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parallel: Give better error message if file not found when using --pipepart.

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This commit is contained in:
Ole Tange 2019-10-09 19:18:53 +02:00
parent eac8944b1d
commit 73f554ad8f
6 changed files with 108 additions and 109 deletions
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78
10seconds_install
View file

@ -23,18 +23,12 @@
# $ bash install.sh # $ bash install.sh
run() { run() {
# tail on openindiana must be /usr/xpg4/bin/tail
tail=$(echo | tail -n 1 2>/dev/null && echo tail ||
(echo | /usr/xpg4/bin/tail -n 1 && echo /usr/xpg4/bin/tail))
# grep on openindiana must be /usr/xpg4/bin/grep
grep=$(echo | grep -vE . 2>/dev/null && echo grep ||
(echo | /usr/xpg4/bin/grep -vE . && echo /usr/xpg4/bin/grep))
# FreeBSD prefers 'fetch', MacOS prefers 'curl', Linux prefers 'wget' # FreeBSD prefers 'fetch', MacOS prefers 'curl', Linux prefers 'wget'
get=$( get=$(
(lynx -source /dev/null && echo lynx -source) || (lynx -source /dev/null && echo lynx -source) ||
(fetch -o /dev/null file:///bin/sh && echo fetch -o -) || (fetch -o /dev/null file:///bin/sh && echo fetch -o -) ||
(curl -h >/dev/null && echo curl -L) || (curl -h >/dev/null && echo curl -L) ||
(wget -h >/dev/null && echo wget -qO -) || (wget -h >/dev/null && echo wget -qO -) ||
echo 'No lynx, wget, curl, fetch: Please inform parallel@gnu.org what you use for downloading URLs' >&2 echo 'No lynx, wget, curl, fetch: Please inform parallel@gnu.org what you use for downloading URLs' >&2
) )
if test "$get" = ""; then if test "$get" = ""; then
@ -42,17 +36,17 @@ run() {
fi fi
if ! perl -e 1; then if ! perl -e 1; then
echo No perl installed. GNU Parallel depends on perl. Install perl and retry. echo No perl installed. GNU Parallel depends on perl. Install perl and retry.
exit 1 exit 1
fi fi
LANG=C LANG=C
latest=$($get http://ftpmirror.gnu.org/parallel | latest=$($get http://ftpmirror.gnu.org/parallel |
perl -ne '/.*(parallel-\d{8})/ and print $1."\n"' | perl -ne '/.*(parallel-\d{8})/ and print $1."\n"' |
sort | $tail -n1) perl -e 'print ((reverse sort <>)[0])')
if test \! -e $latest.tar.bz2; then if test \! -e $latest.tar.bz2; then
# Source tar does not exist # Source tar does not exist
rm -f $latest.tar.bz2 $latest.tar.bz2.sig rm -f $latest.tar.bz2 $latest.tar.bz2.sig
$get http://ftpmirror.gnu.org/parallel/$latest.tar.bz2 > $latest.tar.bz2 $get http://ftpmirror.gnu.org/parallel/$latest.tar.bz2 > $latest.tar.bz2
$get http://ftpmirror.gnu.org/parallel/$latest.tar.bz2.sig > $latest.tar.bz2.sig $get http://ftpmirror.gnu.org/parallel/$latest.tar.bz2.sig > $latest.tar.bz2.sig
fi fi
@ -60,49 +54,49 @@ run() {
fetch_keys() { fetch_keys() {
if gpg -h 2>/dev/null >/dev/null ; then if gpg -h 2>/dev/null >/dev/null ; then
# GnuPG installed # GnuPG installed
# Setup .gnupg/gpg.conf if not already done # Setup .gnupg/gpg.conf if not already done
echo | gpg 2>/dev/null >/dev/null echo | gpg 2>/dev/null >/dev/null
keyserver1=keys.gnupg.net keyserver1=keys.gnupg.net
keyserver2=pool.sks-keyservers.net keyserver2=pool.sks-keyservers.net
if gpg --keyserver $keyserver1 --recv-key 0xFFFFFFF1 || if gpg --keyserver $keyserver1 --recv-key 0xFFFFFFF1 ||
gpg --keyserver $keyserver2 --recv-key 0xFFFFFFF1 ; then gpg --keyserver $keyserver2 --recv-key 0xFFFFFFF1 ; then
if gpg --keyserver $keyserver1 --recv-key 0x88888888 || if gpg --keyserver $keyserver1 --recv-key 0x88888888 ||
gpg --keyserver $keyserver2 --recv-key 0x88888888; then gpg --keyserver $keyserver2 --recv-key 0x88888888; then
# OK # OK
return 0 return 0
else else
echo echo
echo "Cannot fetch keyID 0x88888888, so the signature cannot be checked." echo "Cannot fetch keyID 0x88888888, so the signature cannot be checked."
