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Re: Re: Location for CWL tool descriptions



Hello Steffen,

Thank you for your support. I would recommend that local users can use /usr/local/share/cwl for site-wide non-Debian installed software and  ${XDG_DATA_HOME}/cwl/${binary-name}.cwl for per-user installed apps.

On Mon, Jul 6, 2015 at 11:17 AM "Steffen Möller" <steffen_moeller@gmx.de> wrote:
Hello,

I am happy to see this. I tend to agree that /usr/share/cwl sounds like the right place for everything coming through upstream.

To accomodate for local user (or Debian package maintainer) additions,  I suggest to also allow for /etc/cwl.d/ .  Some
/etc/cwl.conf may have an option to support any additional set of folders.

Best,

Steffen


> Gesendet: Sonntag, 05. Juli 2015 um 19:03 Uhr
> Von: "Andreas Tille" <andreas@an3as.eu>
> An: debian-med@lists.debian.org, "Debian Science List" <debian-science@lists.debian.org>
> Betreff: Re: Location for CWL tool descriptions
>
> Hi,
>
> I think Michael's proposal is sensible but I think Debian Science
> should be informed as well - so forwarding to this list.
>
> Kind regards
>
>        Andreas.
>
> On Sun, Jul 05, 2015 at 03:34:34PM +0000, Michael Crusoe wrote:
> > Hello Debian Med team,
> >
> > The Common Workflow Language [CWL] working group has created a portable
> > method to describe the command line interface of non-interactive
> > (scientific) computing tools.
> >
> > Ideally tool authors would write and ship such descriptions with their
> > tools. In suggesting that they do so we need to provide advice as to where
> > to install said files.
> >
> > I propose that such descriptors be installed into
> > /usr/share/cwl/${binary-name}.cwl
> >
> > For applications not installed site-wide I propose that all CWL tool
> > descriptions should go to $XDG_DATA_HOME/cwl/${binary-name}.cwl
> > $XDF_DATA_HOME is from the XDG Base Directory Specification [XDGBDS]; as
> > per that standard it should be interpreted as $HOME/.local/share if not
> > defined.
> >
> > What do people think? By my reading this is compliant with the Debian
> > Policy Manual but I am happy to hear other suggestions or corrections.
> >
> > [CWL] http://common-workflow-language.github.io
> > [XDGBDS] http://standards.freedesktop.org/basedir-spec/basedir-spec-0.6.html
> >
> > Cheers,
> >
> > --
> > Michael R. Crusoe
> > --
> > Michael R. Crusoe: Programmer & Bioinformatician crusoe@ucdavis.edu
> > The lab for Data Intensive Biology; University of California, Davis
> > https://impactstory.org/MichaelRCrusoe http://twitter.com/biocrusoe
>
> --
> http://fam-tille.de
>
>
> --
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>
>


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--
Michael R. Crusoe: Programmer & Bioinformatician crusoe@ucdavis.edu 
The lab for Data Intensive Biology; University of California, Davis
https://impactstory.org/MichaelRCrusoe http://twitter.com/biocrusoe

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