mirror of
https://git.savannah.gnu.org/git/parallel.git
synced 2024-11-22 05:57:54 +00:00
-N for --pipe. Fixed race condition in --pipe.
Tests for --pipe. Passes testsuite.
This commit is contained in:
Ole Tange
parent
d5c7399d5b
commit
76d9e4f41b
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@ -1,6 +1,7 @@
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--block
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parallel: --joblog implemented. Testsuite missing.
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parallel: --spreadstdin prototype. Testsuite missing.
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-N for --pipe. Fixed race condition in --pipe.
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Tests for --pipe.
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Passes testsuite.
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codecoverage
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@ -47,6 +47,7 @@ pushd /tmp
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tar xjvf parallel-$YYYYMMDD.tar.bz2
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cd parallel-$YYYYMMDD
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./configure && make -j && sudo make -j install
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pushd
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== Upload ==
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@ -135,43 +136,50 @@ cc:Peter Simons <simons@cryp.to>, Sandro Cazzaniga <kharec@mandriva.org>,
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Rogério Brito <rbrito@ime.usp.br>, Jonathan Palardy <jonathan.palardy@gmail.com>,
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Koen Vervloesem <koen@vervloesem.eu>, R. Tyler Croy <tyler@monkeypox.org>,
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ryoichiro.suzuki@gmail.com,kerick@shiftedbit.net,
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Christian Faulhammer <fauli@gentoo.org>
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Christian Faulhammer <fauli@gentoo.org>, Ryoichiro Suzuki <ryoichiro.suzuki@gmail.com>
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Subject: GNU Parallel 20110122 released
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Subject: GNU Parallel 2011XXXX released
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GNU Parallel 20110122 has been released. It is available for
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GNU Parallel 2011XXXX has been released. It is available for
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download at: http://ftp.gnu.org/gnu/parallel/
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This is a major release as the --pipe option introduces a new way to
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work. To learn about --pipe see the example section for uses of
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--pipe.
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But rest assured: No old functionality is changed.
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New in this release:
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* --joblog makes a simple log of completed jobs.
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* --pipe splits piped data into blocks. Each block is piped to a
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program for processing. The piping and the programs will be run in
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parallel. Useful if the data you want to process is data for a
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program and not arguments.
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* -X now spreads arguments between job slots when reaching last
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argument. Use -j1 to avoid this.
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* --blocksize sets the blocksize in bytes for --pipe. The blocksize is
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approximate. It can deviate as much as the size of one record.
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Default is 1M.
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* People on the email list have voted -j+0 to be the new default
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instead of -j9.
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* --recstart sets the regular expression matching the start of a
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record. Default is "".
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* First review in Polish. Thanks to Patryk Krawaczyński.
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http://nfsec.pl/root/2458
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* --recend sets the regular expression matching the end of a
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record. Default is "\n". To specify none use --recend "".
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* Review in Spanish (in print).
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https://www.linux-magazine.es/issue/67/moreinfo.html
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If both --recstart and --recend are set, the end of a record must be
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followed immediately by a start of a record. This is useful if
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either recend or recstart can occur in the middle of a record.
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* Review in English. Thanks to Brian Gough.
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http://blogs.fsfe.org/bjg/2011/01/gnu-parallel-a-map-operator-for-the-command-line/
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* --output-as-files will put the output of the programs into files and
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instead of giving the output GNU Parallel will output the name of
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these files.
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* Review in French. Thanks to Denis Dordoigne.
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http://linuxfr.org/2010/12/29/27715.html
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* -N set the number of records to read. If used with --blocksize
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the block read will at most be --blocksize. -N is much slower
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than --blocksize so avoid -N if performance is important.
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* Review in Spanish.
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http://gufete.net/index.php?entry=entry110116-200022
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* Article with advanced recursive example. Thanks to Ruarí Ødegaard
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http://my.opera.com/ruario/blog/2011/01/18/fun-with-gnu-parallel
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* Use case for memcache.
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http://www.dctrwatson.com/2010/12/how-to-dump-memcache-keyvalue-pairs-fast/
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* Advanced recursive example. Thanks to Ruarí Ødegaard.