return 1 return 1
fi fi
else else
echo echo
echo "Cannot fetch keyID 0xFFFFFFF1, so the signature cannot be checked." echo "Cannot fetch keyID 0xFFFFFFF1, so the signature cannot be checked."
return 1 return 1
fi fi
else else
# GnuPG not installed # GnuPG not installed
echo echo
echo "GnuPG (gpg) is not installed so the signature cannot be checked." echo "GnuPG (gpg) is not installed so the signature cannot be checked."
return 1 return 1
fi fi
} }
# Check signature - in case ftpmirror.gnu.org is compromised # Check signature - in case ftpmirror.gnu.org is compromised
if fetch_keys; then if fetch_keys; then
if gpg --with-fingerprint $latest.tar.bz2.sig 2>&1 | if gpg --with-fingerprint $latest.tar.bz2.sig 2>&1 |
$grep -E '^Primary key fingerprint: BE9C B493 81DE 3166 A3BC 66C1 2C62 29E2 FFFF FFF1|^Primary key fingerprint: CDA0 1A42 08C4 F745 0610 7E7B D1AB 4516 8888 8888' ; then perl -e 'exit not grep /^Primary key fingerprint: BE9C B493 81DE 3166 A3BC 66C1 2C62 29E2 FFFF FFF1|^Primary key fingerprint: CDA0 1A42 08C4 F745 0610 7E7B D1AB 4516 8888 8888/, <>'; then
# Source code signed by Ole Tange <ole@tange.dk> # Source code signed by Ole Tange <ole@tange.dk>
# KeyID FFFFFFF1/88888888 # KeyID FFFFFFF1/88888888
true true
else else
# GnuPG signature failed # GnuPG signature failed
echo echo
echo "The signature on $latest.tar.bz2 is wrong. This may indicate that a criminal has changed the code." echo "The signature on $latest.tar.bz2 is wrong. This may indicate that a criminal has changed the code."
echo "THIS IS BAD AND THE CODE WILL NOT BE INSTALLED." echo "THIS IS BAD AND THE CODE WILL NOT BE INSTALLED."
echo echo
echo "See http://git.savannah.gnu.org/cgit/parallel.git/tree/README for other installation methods." echo "See http://git.savannah.gnu.org/cgit/parallel.git/tree/README for other installation methods."
exit 1 exit 1
fi fi
else else
# GnuPG not installed or public keys not downloaded # GnuPG not installed or public keys not downloaded
@ -111,12 +105,12 @@ run() {
echo "Continue anyway? (y/n)" echo "Continue anyway? (y/n)"
read YN </dev/tty read YN </dev/tty
if test "$YN" = "n"; then if test "$YN" = "n"; then
# Stop # Stop
exit 2 exit 2
else else
# Continue # Continue
true true
fi fi
fi fi
bzip2 -dc $latest.tar.bz2 | tar xf - bzip2 -dc $latest.tar.bz2 | tar xf -
@ -126,35 +120,35 @@ run() {
echo GNU $latest installed globally echo GNU $latest installed globally
else else
if ./configure --prefix=$HOME && make && make install; then if ./configure --prefix=$HOME && make && make install; then
echo echo
echo GNU $latest installed in $HOME/bin echo GNU $latest installed in $HOME/bin
else else
mkdir -p $HOME/bin/; mkdir -p $HOME/bin/;
chmod 755 src/*; chmod 755 src/*;
cp src/parallel src/env_parallel* src/sem src/sql src/niceload src/parcat $HOME/bin; cp src/parallel src/env_parallel* src/sem src/sql src/niceload src/parcat $HOME/bin;
