Released as 20120220 alpha.

NEWS

@@ -1,3 +1,37 @@
+20120222
+
+* --workdir . will use the current working dir. If the current working
+  dir is beneath your home dir, the value . is treated as the relative
+  path to your home dir. This means that if your home dir is different
+  on remote computers (e.g. if your login is different) the relative
+  path will still be relative to your home dir.
+
+* A texinfo file is now generated from the POD file using pod2texi.
+
+* The bioinformatics article "Fast large-scale clustering of protein
+  structures using Gauss integrals" mentions GNU Parallel. They forgot
+  to add the reference. Please remember --bibtex if you use GNU
+  Parallel in an article.
+  http://bioinformatics.oxfordjournals.org/content/28/4/510.short
+
+* The first supporter received his merchandise. Did you order yours?
+  https://www.gnu.org/software/parallel/merchandise.html
+
+* How to use GNU Parallel with samtools.
+  http://zvfak.blogspot.com/2012/02/samtools-in-parallel.html
+
+* How to use GNU Parallel for vacuuming PostgreSQL tables.
+  http://blog.timmattison.com/archives/2012/01/24/mini-hack-parallel-vacuuming-in-postgresql/
+
+* Converting e-books with Calibre and GNU Parallel.
+  http://www.linkhal.de/blog/2012/01/converting-massive-e-book-collections-with-calibre-and-gnu-parrallel/
+
+* Using GNU Parallel for tailing logfiles from multiple servers.
+  http://silviud.blogspot.com/2012/02/shell-parallel-processing.html
+
+* Bug fixes and man page updates.
+
+
 20120122
 
 * --header : uses the first input line as column names and you can

configure

@@ -1,6 +1,6 @@
 #! /bin/sh
 # Guess values for system-dependent variables and create Makefiles.
-# Generated by GNU Autoconf 2.68 for parallel 20120124.
+# Generated by GNU Autoconf 2.68 for parallel 20120220.
 #
 # Report bugs to <bug-parallel@gnu.org>.
 #
@@ -559,8 +559,8 @@ MAKEFLAGS=
 # Identity of this package.
 PACKAGE_NAME='parallel'
 PACKAGE_TARNAME='parallel'
-PACKAGE_VERSION='20120124'
+PACKAGE_VERSION='20120220'
-PACKAGE_STRING='parallel 20120124'
+PACKAGE_STRING='parallel 20120220'
 PACKAGE_BUGREPORT='bug-parallel@gnu.org'
 PACKAGE_URL=''
 
@@ -1176,7 +1176,7 @@ if test "$ac_init_help" = "long"; then
   # 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.
   cat <<_ACEOF
-\`configure' configures parallel 20120124 to adapt to many kinds of systems.
+\`configure' configures parallel 20120220 to adapt to many kinds of systems.
 
 Usage: $0 [OPTION]... [VAR=VALUE]...
 
@@ -1242,7 +1242,7 @@ fi
 
 if test -n "$ac_init_help"; then
   case $ac_init_help in
-     short | recursive ) echo "Configuration of parallel 20120124:";;
+     short | recursive ) echo "Configuration of parallel 20120220:";;
    esac
   cat <<\_ACEOF
 
@@ -1309,7 +1309,7 @@ fi
 test -n "$ac_init_help" && exit $ac_status
 if $ac_init_version; then
   cat <<\_ACEOF
-parallel configure 20120124
+parallel configure 20120220
 generated by GNU Autoconf 2.68
 
 Copyright (C) 2010 Free Software Foundation, Inc.
@@ -1326,7 +1326,7 @@ cat >config.log <<_ACEOF
 This file contains any messages produced by compilers while
 running configure, to aid debugging if configure makes a mistake.
 
-It was created by parallel $as_me 20120124, which was
+It was created by parallel $as_me 20120220, which was
 generated by GNU Autoconf 2.68.  Invocation command line was
 
   $ $0 $@
@@ -2141,7 +2141,7 @@ fi
 
 # Define the identity of the package.
  PACKAGE='parallel'
- VERSION='20120124'
+ VERSION='20120220'
 
 
 cat >>confdefs.h <<_ACEOF
@@ -2704,7 +2704,7 @@ cat >>$CONFIG_STATUS <<\_ACEOF || ac_write_fail=1
 # report actual input values of CONFIG_FILES etc. instead of their
 # values after options handling.
 ac_log="
-This file was extended by parallel $as_me 20120124, which was
+This file was extended by parallel $as_me 20120220, which was
 generated by GNU Autoconf 2.68.  Invocation command line was
 