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http://my.opera.com/ruario/blog/2011/01/24/editing-debian-packages-more-fun-with-gnu
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* Bug fixes and man page updates.
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@ -1,4 +1,4 @@
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make
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Edit parallel.spec
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Edit home\:tange/parallel/parallel.spec
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Then go to https://build.opensuse.org/package/files?package=parallel&project=home%3Atange
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and add all the files
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140
src/parallel
140
src/parallel
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@ -60,11 +60,13 @@ if($Global::semaphore) {
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}
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$SIG{TERM} = \&start_no_new_jobs;
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start_more_jobs();
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if($::opt_spreadstdin) {
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if($::opt_pipe) {
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spreadstdin();
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}
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reap_if_needed();
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::debug("Start draining\n");
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drain_job_queue();
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::debug("Done draining\n");
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cleanup();
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if($Global::semaphore) {
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$sem->release();
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@ -92,38 +94,85 @@ sub spreadstdin {
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# If both --recstart and --recend is given then both must match
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$recstart = $::opt_recstart;
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$recend = $::opt_recend;
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$recerror = "Warning: --recend and --recstart unmatched";
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$recerror = "Warning: --recend and --recstart unmatched. Is --blocksize too small?";
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} elsif(defined($::opt_recstart)) {
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# If --recstart is given it must match start of record
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$recstart = $::opt_recstart;
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$recend = "";
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$recerror = "Warning: --recstart unmatched";
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$recerror = "Warning: --recstart unmatched. Is --blocksize too small?";
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} elsif(defined($::opt_recend)) {
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# If --recend is given then it must match end of record
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$recstart = "";
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$recend = $::opt_recend;
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$recerror = "Warning: --recend unmatched";
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$recerror = "Warning: --recend unmatched. Is --blocksize too small?";
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}
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while(read(STDIN,$buf,$::opt_blocksize)) {
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$record = $partial.$buf;
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if(eof STDIN) {
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# There is no partial record at the end of file
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$partial = "";
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if($Global::max_number_of_args) {
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# -N => (start..*?end){n}
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while($record =~ s/(($recstart.*?$recend){$Global::max_number_of_args})($recstart.*)$/$1/os) {
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$partial = $3;
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::debug("Read record: ".length($record)."\n");
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write_record_to_pipe($record);
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$record = $partial;
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}
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if(eof STDIN) {
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# There is no partial record at the end of file
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write_record_to_pipe($record);
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}
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} else {
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if($record =~ s/(.*$recend)($recstart.*?)$/$1/os) {
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$partial = $2;
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} else {
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print $Global::original_stderr $recerror,"\n";
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}
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::debug("Read record: ".length($record)."\n");
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write_record_to_pipe($record);
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if(eof STDIN) {
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# There is no partial record at the end of file
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write_record_to_pipe($partial);
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}
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}
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::debug("Read record: ".length($record)."\n");
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my $reap_needed = 0;
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write_record: while(defined $record) {
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}
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::debug("Done reading STDIN\n");
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flush_and_close_pipes();
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::debug("Done flushing to children\n");
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$Global::start_no_new_jobs = 1;
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}
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sub flush_and_close_pipes {
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my $flush_done;
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my $sleep = 0.1;
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do {
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$flush_done = 1;
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# Make sure everything is written to the jobs
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do_not_reap();
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for my $job (values %Global::running) {
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if($job->remaining()) {
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$job->complete_write();
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$flush_done = 0;
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}
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}
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reap_if_needed();
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usleep($sleep);
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$sleep *= 1.1; # exponential back off
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} while (not $flush_done);
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do_not_reap();
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for my $job (values %Global::running) {
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my $fh = $job->stdin();
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close $fh;
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}
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reap_if_needed();
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}
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sub write_record_to_pipe {
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my $record = shift;
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my $sleep = 0.1; # 0.1 ms
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write_record: while(1) {
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# Sorting according to sequence is necessary for -k to work
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do_not_reap(); # If Global::running is changed the for loop has a race condition
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for my $job (sort { $a->seq() <=> $b->seq() } values %Global::running) {
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::debug("Looking at ",$job," ");
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::debug("Looking at ",$job->seq(),"-",$job->remaining(),"-",$job->datawritten(),"\n");
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if($job->remaining()) {
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# Part of the job's last record has not finished being written
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@ -132,53 +181,23 @@ sub spreadstdin {
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if($job->datawritten() > 0) {
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# There is no data remaining and we have written data before:
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# So this means we have completed writing a block.