echo echo
echo GNU $latest copied to $HOME/bin echo GNU $latest copied to $HOME/bin
fi fi
# Is $HOME/bin already in $PATH? # Is $HOME/bin already in $PATH?
if echo $PATH | grep $HOME/bin >/dev/null; then if echo $PATH | grep $HOME/bin >/dev/null; then
# $HOME/bin is already in $PATH # $HOME/bin is already in $PATH
true true
else else
# Add $HOME/bin to $PATH for both bash and csh # Add $HOME/bin to $PATH for both bash and csh
echo 'PATH=$PATH:$HOME/bin' >> $HOME/.bashrc echo 'PATH=$PATH:$HOME/bin' >> $HOME/.bashrc
echo 'setenv PATH ${PATH}:${HOME}/bin' >> $HOME/.cshrc echo 'setenv PATH ${PATH}:${HOME}/bin' >> $HOME/.cshrc
fi fi
# Is $HOME/share/man already in $MANPATH? # Is $HOME/share/man already in $MANPATH?
if echo $MANPATH | grep $HOME/share/man >/dev/null; then if echo $MANPATH | grep $HOME/share/man >/dev/null; then
# $HOME/share/man is already in $MANPATH # $HOME/share/man is already in $MANPATH
true true
else else
# Add $HOME/share/man to $MANPATH for both bash and csh # Add $HOME/share/man to $MANPATH for both bash and csh
echo 'MANPATH=$MANPATH:$HOME/share/man' >> $HOME/.bashrc echo 'MANPATH=$MANPATH:$HOME/share/man' >> $HOME/.bashrc
echo 'setenv MANPATH ${MANPATH}:${HOME}/share/man' >> $HOME/.cshrc echo 'setenv MANPATH ${MANPATH}:${HOME}/share/man' >> $HOME/.cshrc
fi fi
fi fi
} }

8
NEWS
View file

@ -1,4 +1,4 @@
20190822 20190922
* --nice is now inherited by the nice level that GNU Parallel is * --nice is now inherited by the nice level that GNU Parallel is
started at. So 'nice -n10 parallel' will also cause remote jobs to started at. So 'nice -n10 parallel' will also cause remote jobs to
@ -9,9 +9,11 @@
* GNU Parallel will be presented at Driving IT 2019: * GNU Parallel will be presented at Driving IT 2019:
https://ida.dk/arrangementer-og-kurser/konferencer/driving-it/tools https://ida.dk/arrangementer-og-kurser/konferencer/driving-it/tools
* Greenland Ice Sheet solid ice discharge from 1986 through 2017 https://www.earth-syst-sci-data.net/11/769/2019/essd-11-769-2019.pdf * Greenland Ice Sheet solid ice discharge from 1986 through 2017
https://www.earth-syst-sci-data.net/11/769/2019/essd-11-769-2019.pdf
* App Center Cloud Build Machines > Installed Software > Utilities https://docs.microsoft.com/en-us/appcenter/build/software * App Center Cloud Build Machines > Installed Software > Utilities
https://docs.microsoft.com/en-us/appcenter/build/software
* Curryfinger - SNI & Host header spoofing utility * Curryfinger - SNI & Host header spoofing utility
https://dualuse.io/blog/curryfinger/ https://dualuse.io/blog/curryfinger/

10
doc/haikus
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@ -1,7 +1,10 @@
Quote of the month: Quote of the month:
IMHO, SQLite and GNU Parallel are among the world's great software. Well anyway, It was blazingly fast and astonished by performance. guess I'll never use xargs.
-- singe@reddit -- (Not) Akaming @_Akamig@twitter
GNU parallel has helped me kill a Hadoop cluster before.
-- Travis Campbell @hcoyote@twitter
Yeah, GNU parallel is a beast when used accordingly. Yeah, GNU parallel is a beast when used accordingly.
-- @lsde@twitter -- @lsde@twitter
@ -55,6 +58,9 @@ Quote of the month:
=== Used === === Used ===
IMHO, SQLite and GNU Parallel are among the world's great software.
-- singe@reddit
It is, beyond absolutely any doubt whatsoever, the single most It is, beyond absolutely any doubt whatsoever, the single most
important tool I use in making me a productive bioinformatician. important tool I use in making me a productive bioinformatician.