   CONFIG_FILES    = $CONFIG_FILES
@@ -2766,7 +2766,7 @@ _ACEOF
 cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
 ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
 ac_cs_version="\\
-parallel config.status 20120124
+parallel config.status 20120220
 configured by $0, generated by GNU Autoconf 2.68,
   with options \\"\$ac_cs_config\\"
 

configure.ac

@@ -1,4 +1,4 @@
-AC_INIT([parallel], [20120124], [bug-parallel@gnu.org])
+AC_INIT([parallel], [20120220], [bug-parallel@gnu.org])
 AM_INIT_AUTOMAKE([-Wall -Werror foreign])
 AC_CONFIG_HEADERS([config.h])
 AC_CONFIG_FILES([

doc/promo

@@ -41,8 +41,6 @@ surprising file names containing space, ', or " in the filename.
 xargs can give nasty surprises due to the separator problem
 http://pi.dk/5
 
-GNU Parallel http://nd.gd/0s may be better.
-
 @jaylyerly @stevenf xargs will bite you if file names contain
 space http://pi.dk/5. Use GNU Parallel instead: http://pi.dk/0
 

doc/release_new_version

@@ -193,12 +193,21 @@ New in this release:
   Parallel in an article.
   http://bioinformatics.oxfordjournals.org/content/28/4/510.short
 
-* First supporter received his merchandise. Did you order yours?
+* The first supporter received his merchandise. Did you order yours?
   https://www.gnu.org/software/parallel/merchandise.html
 
+* How to use GNU Parallel with samtools.
+  http://zvfak.blogspot.com/2012/02/samtools-in-parallel.html
+
 * How to use GNU Parallel for vacuuming PostgreSQL tables.
   http://blog.timmattison.com/archives/2012/01/24/mini-hack-parallel-vacuuming-in-postgresql/
 
+* Converting e-books with Calibre and GNU Parallel.
+  http://www.linkhal.de/blog/2012/01/converting-massive-e-book-collections-with-calibre-and-gnu-parrallel/
+
+* Using GNU Parallel for tailing logfiles from multiple servers.
+  http://silviud.blogspot.com/2012/02/shell-parallel-processing.html
+
 * Bug fixes and man page updates.
 
 

src/Makefile.am

@@ -38,16 +38,20 @@ niceload.html: niceload.pod Makefile sql.html
 	rm -f $(srcdir)/pod2htm*
 
 parallel.texi: parallel.pod
-	pod2texi --output=$(srcdir)/parallel.texi $(srcdir)/parallel.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/parallel.texi $(srcdir)/parallel.pod || true
 
 sem.texi: sem.pod
-	pod2texi --output=$(srcdir)/sem.texi $(srcdir)/sem.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/sem.texi $(srcdir)/sem.pod || true
 
 sql.texi: sql
-	pod2texi --output=$(srcdir)/sql.texi $(srcdir)/sql
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/sql.texi $(srcdir)/sql || true
 
 niceload.texi: niceload.pod
-	pod2texi --output=$(srcdir)/niceload.texi $(srcdir)/niceload.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/niceload.texi $(srcdir)/niceload.pod || true
 
 sem: parallel
 	ln -fs parallel sem

src/Makefile.in

@@ -483,16 +483,20 @@ niceload.html: niceload.pod Makefile sql.html
 	rm -f $(srcdir)/pod2htm*
 
 parallel.texi: parallel.pod
-	pod2texi --output=$(srcdir)/parallel.texi $(srcdir)/parallel.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/parallel.texi $(srcdir)/parallel.pod || true
 
 sem.texi: sem.pod
-	pod2texi --output=$(srcdir)/sem.texi $(srcdir)/sem.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/sem.texi $(srcdir)/sem.pod || true
 
 sql.texi: sql
-	pod2texi --output=$(srcdir)/sql.texi $(srcdir)/sql
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/sql.texi $(srcdir)/sql || true
 
 niceload.texi: niceload.pod
-	pod2texi --output=$(srcdir)/niceload.texi $(srcdir)/niceload.pod
+# If pod2texi is not installed: Forget about it
+	pod2texi --output=$(srcdir)/niceload.texi $(srcdir)/niceload.pod || true
 
 sem: parallel
 	ln -fs parallel sem

src/niceload

@@ -24,7 +24,7 @@
 use strict;
 use Getopt::Long;
 $Global::progname="niceload";
-$Global::version = 20120124;
+$Global::version = 20120220;
 Getopt::Long::Configure("bundling","require_order");
 get_options_from_array(\@ARGV) || die_usage();
 if($::opt_version) {

src/parallel

@@ -543,7 +543,7 @@ sub get_options_from_array {
 sub parse_options {
     # Returns: N/A
     # Defaults:
-    $Global::version = 20120215;
+    $Global::version = 20120220;
     $Global::progname = 'parallel';
     $Global::infinity = 2**31;
     $Global::debug = 0;

src/parallel.pod

@@ -500,7 +500,7 @@ status will be the exit status from the failing job.
 =back
 
 
-=item B<--header> I<regexp> (alpha  testing)
+=item B<--header> I<regexp> (beta  testing)
 
