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GNU Parallel Bug Reports GNU Parallel 20120222 ('Whitney') released

From: Ole Tange
Subject: GNU Parallel Bug Reports GNU Parallel 20120222 ('Whitney') released
Date: Wed, 22 Feb 2012 22:30:19 +0000

GNU Parallel 20120222 ('Whitney') has been released. It is available
for download at: http://ftp.gnu.org/gnu/parallel/

New in this release:

* --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?

* How to use GNU Parallel with samtools.

* How to use GNU Parallel for vacuuming PostgreSQL tables.

* Converting e-books with Calibre and GNU Parallel.

* Using GNU Parallel for tailing logfiles from multiple servers.

* Bug fixes and man page updates.

= About GNU Parallel =

GNU Parallel is a shell tool for executing jobs in parallel using one
or more computers. A job is can be a single command or a small script
that has to be run for each of the lines in the input. The typical
input is a list of files, a list of hosts, a list of users, a list of
URLs, or a list of tables. A job can also be a command that reads from
a pipe. GNU Parallel can then split the input and pipe it into
commands in parallel.

If you use xargs and tee today you will find GNU Parallel very easy to
use as GNU Parallel is written to have the same options as xargs. If
you write loops in shell, you will find GNU Parallel may be able to
replace most of the loops and make them run faster by running several
jobs in parallel. GNU Parallel can even replace nested loops.

GNU Parallel makes sure output from the commands is the same output as
you would get had you run the commands sequentially. This makes it
possible to use output from GNU Parallel as input for other programs.

You can find more about GNU Parallel at: http://www.gnu.org/s/parallel/

Watch the intro video on
http://www.youtube.com/playlist?list=PL284C9FF2488BC6D1 or at
http://tinyogg.com/watch/TORaR/ and http://tinyogg.com/watch/hfxKj/

When using GNU Parallel for a publication please cite:

O. Tange (2011): GNU Parallel - The Command-Line Power Tool, ;login:
The USENIX Magazine, February 2011:42-47.

= About GNU SQL =

GNU sql aims to give a simple, unified interface for accessing
databases through all the different databases' command line clients.
So far the focus has been on giving a common way to specify login
information (protocol, username, password, hostname, and port number),
size (database and table size), and running queries.

The database is addressed using a DBURL. If commands are left out you
will get that database's interactive shell.

When using GNU SQL for a publication please cite:

O. Tange (2011): GNU SQL - A Command Line Tool for Accessing Different
Databases Using DBURLs, ;login: The USENIX Magazine, April 2011:29-32.

= About GNU Niceload =

GNU niceload slows down a program when the computer load average (or
other system activity) is above a certain limit. When the limit is
reached the program will be suspended for some time. If the limit is a
soft limit the program will be allowed to run for short amounts of
time before being suspended again. If the limit is a hard limit the
program will only be allowed to run when the system is below the

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