-- A-N-Other@reddit.com -- A-N-Other@reddit.com

30
doc/release_new_version
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@ -209,9 +209,9 @@ from:tange@gnu.org
to:parallel@gnu.org, bug-parallel@gnu.org to:parallel@gnu.org, bug-parallel@gnu.org
stable-bcc: Jesse Alama <jessealama@fastmail.fm> stable-bcc: Jesse Alama <jessealama@fastmail.fm>
Subject: GNU Parallel 20190822 ('Dorian/Stallman') released <<[stable]>> Subject: GNU Parallel 20191022 ('Driving IT') released <<[stable]>>
GNU Parallel 20190822 ('Dorian') <<[stable]>> has been released. It is available for download at: http://ftpmirror.gnu.org/parallel/ GNU Parallel 20191022 ('Driving IT') <<[stable]>> has been released. It is available for download at: http://ftpmirror.gnu.org/parallel/
<<No new functionality was introduced so this is a good candidate for a stable release.>> <<No new functionality was introduced so this is a good candidate for a stable release.>>
@ -225,32 +225,16 @@ Quote of the month:
New in this release: New in this release:
* --delay is now accurate to around 5 ms. Uses GNU Parallel https://github.com/pirovc/genome_updater
* --nice is now inherited by the nice level that GNU Parallel is started at. So 'nice -n10 parallel' will also cause remote jobs to be run at nice level 10. Using GNU-Parallel for bioinformatics https://www.danielecook.com/using-gnu-parallel-for-bioinformatics/
* GNU Parallel will be presented at Driving IT 2019: https://ida.dk/arrangementer-og-kurser/konferencer/driving-it/tools Speeding up PostgreSQL ETL pipeline with the help of GODS https://cfengine.com/company/blog-detail/speeding-up-postgresql-etl-pipeline-with-the-help-of-gods/
* Greenland Ice Sheet solid ice discharge from 1986 through 2017 https://www.earth-syst-sci-data.net/11/769/2019/essd-11-769-2019.pdf
* App Center Cloud Build Machines > Installed Software > Utilities https://docs.microsoft.com/en-us/appcenter/build/software https://readthedocs.org/projects/curc/downloads/pdf/latest/
https://dualuse.io/blog/curryfinger/ * 如何使用Parallel在Shell中并行执行命令https://www.myfreax.com/gnu-parallel/
https://wiki.cac.washington.edu/display/hyakusers/Hyak+parallel-sql
https://www.reddit.com/r/perl/comments/cyo2qc/a_meditation_on_analysing_data_with_perl_in/
https://www.eventbrite.ca/e/inscription-accelerer-ses-taches-avec-gnu-parallel-et-les-lots-de-taches-ul-71412840729
https://curc.readthedocs.io/en/latest/software/GNUParallel.html
https://petelawson.com/post/parallel-in-shell/
https://www.usenix.org/conference/lisa19/presentation/maheshwari
http://atomicer.cn/2018/01/18/gnu-parallel-nfs-%E5%AE%9E%E7%8E%B0%E5%85%B1%E4%BA%AB%E6%96%87%E4%BB%B6%E7%BD%91%E7%BB%9C%E7%9A%84%E5%B9%B6%E5%8F%91%E8%AE%A1%E7%AE%97%E7%AD%89%E6%93%8D%E4%BD%9C/#more
Gnu/parallel + Nfs 实现共享文件网络的并发计算等操作
* Bug fixes and man page updates. * Bug fixes and man page updates.

78
src/parallel
View file

@ -149,9 +149,12 @@ sub pipepart_setup() {
$size += -s $_; $size += -s $_;
} elsif(-b $_) { } elsif(-b $_) {
$size += size_of_block_dev($_); $size += size_of_block_dev($_);
} else { } elsif(-e $_) {
::error("$_ is neither a file nor a block device"); ::error("$_ is neither a file nor a block device");
wait_and_exit(255); wait_and_exit(255);
} else {
::error("File not found: $_");
wait_and_exit(255);
} }
} }
# Run in total $job_slots*(- $blocksize) jobs # Run in total $job_slots*(- $blocksize) jobs
@ -1528,6 +1531,7 @@ sub options_hash() {