 Use upto regexp as header. For normal usage the matched header
 (typically the first line: B<--header '\n'>) will be split using
@@ -743,9 +743,9 @@ Instead of printing the output to stdout (standard output) the output
 of each job is saved in a file and the filename is then printed.
 
 
-=item B<--pipe> (beta testing)
+=item B<--pipe>
 
-=item B<--spreadstdin> (beta testing)
+=item B<--spreadstdin>
 
 Spread input to jobs on stdin (standard input). Read a block of data
 from stdin (standard input) and give one block of data as input to one
@@ -937,7 +937,7 @@ it to the command.
 Only used with B<--pipe>.
 
 
-=item B<--resume> (alpha testing)
+=item B<--resume> (beta testing)
 
 Resumes from the last unfinished job. By reading B<--joblog> GNU
 B<parallel> will figure out the last unfinished job and continue from
@@ -1114,9 +1114,9 @@ B<--sshlogin> is often used with B<--transfer>, B<--return>,
 B<--cleanup>, and B<--trc>.
 
 
-=item B<--sshloginfile> I<filename> (alpha testing)
+=item B<--sshloginfile> I<filename> (beta testing)
 
-=item B<--slf> I<filename> (alpha testing)
+=item B<--slf> I<filename> (beta testing)
 
 File with sshlogins. The file consists of sshlogins on separate
 lines. Empty lines and lines starting with '#' are ignored. Example:
@@ -1196,7 +1196,7 @@ different dir for the files. Setting B<--tmpdir> is equivalent to
 setting $TMPDIR.
 
 
-=item B<--timeout> I<sec> (beta testing)
+=item B<--timeout> I<sec>
 
 Time out for command. If the command runs for longer than I<sec>
 seconds it will get killed with SIGTERM, followed by SIGTERM 200 ms
@@ -1322,9 +1322,9 @@ Use B<-v> B<-v> to print the wrapping ssh command when running remotely.
 Print the version GNU B<parallel> and exit.
 
 
-=item B<--workdir> I<mydir>
+=item B<--workdir> I<mydir> (alpha testing)
 
-=item B<--wd> I<mydir>
+=item B<--wd> I<mydir> (alpha testing)
 
 Files transferred using B<--transfer> and B<--return> will be relative
 to I<mydir> on remote computers, and the command will be executed in

src/parallel.texi

@@ -531,8 +531,8 @@ status will be the exit status from the failing job.
 
 @end table
 
-@item @strong{--header} @emph{regexp} (alpha  testing)
+@item @strong{--header} @emph{regexp} (beta  testing)
-@anchor{@strong{--header} @emph{regexp} (alpha  testing)}
+@anchor{@strong{--header} @emph{regexp} (beta  testing)}
 
 Use upto regexp as header. For normal usage the matched header
 (typically the first line: @strong{--header '\n'}) will be split using
@@ -798,11 +798,11 @@ all the output from one server will be grouped together.
 Instead of printing the output to stdout (standard output) the output
 of each job is saved in a file and the filename is then printed.
 
-@item @strong{--pipe} (beta testing)
+@item @strong{--pipe}
-@anchor{@strong{--pipe} (beta testing)}
+@anchor{@strong{--pipe}}
 
-@item @strong{--spreadstdin} (beta testing)
+@item @strong{--spreadstdin}
-@anchor{@strong{--spreadstdin} (beta testing)}
+@anchor{@strong{--spreadstdin}}
 
 Spread input to jobs on stdin (standard input). Read a block of data
 from stdin (standard input) and give one block of data as input to one
@@ -1002,8 +1002,8 @@ it to the command.
 
 Only used with @strong{--pipe}.
 
-@item @strong{--resume} (alpha testing)
+@item @strong{--resume} (beta testing)
-@anchor{@strong{--resume} (alpha testing)}
+@anchor{@strong{--resume} (beta testing)}
 
 Resumes from the last unfinished job. By reading @strong{--joblog} GNU
 @strong{parallel} will figure out the last unfinished job and continue from
@@ -1190,11 +1190,11 @@ The remote host must have GNU @strong{parallel} installed.
 @strong{--sshlogin} is often used with @strong{--transfer}, @strong{--return},
 @strong{--cleanup}, and @strong{--trc}.
 
