\$ac_cs_config\\" with options \\"\$ac_cs_config\\"

2
configure.ac
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@ -1,4 +1,4 @@
AC_INIT([parallel], [20171122], [bug-parallel@gnu.org]) AC_INIT([parallel], [20171222], [bug-parallel@gnu.org])
AM_INIT_AUTOMAKE([-Wall -Werror foreign]) AM_INIT_AUTOMAKE([-Wall -Werror foreign])
AC_CONFIG_HEADERS([config.h]) AC_CONFIG_HEADERS([config.h])
AC_CONFIG_FILES([ AC_CONFIG_FILES([

22
doc/release_new_version
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@ -210,15 +210,19 @@ Haiku of the month:
New in this release: New in this release:
parset for ksh, zsh, * env_parset for ash, dash, ksh, sh, zsh
auto hostgroups with arg@sshlogin
https://support.ehelp.edu.au/support/solutions/articles/6000089713-tips-for-running-jobs-on-your-vm#parallel * Automatically create hostgroups if argument ends in @sshlogin
https://mogonwiki.zdv.uni-mainz.de/dokuwiki/node_local_scheduling
https://docs.computecanada.ca/wiki/GNU_Parallel * Tips for running jobs on your VM https://support.ehelp.edu.au/support/solutions/articles/6000089713-tips-for-running-jobs-on-your-vm#parallel
https://qiita.com/inouet/items/bfc208668c86caf8ff74
https://wiki.ncsa.illinois.edu/display/ROGER/Using+GNU+Parallel * Node-local scheduling https://mogonwiki.zdv.uni-mainz.de/dokuwiki/node_local_scheduling
https://github.com/LangilleLab/microbiome_helper/wiki/Quick-Introduction-to-GNU-Parallel
https://docs.computecanada.ca/wiki/GNU_Parallel * GNU Parallel https://docs.computecanada.ca/wiki/GNU_Parallel
* GNU Parallel のエラー処理 https://qiita.com/inouet/items/bfc208668c86caf8ff74
* Using GNU Parallel https://wiki.ncsa.illinois.edu/display/ROGER/Using+GNU+Parallel
<<Citation not OK: BAMClipper: removing primers from alignments to minimize false-negative mutations in amplicon next-generation sequencing https://www.nature.com/articles/s41598-017-01703-6>> <<Citation not OK: BAMClipper: removing primers from alignments to minimize false-negative mutations in amplicon next-generation sequencing https://www.nature.com/articles/s41598-017-01703-6>>

10
packager/obs/home:tange/parallel/.osc/_files
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@ -1,6 +1,6 @@
<directory name="parallel" rev="213" srcmd5="b33d40e54bb515002e8212b825522d4f" vrev="2"> <directory name="parallel" rev="214" srcmd5="2516655d54c763928fd9f97014e11540" vrev="1">
<entry md5="5f316869853f6f4f86f954cc88f13dc4" mtime="1511389325" name="parallel-20171122.tar.bz2" size="1662066" /> <entry md5="8b44ef3f5aac2302f976cb58cf61fe87" mtime="1513986752" name="parallel-20171222.tar.bz2" size="1690096" />
<entry md5="531182fb80891963b07376e7aa2c89ce" mtime="1511389325" name="parallel.spec" size="4693" /> <entry md5="5f4277facf3f4777b0cea688027954a3" mtime="1513986752" name="parallel.spec" size="4693" />
<entry md5="bb935911fac43c4d07eaf3e5fc9d9dc9" mtime="1511389326" name="parallel_20171122.dsc" size="556" /> <entry md5="ca877325712ba2d1f5906548427de534" mtime="1513986752" name="parallel_20171222.dsc" size="556" />
<entry md5="f6e6b1707658e3040e881c073d8f5557" mtime="1511389326" name="parallel_20171122.tar.gz" size="1868461" /> <entry md5="21420e5e8a3c415584438286cb2cdcaf" mtime="1513986753" name="parallel_20171222.tar.gz" size="1894418" />
</directory> </directory>

8
packager/obs/home:tange/parallel/.osc/_meta
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@ -36,15 +36,19 @@ GNU niceload slows down a program when the computer load average (or other syste
<person userid="tange" role="bugowner"/> <person userid="tange" role="bugowner"/>
<person userid="tange" role="maintainer"/> <person userid="tange" role="maintainer"/>
<build> <build>
<enable repository="CentOS_CentOS-5"/>
<enable repository="Debian_5.0"/> <enable repository="Debian_5.0"/>
<enable repository="Debian_Etch"/> <enable repository="Debian_Etch"/>
<enable repository="Fedora_12"/> <enable repository="Fedora_12"/>
<enable/>
<disable arch="ppc64"/> <disable arch="ppc64"/>
<disable arch="ppc" repository="CentOS_CentOS-5"/> <disable arch="ppc" repository="CentOS_CentOS-5"/>
<disable arch="ppc64" repository="Debian_5.0"/> <disable arch="ppc64" repository="Debian_5.0"/>
<disable arch="ppc" repository="images"/> <disable arch="ppc" repository="images"/>
<disable arch="ppc64" repository="CentOS_CentOS-5"/>
<disable arch="ppc" repository="RedHat_RHEL-5"/>
<disable arch="ppc" repository="SLE_10_SDK"/>
<disable arch="ppc" repository="SLE_11"/>
<disable arch="ppc" repository="SLE_11_SP1"/>
<disable arch="ppc" repository="openSUSE_Factory"/>
</build> </build>
<debuginfo> <debuginfo>
<disable/> <disable/>

2
packager/obs/home:tange/parallel/.osc/parallel.spec
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@ -1,6 +1,6 @@
Summary: Shell tool for executing jobs in parallel Summary: Shell tool for executing jobs in parallel
Name: parallel Name: parallel
Version: 20171122 Version: 20171222
Release: 1.2 Release: 1.2
License: GPL License: GPL
Group: Productivity/File utilities Group: Productivity/File utilities

2
packager/obs/home:tange/parallel/parallel.spec
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@ -1,6 +1,6 @@
Summary: Shell tool for executing jobs in parallel Summary: Shell tool for executing jobs in parallel
Name: parallel Name: parallel
Version: 20171122 Version: 20171222
Release: 1.2 Release: 1.2
License: GPL License: GPL
Group: Productivity/File utilities Group: Productivity/File utilities

2
src/niceload
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@ -24,7 +24,7 @@
use strict; use strict;
use Getopt::Long; use Getopt::Long;
$Global::progname="niceload"; $Global::progname="niceload";
$Global::version = 20171123; $Global::version = 20171222;
Getopt::Long::Configure("bundling","require_order"); Getopt::Long::Configure("bundling","require_order");
get_options_from_array(\@ARGV) || die_usage(); get_options_from_array(\@ARGV) || die_usage();
if($opt::version) { if($opt::version) {

2
src/parallel
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@ -1387,7 +1387,7 @@ sub check_invalid_option_combinations {
sub init_globals { sub init_globals {
# Defaults: # Defaults:
$Global::version = 20171123; $Global::version = 20171222;
$Global::progname = 'parallel'; $Global::progname = 'parallel';
$Global::infinity = 2**31; $Global::infinity = 2**31;
$Global::debug = 0; $Global::debug = 0;

2
src/sql
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@ -576,7 +576,7 @@ $Global::Initfile && unlink $Global::Initfile;
exit ($err); exit ($err);
sub parse_options { sub parse_options {
$Global::version = 20171123; $Global::version = 20171222;
$Global::progname = 'sql'; $Global::progname = 'sql';
# This must be done first as this may exec myself # This must be done first as this may exec myself