Re: Help running an example (Calling Bash functions) from the manual

[Thompson, Matt (GSFC-610.1)[SCIENCE SYSTEMS AND APPLICATIONS INC]]

All,

Answering my own question here, thanks to the fine folks of Stack Overflow:

http://stackoverflow.com/questions/23814360/gnu-parallel-and-bash-functions-how-to-run-the-simple-example-from-the-manual

The issue was that I use tcsh as my login shell, thus $SHELL points to 
it, not bash. Thus parallel wanted to invoke tcsh as my shell when it 
did its work, even though I was calling it from a bash script.

Now, as the answer-er stated in that SO thread, this isn't very 
prominent in the manual. I was wondering if there would ever be a way to 
add an option to parallel? Say, if executing from a whatever-shell 
script you used whatever-shell to execute parallel? Or, perhaps, add an 
environment variable that parallel could see? I can't see how to add it 
to $PARALLEL, but maybe add a new $PARALLEL_SHELL?

Matt

On 05/22/2014 02:41 PM, Thompson, Matt (GSFC-610.1)[SCIENCE SYSTEMS AND 
APPLICATIONS INC] wrote:
> Parallel List,
>
> I'm a newbie to GNU parallel, but I decided today to try and parallelize
> a Bash script I have but I just kept getting stymied. So, I thought I'd
> just try the example from the manual:
>
> http://www.gnu.org/software/parallel/man.html#example__calling_bash_functions
>
>
> However, I can't seem to run that! To wit I placed that example in a
> file called "tpar.bash" and just tried to run it, but it doesn't work:
>
> > (231) $ parallel --version
> > GNU parallel 20140522
> > Copyright (C) 2007,2008,2009,2010,2011,2012,2013,2014 Ole Tange and
> > Free Software Foundation, Inc.
> > License GPLv3+: GNU GPL version 3 or later
> > <http://gnu.org/licenses/gpl.html>
> > This is free software: you are free to change and redistribute it.
> > GNU parallel comes with no warranty.
> >
> > Web site: http://www.gnu.org/software/parallel
> >
> > 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.
>
> > (232) $ bash --version
> > GNU bash, version 4.1.2(1)-release (x86_64-redhat-linux-gnu)
> > Copyright (C) 2009 Free Software Foundation, Inc.
> > License GPLv3+: GNU GPL version 3 or later
> > <http://gnu.org/licenses/gpl.html>
> >
> > This is free software; you are free to change and redistribute it.
> > There is NO WARRANTY, to the extent permitted by law.
>
> > (233) $ cat tpar.bash
> > #!/bin/bash
> >
> > doit() {
> >   echo Doing it for $1
> >   sleep 2
> >   echo Done with $1
> > }
> > export -f doit
> > parallel doit ::: 1 2 3
> > doubleit() {
> >   echo Doing it for $1 $2
> >   sleep 2
> >   echo Done with $1 $2
> > }
> > export -f doubleit
> > parallel doubleit ::: 1 2 3 ::: a b
>
> > (234) $ bash tpar.bash
> > doit: Command not found.
> > doit: Command not found.
> > doit: Command not found.
> > doubleit: Command not found.
> > doubleit: Command not found.
> > doubleit: Command not found.
> > doubleit: Command not found.
> > doubleit: Command not found.
> > doubleit: Command not found.
>
> Now, from the look of the bash output, parallel seems to be doing its
> job, right? So I'm guessing that makes this a Bash issue and not a
> parallel issue?
>
> I thought I'd ask here first since it was in the parallel manual. But
> I'll gladly ask this instead on the Bash list if you think that would be
> better.
>
> Matt


--
Matt Thompson          SSAI, Sr Software Test Engr
NASA GSFC, Global Modeling and Assimilation Office
Code 610.1, 8800 Greenbelt Rd, Greenbelt, MD 20771
Phone: 301-614-6712              Fax: 301-614-6246