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# close stdin
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# close stdin
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# This will cause the job to finish and when it dies we will spawn another job
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my $fh = $job->stdin();
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close $fh;
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$reap_needed = 1;
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} else {
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$job->write($record);
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$record = undef;
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$first++;
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$sleep=1;
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$sleep = 0.1;
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last write_record;
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}
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}
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}
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reap_if_needed();
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# Rotate jobs to spread the input
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# @jobs = ($jobs[$#jobs],@jobs[0..$#jobs-1]);
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usleep($sleep);
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$sleep *= 1.1; # exponential back off
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$max_sleep = max($max_sleep, $sleep);
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$second++;
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}
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if($reap_needed) {
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# One of more jobs finished in last round
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reap_if_needed();
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}
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}
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my $flush_done;
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do {
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$flush_done = 1;
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# Make sure everything is written to the jobs
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for my $job (values %Global::running) {
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if($job->remaining()) {
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$job->complete_write();
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$flush_done = 0;
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}
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}
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usleep($sleep);
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$sleep *= 1.1; # exponential back off
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} while (not $flush_done);
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for my $job (values %Global::running) {
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my $fh = $job->stdin();
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close $fh;
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}
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$Global::start_no_new_jobs = 1;
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::debug("Blocks send directly: $first Delays: $second Max sleep ms: $max_sleep\n");
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reap_if_needed();
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return;
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}
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sub acquire_semaphore {
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@ -237,7 +256,7 @@ sub get_options_from_array {
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"quote|q" => \$::opt_q,
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"I=s" => \$::opt_I,
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"extensionreplace|U=s" => \$::opt_U,
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"basenamereplace=s" => \$::opt_basenamereplace,
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"basenamereplace|bnr=s" => \$::opt_basenamereplace,
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"basenameextensionreplace=s" => \$::opt_basenameextensionreplace,
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"jobs|j=s" => \$::opt_P,
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"load=s" => \$::opt_load,
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@ -267,7 +286,7 @@ sub get_options_from_array {
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"arg-file-sep|argfilesep=s" => \$::opt_arg_file_sep,