-@item @strong{--sshloginfile} @emph{filename} (alpha testing)
+@item @strong{--sshloginfile} @emph{filename} (beta testing)
-@anchor{@strong{--sshloginfile} @emph{filename} (alpha testing)}
+@anchor{@strong{--sshloginfile} @emph{filename} (beta testing)}
 
-@item @strong{--slf} @emph{filename} (alpha testing)
+@item @strong{--slf} @emph{filename} (beta testing)
-@anchor{@strong{--slf} @emph{filename} (alpha testing)}
+@anchor{@strong{--slf} @emph{filename} (beta testing)}
 
 File with sshlogins. The file consists of sshlogins on separate
 lines. Empty lines and lines starting with '#' are ignored. Example:
@@ -1275,8 +1275,8 @@ into temporary files in /tmp. By setting @strong{--tmpdir} you can use a
 different dir for the files. Setting @strong{--tmpdir} is equivalent to
 setting $TMPDIR.
 
-@item @strong{--timeout} @emph{sec} (beta testing)
+@item @strong{--timeout} @emph{sec}
-@anchor{@strong{--timeout} @emph{sec} (beta testing)}
+@anchor{@strong{--timeout} @emph{sec}}
 
 Time out for command. If the command runs for longer than @emph{sec}
 seconds it will get killed with SIGTERM, followed by SIGTERM 200 ms
@@ -1413,11 +1413,11 @@ Use @strong{-v} @strong{-v} to print the wrapping ssh command when running remot
 
 Print the version GNU @strong{parallel} and exit.
 
-@item @strong{--workdir} @emph{mydir}
+@item @strong{--workdir} @emph{mydir} (alpha testing)
-@anchor{@strong{--workdir} @emph{mydir}}
+@anchor{@strong{--workdir} @emph{mydir} (alpha testing)}
 
-@item @strong{--wd} @emph{mydir}
+@item @strong{--wd} @emph{mydir} (alpha testing)
-@anchor{@strong{--wd} @emph{mydir}}
+@anchor{@strong{--wd} @emph{mydir} (alpha testing)}
 
 Files transferred using @strong{--transfer} and @strong{--return} will be relative
 to @emph{mydir} on remote computers, and the command will be executed in

src/sql

@@ -556,7 +556,7 @@ $Global::Initfile && unlink $Global::Initfile;
 exit ($err);
 
 sub parse_options {
-    $Global::version = 20120124;
+    $Global::version = 20120220;
     $Global::progname = 'sql';
 
     # This must be done first as this may exec myself

testsuite/tests-to-run/niceload01.sh

@@ -49,7 +49,7 @@ niceload  -H -l 9.9 uptime | grep ':.[1-9][0-9].[0-9][0-9],' || echo OK
 niceload  --hard -l 9 uptime | grep ':.[1-9][0-9].[0-9][0-9],' || echo OK
 
 echo '### -f and --factor'
-niceload -H -f 0.1 -l6 echo f 0.1 first &
+niceload -H -f 0.01 -l6 echo f 0.1 first &
 niceload -H --factor 10 -l6 echo factor 10 last &
 wait
 

testsuite/tests-to-run/test30.sh

@@ -18,7 +18,7 @@ echo '### bug #34422: parallel -X --eta crashes with div by zero'
 seq 2 | stdout parallel -X --eta echo
 
 echo '### --timeout on remote machines'
-parallel -j0 --timeout 3 --onall -S localhost,parallel@parallel-server1 'sleep {}; echo slept {}' ::: 1 8 9 ; echo jobs failed: $?
+parallel -j0 --timeout 4 --onall -S localhost,parallel@parallel-server1 'sleep {}; echo slept {}' ::: 1 8 9 ; echo jobs failed: $?
 
 echo '### --pipe without command'
 seq -w 10 | stdout parallel --pipe

testsuite/tests-to-run/test51.sh

@@ -85,7 +85,7 @@ echo '### Test -N odd';
   seq 1 11 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 0.\$PARALLEL_SEQ"
 
 echo '### Test -N even+2'; 
-  seq 1 12 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 0.\$PARALLEL_SEQ"
+  seq 1 12 | parallel -j2 -k -N 2 --pipe cat";echo ole;sleep 1.\$PARALLEL_SEQ"
 
 echo '### Test --recstart + --recend'; 
   cat /tmp/blocktest | parallel --block 1m -k --recstart 44 --recend "44" -j10 --pipe sort -n |md5sum