GNU Parallel - News: GNU Parallel 20140422 ('세월호') released

GNU Parallel 20140422 ('세월호') released

Item posted by Ole Tange <tange> on Tue 22 Apr 2014 04:37:44 PM UTC.

GNU Parallel 20140422 ('세월호') has been released. It is available for download at: http://ftp.gnu.org/gnu/parallel/

New in this release:

• --pipepart is a highly efficient alternative to --pipe if the input is a real file and not a pipe.

• If using --cat or --fifo with --pipe the {} in the command will be replaced with the name of a physical file and a fifo respectively containing the block from --pipe. Useful for commands that cannot read from standard input (stdin).

• --controlmaster has gotten an overhaul and is no longer experimental.

• --env is now copied when determining CPUs on remote system. Useful for copying $PATH if parallel is not in the normal path.

• --results now chops the argument if the argument is longer than the allowed path length.

• Build now survives if pod2* are not installed.

• The git repository now contains tags of releases.

• GNU Parallel was cited in: Proactive System for Digital Forensic Investigation http://dspace.library.uvic.ca:8080/bitstream/handle/1828/5237/Alharbi_Soltan_PhD_2014.pdf

• GNU Parallel was cited in: Beyond MAP estimation with the track-oriented multiple hypothesis tracker http://ieeexplore.ieee.org/xpl/abstractReferences.jsp?tp=&arnumber=6766651&url=http%3A%2F%2Fieeexplore.ieee.org%2Fxpls%2Fabs_all.jsp%3Farnumber%3D6766651

• GNU Parallel was cited in: Prokka: rapid prokaryotic genome annotation http://bioinformatics.oxfordjournals.org/content/early/2014/03/18/bioinformatics.btu153.short

• GNU Parallel was used (unfortunately with improper citation) in: Perspectives in magnetic resonance: NMR in the post-FFT era http://www.sciencedirect.com/science/article/pii/S1090780713003054

• GNU Parallel is used in https://github.com/cc2qe/speedseq

• Batch XML validation at the command line. http://horothesia.blogspot.dk/2014/04/batch-xml-validation-at-command-line.html

• freebayes-parallel uses GNU Parallel https://github.com/ekg/freebayes/commit/31ee997984cebe8a196381c3de57e618e34a2281

• Org-mode with Parallel Babel http://draketo.de/english/emacs/parallel-babel#sec-2

• Speeding Up Grep Log Queries with GNU Parallel http://www.cybersecurity.io/speeding-grep-queries-gnu-parallel/

• How to run tbss_2_reg in parallel http://tadpolebrainimaging.blogspot.dk/2014/03/how-to-run-tbss2reg-in-parallel.html

• GNU parallel example: blastn https://asciinema.org/a/8775

• Iterative DNS Brute Forcing http://www.room362.com/blog/2014/02/19/iterative-dns-brute-forcing/

• Ejecutando comandos en paralelo http://jesusmercado.com/guias/ejecutando-comandos-en-paralelo/

• Ejecutando en paralelo en bash (ejemplo con rsync) http://eithel-inside.blogspot.dk/2014/04/ejecutando-en-paralelo-en-bash-ejemplo.html

• 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.