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"trim=s" => \$::opt_trim,
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"profile|J=s" => \$::opt_profile,
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"pipe|spreadstdin" => \$::opt_spreadstdin,
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"pipe|spreadstdin" => \$::opt_pipe,
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"recstart=s" => \$::opt_recstart,
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"recend=s" => \$::opt_recend,
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"files|output-as-files|outputasfiles" => \$::opt_files,
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|
|
@ -381,7 +400,7 @@ sub parse_options {
|
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if(defined @::opt_sshlogin) { @Global::sshlogin = @::opt_sshlogin; }
|
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if(defined $::opt_sshloginfile) { read_sshloginfile($::opt_sshloginfile); }
|
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if(defined @::opt_return) { push @Global::ret_files, @::opt_return; }
|
||||
if(not defined $::opt_recstart and
|
||||
if(not defined $::opt_recstart and
|
||||
not defined $::opt_recend) { $::opt_recend = "\n"; }
|
||||
if(not defined $::opt_blocksize) { $::opt_blocksize = "1M"; }
|
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$::opt_blocksize = multiply_binary_prefix($::opt_blocksize);
|
||||
|
|
@ -809,8 +828,17 @@ sub drain_job_queue {
|
|||
my $last_header="";
|
||||
do {
|
||||
while($Global::total_running > 0) {
|
||||
debug("jobs running: ",$Global::total_running," Memory usage:".my_memory_usage()."\n");
|
||||
debug("jobs running: ",$Global::total_running," ",scalar keys %Global::running, " Memory usage:".my_memory_usage()."\n");
|
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sleep 1;
|
||||
if($::opt_pipe) {
|
||||
# When using --pipe sometimes file handles are not closed properly
|
||||
do_not_reap();
|
||||
for my $job (values %Global::running) {
|
||||
my $fh = $job->stdin();
|
||||
close $fh;
|
||||
}
|
||||
reap_if_needed();
|
||||
}
|
||||
reaper(); # Some systems fail to catch the SIGCHLD
|
||||
if($::opt_progress) {
|
||||
my %progress = progress();
|
||||
|
|
@ -1038,7 +1066,7 @@ sub start_more_jobs {
|
|||
next;
|
||||
}
|
||||
while ($sshlogin->jobs_running() < $sshlogin->max_jobs_running()) {
|
||||
if($Global::JobQueue->empty() and not $::opt_spreadstdin) {
|
||||
if($Global::JobQueue->empty() and not $::opt_pipe) {
|
||||
last;
|
||||
}
|
||||
debug("Try starting a job on ".$sshlogin->string()."\n");
|
||||
|
|
@ -1067,7 +1095,7 @@ sub start_another_job {
|
|||
my $sshlogin = shift;
|
||||
# Do we have enough file handles to start another job?
|
||||
if(enough_file_handles()) {
|
||||
if($Global::JobQueue->empty() and not $::opt_spreadstdin) {
|
||||
if($Global::JobQueue->empty() and not $::opt_pipe) {
|
||||
# No more commands to run
|
||||
return 0;
|
||||
} else {
|
||||
|
|
@ -1390,7 +1418,6 @@ sub wait_and_exit {
|
|||
waitpid($_,0);
|
||||
delete $Global::unkilled_children{$_};
|
||||
}
|
||||
|
||||
wait();
|
||||
exit(shift);
|
||||
}
|
||||
|
|
@ -1484,6 +1511,9 @@ sub my_size {
|
|||
}
|
||||
}
|
||||
|
||||
# Guvf vf n grfg gb frr vs bguref ner ernqvat zl pbqr. Cyrnfr rznvy
|
||||
# pbbxvr@gnatr.qx jura lbh ernq guvf
|
||||
|
||||
sub my_dump {
|
||||
# Returns:
|
||||
# ascii expression of object if Data::Dump(er) is installed
|
||||
|
|
@ -2808,7 +2838,7 @@ sub start {
|
|||
$ENV{'PARALLEL_SEQ'} = $job->seq();
|
||||
$ENV{'PARALLEL_PID'} = $$;
|
||||
::debug("$Global::total_running processes. Starting (".$job->seq()."): $command\n");
|
||||
if($::opt_spreadstdin) {
|
||||
if($::opt_pipe) {
|
||||
my ($in);
|
||||
$pid = ::open3($in, ">&OUT", ">&ERR", $command) ||
|
||||
die("open3 (with spreadstdin) failed. Report a bug to <bug-parallel\@gnu.org>\n");
|
||||
|
|
@ -3001,7 +3031,7 @@ sub populate {
|
|||
# Add arguments from arg_queue until the number of arguments or
|
||||
# max line length is reached
|
||||
my $self = shift;
|
||||
if($::opt_spreadstdin) {
|
||||
if($::opt_pipe) {
|
||||
# Do no read any args
|
||||
$self->push([Arg->new("")]);
|
||||
return;
|
||||
|
|
@ -3413,7 +3443,7 @@ sub get {
|
|||
);
|
||||
$cmd_line->populate();
|
||||
::debug("cmd_line->number_of_args ".$cmd_line->number_of_args()."\n");
|
||||
if(not $::opt_spreadstdin and $cmd_line->number_of_args() == 0) {
|
||||
if(not $::opt_pipe and $cmd_line->number_of_args() == 0) {
|
||||
# We did not get more args - maybe at EOF string?
|
||||
return undef;
|
||||
} else {
|
||||
|
|
|
|||
|
|
@ -222,7 +222,9 @@ Multiple B<-B> can be specified to transfer more basefiles. The
|
|||
I<file> will be transferred the same way as B<--transfer>.