"linkinputsource|xapplyinputsource=i" => \@opt::linkinputsource, "linkinputsource|xapplyinputsource=i" => \@opt::linkinputsource,
# Before changing this line, please read # Before changing this line, please read
# https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice # https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice
# https://git.savannah.gnu.org/cgit/parallel.git/tree/doc/citation-notice-faq.txt
"bibtex|citation" => \$opt::citation, "bibtex|citation" => \$opt::citation,
"wc|willcite|will-cite|nn|nonotice|no-notice" => \$opt::willcite, "wc|willcite|will-cite|nn|nonotice|no-notice" => \$opt::willcite,
# Termination and retries # Termination and retries
@ -1636,6 +1640,7 @@ sub parse_options(@) {
# Before changing this line, please read # Before changing this line, please read
# https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice # https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice
# https://git.savannah.gnu.org/cgit/parallel.git/tree/doc/citation-notice-faq.txt
if(defined $opt::citation) { if(defined $opt::citation) {
citation(\@argv_before,\@ARGV); citation(\@argv_before,\@ARGV);
wait_and_exit(0); wait_and_exit(0);
@ -1683,7 +1688,7 @@ sub parse_options(@) {
if(defined $opt::tmpdir) { $ENV{'TMPDIR'} = $opt::tmpdir; } if(defined $opt::tmpdir) { $ENV{'TMPDIR'} = $opt::tmpdir; }
$ENV{'PARALLEL_RSYNC_OPTS'} = $opt::rsync_opts || $ENV{'PARALLEL_RSYNC_OPTS'} = $opt::rsync_opts ||
$ENV{'PARALLEL_RSYNC_OPTS'} || '-rlDzR'; $ENV{'PARALLEL_RSYNC_OPTS'} || '-rlDzR';
# Default: Same nice level as GNU Parallel is started at # Default: Same nice level as GNU Parallel is started at
$opt::nice ||= eval { getpriority(0,0) } || 0; $opt::nice ||= eval { getpriority(0,0) } || 0;
if(defined $opt::help) { usage(); exit(0); } if(defined $opt::help) { usage(); exit(0); }
if(defined $opt::embed) { embed(); exit(0); } if(defined $opt::embed) { embed(); exit(0); }
@ -1937,11 +1942,14 @@ sub parse_options(@) {
# the alternatives instead? # the alternatives instead?
# See a list in: 'man parallel_alternatives' # See a list in: 'man parallel_alternatives'
# #
# If you want GNU Parallel to be maintained in the future you should not # If you want GNU Parallel to be maintained in the future keep
# change this line. # this line.
citation_notice(); citation_notice();
# Seriously: You will be harming free software by removing the notice. # Seriously: YOU will be harming free software by removing the
# You make it harder to justify spending time developing it. # notice. You make it harder to justify spending time developing
# it. If you *do* remove the line, please email
# hallofshame@tange.dk if you want to avoid being put in a hall of
# shame.
parse_halt(); parse_halt();
@ -2060,6 +2068,7 @@ sub init_globals() {
# Defaults: # Defaults:
$Global::version = 20190922; $Global::version = 20190922;
$Global::progname = 'parallel'; $Global::progname = 'parallel';
$::name = "GNU Parallel";
$Global::infinity = 2**31; $Global::infinity = 2**31;
$Global::debug = 0; $Global::debug = 0;
$Global::verbose = 0; $Global::verbose = 0;
@ -2274,7 +2283,7 @@ sub parse_replacement_string_options() {
sub parse_semaphore() { sub parse_semaphore() {
# Semaphore defaults # Semaphore defaults
# Must be done before computing number of processes and max_line_length # Must be done before computing number of processes and max_line_length
# because when running as a semaphore GNU Parallel does not read args # because when running as a semaphore GNU Parallel does not read args
