GNU Parallel 20131222 ('玉兔 Mandela') released

[Ole Tange]

GNU Parallel 20131222 ('玉兔 Mandela') has been released. It is
available for download at: http://ftp.gnu.org/gnu/parallel/

New in this release:

* GNU Parallel now has a motto: For people who live life in the parallel lane.

* Detection whether the buffer dir $TMPDIR runs out of space. This
changes a central piece of code, making this release alpha quality.

* --keep-order --(n)onall will sort according to the sshlogin.

* Detection number of CPUs on DEC Tru64.

* GNU sql: --list-tables for sqlite3.

* GNU Parallel was cited in: Variational Message-Passing: Extension to
Continuous Variables and Applications in Multi-Target Tracking
http://www.ics.uci.edu/~ajfrank/pubs/thesis.pdf

* GNU Parallel was cited in: Genome Assembly: Scaffolding Guided by
Related Genomes https://www.duo.uio.no/handle/10852/37431

* GNU Parallel was cited in: Metagenomic analysis of Mariana Trench
sediment samples http://repositorio.ul.pt/handle/10451/9436

* GNU Parallel was cited in: Diacritization, automatic segmentation
and labeling for Levantine Arabic speech
http://ieeexplore.ieee.org/xpl/articleDetails.jsp?tp=&arnumber=6642556

* GNU Parallel was cited in: Investigation of emotion classification
using speech rhythm metrics
http://ieeexplore.ieee.org/xpl/articleDetails.jsp?tp=&arnumber=6642591

* GNU Parallel was cited in: A Rhythm-Based Analysis of Arabic Native
and Non-Native Speaking Styles
http://www.ijsps.com/uploadfile/2013/1128/20131128014413279.pdf

* GNU Parallel was cited in: Evolutionary optimization of wetlands
design http://dl.acm.org/citation.cfm?id=2480400

* GNU Parallel was cited (unfortunately with wrong citation) in: RDBMS
vs NoSQL: Performance and Scaling Comparison
http://www.epcc.ed.ac.uk/sites/default/files/Dissertations/2012-2013/RDBMS%20vs%20NoSQL%20-%20Performance%20and%20Scaling%20Comparison.pdf

* GNU Parallel was used (without proper citation) in: Comprehensive
Analysis Pipeline for Discovery of Human Genetic Variation
http://www.google.com/patents/US20130311106

* Encrypt and decrypt in parallel with GPG
http://blog.tkassembled.com/412/encrypt-and-decrypt-in-parallel-with-gpg/

* Using GNU Parallel to create a SVM classifier
http://ivanyu.me/blog/2013/12/01/parallel/

* Parallel xz compression http://anthon.home.xs4all.nl/rants/2013/parallel_xz/

* Got CPUs to burn? Put 'em to work with GNU parallel
http://baoilleach.blogspot.dk/2013/11/got-cpus-to-burn-put-em-to-work-with.html

* Parallel rsync http://pastebin.com/JmnB9ffq

* Gnu Parallel for fun and profit
https://gist.github.com/celoyd/f7eb55ad69c9b33fd8c3

* Parallelization of Exploitation
http://rantsideasstuff.com/parallelization-of-exploitation/

* Running assemblies in parallel
https://khmer-protocols.readthedocs.org/en/v0.8.3/metagenomics/4-assemble.html

* Procesando la contabilidad del PP
http://www.neorazorx.com/2013/07/procesando-la-contabilidad-del-pp.html

* Mon make à moi (French)
http://www.slideshare.net/lindenb/mon-make-moi-tout-sauf-galaxy

* 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/

You can install GNU Parallel in just 10 seconds with:
(wget -O - pi.dk/3 || curl pi.dk/3/) | bash

Watch the intro video on
http://www.youtube.com/playlist?list=PL284C9FF2488BC6D1

Walk through the tutorial (man parallel_tutorial). Your commandline
will love you for it.

When using programs that use GNU Parallel to process data for
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
limit.