|
||||
|
||||
|
||||
=item B<--basenamereplace> I<replace-str> (beta testing)
|
||||
=item B<--basenamereplace> I<replace-str>
|
||||
|
||||
=item B<--bnr> I<replace-str>
|
||||
|
||||
Use the replacement string I<replace-str> instead of B<{/}> for basename of input line.
|
||||
|
||||
|
|
@ -334,7 +336,7 @@ If I<eof-str> is omitted, there is no end of file string. If neither
|
|||
B<-E> nor B<-e> is used, no end of file string is used.
|
||||
|
||||
|
||||
=item B<--eta>
|
||||
=item B<--eta> (alpha testing)
|
||||
|
||||
Show the estimated number of seconds before finishing. This forces GNU
|
||||
B<parallel> to read all jobs before starting to find the number of
|
||||
|
|
@ -630,7 +632,11 @@ This will set the owner of the homedir to the user:
|
|||
|
||||
B<tr ':' '\012' < /etc/passwd | parallel -N7 chown {1} {6}>
|
||||
|
||||
Implies B<-X> unless B<-m> is set.
|
||||
Implies B<-X> unless B<-m> or <--pipe> is set.
|
||||
|
||||
When used with B<--pipe> B<-N> is the number of records to read. This
|
||||
is much slower than B<--blocksize> so avoid it if performance is
|
||||
important.
|
||||
|
||||
|
||||
=item B<--max-line-length-allowed>
|
||||
|
|
@ -709,12 +715,13 @@ If B<--recend> is given I<endregexp> will be used to split at record end.
|
|||
|
||||
If both B<--recstart> and B<--recend> are given the regular expression
|
||||
I<startregexp>I<endregexp> will have to match to find a split
|
||||
position.
|
||||
position. This is useful if either I<startregexp> or I<endregexp>
|
||||
match in the middle of a record.
|
||||
|
||||
If neither B<--recstart> nor B<--recend> are given B<--recend>
|
||||
If neither B<--recstart> nor B<--recend> are given then B<--recend>
|
||||
defaults to '\n'. To have no record separator use B<--recend "">.
|
||||
|
||||
B<--recstart> and B<--recend> used with B<--pipe>.
|
||||
B<--recstart> and B<--recend> are used with B<--pipe>.
|
||||
|
||||
|
||||
=item B<--retries> I<n> (beta testing)
|
||||
|
|
|
|||
|
|
@ -1,7 +1,7 @@
|
|||
#!/bin/bash
|
||||
|
||||
echo '### Test --spreadstdin - more procs than args'
|
||||
rm /tmp/parallel.ss.*
|
||||
rm -f /tmp/parallel.ss.*
|
||||
seq 1 5 | stdout parallel -j 10 --spreadstdin 'cat >/tmp/parallel.ss.$PARALLEL_SEQ' >/dev/null
|
||||
cat /tmp/parallel.ss.*
|
||||
|
||||
|
|
|
|||
41
testsuite/tests-to-run/test51.sh
Normal file
41
testsuite/tests-to-run/test51.sh
Normal file
|
|
@ -0,0 +1,41 @@
|
|||
#!/bin/bash
|
||||
|
||||
echo '### Test --pipe'
|
||||
# Make some pseudo random input that stays the same
|
||||
seq 1 1000000 >/tmp/parallel-seq
|
||||
shuf --random-source=/tmp/parallel-seq /tmp/parallel-seq >/tmp/blocktest
|
||||
|
||||
echo '### Test -N even'
|
||||
seq 1 10 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 0.1"
|
||||
|
||||
echo '### Test -N odd'
|
||||
seq 1 11 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 0.1"
|
||||
|
||||
echo '### Test -N even+2'
|
||||
seq 1 12 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 0.1"