# Uses: # Uses:
# $opt::semaphore # $opt::semaphore
# $Global::semaphore # $Global::semaphore
@ -3103,7 +3112,7 @@ sub __RUNNING_THE_JOBS_AND_PRINTING_PROGRESS__() {}
# $Global::total_started = total number of jobs started # $Global::total_started = total number of jobs started
# $Global::joblog = filehandle of joblog # $Global::joblog = filehandle of joblog
# $Global::debug = Is debugging on? # $Global::debug = Is debugging on?
# $Global::exitstatus = status code of GNU Parallel # $Global::exitstatus = status code of GNU Parallel
# $Global::quoting = quote the command to run # $Global::quoting = quote the command to run
sub init_run_jobs() { sub init_run_jobs() {
@ -3403,10 +3412,11 @@ sub drain_job_queue(@) {
my $sleep = 0.2; my $sleep = 0.2;
do { do {
while($Global::total_running > 0) { while($Global::total_running > 0) {
debug($Global::total_running, "==", scalar debug("init",$Global::total_running, "==", scalar
keys %Global::running," slots: ", $Global::max_jobs_running); keys %Global::running," slots: ", $Global::max_jobs_running);
if($opt::pipe) { if($opt::pipe) {
# When using --pipe sometimes file handles are not closed properly # When using --pipe sometimes file handles are not
# closed properly
for my $job (values %Global::running) { for my $job (values %Global::running) {
close $job->fh(0,"w"); close $job->fh(0,"w");
} }
@ -4011,7 +4021,7 @@ sub setup_basefile() {
} }
debug("init", "basesetup: @cmd\n"); debug("init", "basesetup: @cmd\n");
my ($exitstatus,$stdout_ref,$stderr_ref) = my ($exitstatus,$stdout_ref,$stderr_ref) =
run_parallel((join "\n",@cmd),"-j0","--retries",5); run_gnu_parallel((join "\n",@cmd),"-j0","--retries",5);
if($exitstatus) { if($exitstatus) {
my @stdout = @$stdout_ref; my @stdout = @$stdout_ref;
my @stderr = @$stderr_ref; my @stderr = @$stderr_ref;
@ -4041,7 +4051,7 @@ sub cleanup_basefile() {
} }
debug("init", "basecleanup: @cmd\n"); debug("init", "basecleanup: @cmd\n");
my ($exitstatus,$stdout_ref,$stderr_ref) = my ($exitstatus,$stdout_ref,$stderr_ref) =
run_parallel(join("\n",@cmd),"-j0","--retries",5); run_gnu_parallel(join("\n",@cmd),"-j0","--retries",5);
if($exitstatus) { if($exitstatus) {
my @stdout = @$stdout_ref; my @stdout = @$stdout_ref;
my @stderr = @$stderr_ref; my @stderr = @$stderr_ref;
@ -4050,22 +4060,22 @@ sub cleanup_basefile() {
} }
} }
sub run_parallel() { sub run_gnu_parallel() {
my ($stdin,@args) = @_; my ($stdin,@args) = @_;
my $cmd = join "",map { " $_ & " } split /\n/, $stdin; my $cmd = join "",map { " $_ & " } split /\n/, $stdin;
print $Global::original_stderr ` $cmd wait` ; print $Global::original_stderr ` $cmd wait` ;
return 0 return 0
} }
sub _run_parallel() { sub _run_gnu_parallel() {
# Run GNU Parallel # Run GNU Parallel
# This should ideally just fork an internal copy # This should ideally just fork an internal copy
# and not start it through a shell # and not start it through a shell
# Input: # Input:
# $stdin = data to provide on stdin for GNU Parallel # $stdin = data to provide on stdin for GNU Parallel
# @args = command line arguments # @args = command line arguments
# Returns: # Returns:
# $exitstatus = exitcode of GNU Parallel run # $exitstatus = exitcode of GNU Parallel run
# \@stdout = standard output # \@stdout = standard output
# \@stderr = standard error # \@stderr = standard error
my ($stdin,@args) = @_; my ($stdin,@args) = @_;
@ -4441,7 +4451,7 @@ sub onall($@) {
); );
::debug("init", "| $0 $options\n"); ::debug("init", "| $0 $options\n");
open(my $parallel_fh, "|-", "$0 -0 --will-cite -j0 $options") || open(my $parallel_fh, "|-", "$0 -0 --will-cite -j0 $options") ||
::die_bug("This does not run GNU Parallel: $0 $options"); ::die_bug("This does not run GNU Parallel: $0 $options");
my @joblogs; my @joblogs;
for my $host (sort keys %Global::host) { for my $host (sort keys %Global::host) {
my $sshlogin = $Global::host{$host}; my $sshlogin = $Global::host{$host};
@ -4505,14 +4515,14 @@ sub sigpipe() {
sub signal_children() { sub signal_children() {
# Send signal to all children process groups # Send signal to all children process groups
# and GNU Parallel itself # and GNU Parallel itself
# Uses: # Uses:
# %SIG # %SIG
# Returns: N/A # Returns: N/A
my $signal = shift; my $signal = shift;
debug("run", "Sending $signal "); debug("run", "Sending $signal ");
kill $signal, map { -$_ } keys %Global::running; kill $signal, map { -$_ } keys %Global::running;
# Use default signal handler for GNU Parallel itself # Use default signal handler for GNU Parallel itself
$SIG{$signal} = undef; $SIG{$signal} = undef;
kill $signal, $$; kill $signal, $$;
} }
@ -4793,6 +4803,7 @@ sub usage() {
"", "",
# Before changing this line, please read # Before changing this line, please read
# https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice # https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice
# https://git.savannah.gnu.org/cgit/parallel.git/tree/doc/citation-notice-faq.txt
"This helps funding further development; AND IT WON'T COST YOU A CENT.", "This helps funding further development; AND IT WON'T COST YOU A CENT.",
"If you pay 10000 EUR you should feel free to use GNU Parallel without citing.", "If you pay 10000 EUR you should feel free to use GNU Parallel without citing.",
"", "",
@ -4823,6 +4834,7 @@ sub citation_notice() {
"", "",
# Before changing this line, please read # Before changing this line, please read
# https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice # https://www.gnu.org/software/parallel/parallel_design.html#Citation-notice
# https://git.savannah.gnu.org/cgit/parallel.git/tree/doc/citation-notice-faq.txt
"This helps funding further development; AND IT WON'T COST YOU A CENT.", "This helps funding further development; AND IT WON'T COST YOU A CENT.",
"If you pay 10000 EUR you should feel free to use GNU Parallel without citing.", "If you pay 10000 EUR you should feel free to use GNU Parallel without citing.",
"", "",
@ -4833,7 +4845,7 @@ sub citation_notice() {
"" ""
); );
mkdir $Global::config_dir; mkdir $Global::config_dir;
# Number of times the user has run GNU Parallel without showing # Number of times the user has run GNU Parallel without showing
# willingness to cite # willingness to cite
my $runs = 0; my $runs = 0;
if(open (my $fh, "<", $Global::config_dir. if(open (my $fh, "<", $Global::config_dir.
@ -4986,7 +4998,7 @@ sub citation() {
"", "",
"If you use '--will-cite' in scripts to be run by others you are making", "If you use '--will-cite' in scripts to be run by others you are making",
"it harder for others to see the citation notice. The development of", "it harder for others to see the citation notice. The development of",
"GNU parallel is indirectly financed through citations, so if users", "GNU Parallel is indirectly financed through citations, so if users",
"do not know they should cite then you are making it harder to finance", "do not know they should cite then you are making it harder to finance",
"development. However, if you pay 10000 EUR, you should feel free to", "development. However, if you pay 10000 EUR, you should feel free to",
"use '--will-cite' in scripts.", "use '--will-cite' in scripts.",
@ -5008,7 +5020,7 @@ sub show_limits() {
} }
sub embed() { sub embed() {
# Give an embeddable version of GNU Parallel # Give an embeddable version of GNU Parallel
# Tested with: bash, zsh, ksh, ash, dash, sh # Tested with: bash, zsh, ksh, ash, dash, sh
my $randomstring = "cut-here-".join"", my $randomstring = "cut-here-".join"",
map { (0..9,"a".."z","A".."Z")[rand(62)] } (1..20); map { (0..9,"a".."z","A".."Z")[rand(62)] } (1..20);
@ -5053,9 +5065,9 @@ sub embed() {
"; ";
print q! print q!
# Embedded GNU Parallel created with --embed # Embedded GNU Parallel created with --embed
parallel() { parallel() {
# Start GNU Parallel without leaving temporary files # Start GNU Parallel without leaving temporary files
# #
# Not all shells support 'perl <(cat ...)' # Not all shells support 'perl <(cat ...)'
# This is a complex way of doing: # This is a complex way of doing:
@ -5066,7 +5078,7 @@ parallel() {
# [1]+ Done cat # [1]+ Done cat
# Make a temporary fifo that perl can read from # Make a temporary fifo that perl can read from
_fifo_with_parallel_source=`perl -e 'use POSIX qw(mkfifo); _fifo_with_GNU_Parallel_source=`perl -e 'use POSIX qw(mkfifo);
do { do {
$f = "/tmp/parallel-".join"", $f = "/tmp/parallel-".join"",
map { (0..9,"a".."z","A".."Z")[rand(62)] } (1..5); map { (0..9,"a".."z","A".."Z")[rand(62)] } (1..5);
@ -5075,9 +5087,9 @@ parallel() {
print $f;'` print $f;'`
# Put source code into temporary file # Put source code into temporary file
# so it is easy to copy to the fifo # so it is easy to copy to the fifo
_file_with_parallel_source=`mktemp`; _file_with_GNU_Parallel_source=`mktemp`;
!, !,
"cat <<'$randomstring' > \$_file_with_parallel_source\n", "cat <<'$randomstring' > \$_file_with_GNU_Parallel_source\n",
@source, @source,
$randomstring,"\n", $randomstring,"\n",
q! q!