|
||||
|
||||
echo '### Test --recstart + --recend'
|
||||
cat /tmp/blocktest | parallel -k --recstart 44 --recend "44" -j10 --pipe sort -n |md5sum
|
||||
|
||||
echo '### Race condition bug - 1 - would block'
|
||||
seq 1 80 | nice parallel -j0 'seq 1 10| parallel --block 1 --recend "" --pipe cat;true' >/dev/null
|
||||
|
||||
echo '### Race condition bug - 2 - would block'
|
||||
seq 1 100 | nice parallel -j100 --block 1 --recend "" --pipe cat >/dev/null
|
||||
|
||||
echo '### Test --block size=1'
|
||||
seq 1 10| parallel --block 1 --files --recend "" --pipe sort -n | parallel -Xj1 sort -nm {} ";"rm {}
|
||||
|
||||
echo '### Test --block size=1M -j10 --files - more jobs than data'
|
||||
sort -n < /tmp/blocktest | md5sum
|
||||
cat /tmp/blocktest | parallel --files --recend "\n" -j10 --pipe sort -n | parallel -Xj1 sort -nm {} ";"rm {} | md5sum
|
||||
|
||||
echo '### Test --block size=1M -j1 - more data than cpu'
|
||||
cat /tmp/blocktest | parallel --files --recend "\n" -j1 --pipe sort -n | parallel -Xj1 sort -nm {} ";"rm {} | md5sum
|
||||
|
||||
echo '### Test --block size=1M -j1 - more data than cpu'
|
||||
cat /tmp/blocktest | parallel --files --recend "\n" -j2 --pipe sort -n | parallel -Xj1 sort -nm {} ";"rm {} | md5sum
|
||||
|
||||
echo '### Test --pipe default settings'
|
||||
cat /tmp/blocktest | parallel --pipe sort | sort -n | md5sum
|
||||
|
||||
92
testsuite/wanted-results/test51
Normal file
92
testsuite/wanted-results/test51
Normal file
|
|
@ -0,0 +1,92 @@
|
|||
### Test --pipe
|
||||
### Test -N even
|
||||
1
|
||||
2
|
||||
ole
|
||||
3
|
||||
4
|
||||
ole
|
||||
5
|
||||
6
|
||||
ole
|
||||
7
|
||||
8
|
||||
ole
|
||||
9
|
||||
10
|
||||
ole
|
||||
ole
|
||||
### Test -N odd
|
||||
1
|
||||
2
|
||||
ole
|
||||
3
|
||||
4
|
||||
ole
|
||||
5
|
||||
6
|
||||
ole
|
||||
7
|
||||
8
|
||||
ole
|
||||
9
|
||||
10
|
||||
ole
|
||||
11
|
||||
ole
|
||||
### Test -N even+2
|
||||
1
|
||||
2
|
||||
ole
|
||||
3
|
||||
4
|
||||
ole
|
||||
5
|
||||
6
|
||||
ole
|
||||
7
|
||||
8
|
||||
ole
|
||||
9
|
||||
10
|
||||
ole
|
||||
11
|
||||
12
|
||||
ole
|
||||
ole
|
||||
ole
|
||||
### Test --recstart + --recend
|
||||
0d53a19cdc880668a7c745794dcafbf1 -
|
||||
### Race condition bug - 1 - would block
|
||||
### Race condition bug - 2 - would block
|
||||
### Test --block size=1
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
0
|
||||
1
|
||||
1
|
||||
2
|
||||
3
|
||||
4
|
||||
5
|
||||
6
|
||||
7
|
||||
8
|
||||
9
|
||||
### Test --block size=1M -j10 --files - more jobs than data
|
||||
8a7095c1c23bfadc311fe6b16d950582 -
|
||||
8a7095c1c23bfadc311fe6b16d950582 -
|
||||
### Test --block size=1M -j1 - more data than cpu
|
||||
8a7095c1c23bfadc311fe6b16d950582 -
|
||||
### Test --block size=1M -j1 - more data than cpu
|
||||
8a7095c1c23bfadc311fe6b16d950582 -
|
||||
### Test --pipe default settings
|
||||
8a7095c1c23bfadc311fe6b16d950582 -
|
||||
Loading…
Reference in a new issue