@ -5085,10 +5097,10 @@ parallel() {
# and remove the file and fifo ASAP # and remove the file and fifo ASAP
# 'sh -c' is needed to avoid # 'sh -c' is needed to avoid
# [1]+ Done cat # [1]+ Done cat
sh -c "(rm $_file_with_parallel_source; cat >$_fifo_with_parallel_source; rm $_fifo_with_parallel_source) < $_file_with_parallel_source &" sh -c "(rm $_file_with_GNU_Parallel_source; cat >$_fifo_with_GNU_Parallel_source; rm $_fifo_with_GNU_Parallel_source) < $_file_with_GNU_Parallel_source &"
# Read the source from the fifo # Read the source from the fifo
perl $_fifo_with_parallel_source "$@" perl $_fifo_with_GNU_Parallel_source "$@"
} }
!, !,
@env_parallel_source, @env_parallel_source,
@ -6530,7 +6542,7 @@ sub loadavg($) {
# Recompute a new one in the background # Recompute a new one in the background
# The load average is computed as the number of processes waiting for disk # The load average is computed as the number of processes waiting for disk
# or CPU right now. So it is the server load this instant and not averaged over # or CPU right now. So it is the server load this instant and not averaged over
# several minutes. This is needed so GNU Parallel will at most start one job # several minutes. This is needed so GNU Parallel will at most start one job
# that will push the load over the limit. # that will push the load over the limit.
# #
# Returns: # Returns:
@ -8751,7 +8763,7 @@ sub base64_eval($) {
# Will be wrapped in ' so single quote is forbidden. # Will be wrapped in ' so single quote is forbidden.
# Spaces are stripped so spaces cannot be significant. # Spaces are stripped so spaces cannot be significant.
# The funny 'use IPC::Open3'-syntax is to avoid spaces and # The funny 'use IPC::Open3'-syntax is to avoid spaces and
# to make it clear that this is a GNU Parallel command # to make it clear that this is a GNU Parallel command
# when looking at the process table. # when looking at the process table.
# Returns: # Returns:
# $script = 1-liner for perl -e # $script = 1-liner for perl -e
@ -11420,7 +11432,7 @@ sub get($) {
my $ret = $self->{'arg_sub_queue'}->get(); my $ret = $self->{'arg_sub_queue'}->get();
if($ret) { if($ret) {
if(grep { index($_->orig(),"\0") > 0 } @$ret) { if(grep { index($_->orig(),"\0") > 0 } @$ret) {
# Allow for \0 in position 0 because GNU Parallel uses "\0noarg" # Allow for \0 in position 0 because GNU Parallel uses "\0noarg"
# to mean no-string # to mean no-string
::warning("A NUL character in the input was replaced with \\0.", ::warning("A NUL character in the input was replaced with \\0.",
"NUL cannot be passed through in the argument list.", "NUL cannot be passed through in the argument list.",

13
src/parallel.pod
View file

@ -1610,8 +1610,8 @@ so you are unlikely to ever use this option.
Setting B<--nice> will override this nice level. If the nice level is Setting B<--nice> will override this nice level. If the nice level is
smaller than the current nice level, it will only affect remote jobs smaller than the current nice level, it will only affect remote jobs
(e.g. current level is 10 and B<--nice 5> will cause local jobs to be (e.g. if current level is 10 then B<--nice 5> will cause local jobs to
run at level 10, but remote jobs run at nice level 5). be run at level 10, but remote jobs run at nice level 5).
=item B<--interactive> =item B<--interactive>
@ -2786,13 +2786,14 @@ Print the version GNU B<parallel> and exit.
=item B<--wd> I<mydir> =item B<--wd> I<mydir>
Jobs will be run in the dir I<mydir>.
Files transferred using B<--transferfile> and B<--return> will be Files transferred using B<--transferfile> and B<--return> will be
relative to I<mydir> on remote computers, and the command will be relative to I<mydir> on remote computers.
executed in the dir I<mydir>.
The special I<mydir> value B<...> will create working dirs under The special I<mydir> value B<...> will create working dirs under
B<~/.parallel/tmp/> on the remote computers. If B<--cleanup> is given B<~/.parallel/tmp/>. If B<--cleanup> is given these dirs will be
these dirs will be removed. removed.
The special I<mydir> value B<.> uses the current working dir. If the The special I<mydir> value B<.> uses the current working dir. If the
current working dir is beneath your home dir, the value B<.> is current working dir is beneath your home dir, the value B<.> is