[open-science] citing a code and data on a GitHub repository

Tue Dec 3 21:46:59 UTC 2013

OK great. Please pass on my details!

On 3 December 2013 14:59, Brian Hole <brian.hole at ubiquitypress.com> wrote:
> We'd be happy to do so, and it would of course also be extremely helpful.
> I'll pass this on to the team and keep you up to date.
>
> B
>
>
> On 3 December 2013 20:41, Arfon Smith <arfon at github.com> wrote:
>>
>> Agreed. Is this schema definition for JORS going to be discussed
>> publicly before implementation?
>>
>> On 3 December 2013 14:39, Carl Boettiger <cboettig at gmail.com> wrote:
>> > Brian, thanks for clarifying.  I think a schema or semantic annotation
>> > of
>> > the software descriptions published in JORS would be a great service to
>> > the
>> > community.  Looking forward to seeing what you come up with,
>> >
>> > - Carl
>> >
>> >
>> > On Tue, Dec 3, 2013 at 11:51 AM, Brian Hole
>> > <brian.hole at ubiquitypress.com>
>> > wrote:
>> >>
>> >> JORS currently uses standard artice metadata. This is being enhanced at
>> >> the moment however as a new online editor for the papers is in the
>> >> works (to
>> >> be released in January), which gives us a good opportunity to address
>> >> the
>> >> metadata as well, and we'll definitely take a look at DOAP and other
>> >> examples to see how this could be improved.
>> >>
>> >> - Brian
>> >>
>> >> On 3 December 2013 18:02, Carl Boettiger <cboettig at gmail.com> wrote:
>> >>>
>> >>> Great question. DOAP looks pretty promising.
>> >>>
>> >>> In ecology we have our own XML-schema metadata standard for describing
>> >>> software, whose vocabulary is pretty generic:
>> >>> http://knb.ecoinformatics.org/software/eml/eml-2.1.1/eml-software.html
>> >>> Not
>> >>> RDF but the standard has been around for 10 years with reasonable
>> >>> adoption
>> >>> in our discipline.  I assume other disciplines have similar creatures.
>> >>>
>> >>> Of course language-specific repositories often have their own way of
>> >>> representing software metadata.  For instance, R packages on CRAN
>> >>> specify
>> >>> generic metadata such as project title, description, authors, version,
>> >>> url,
>> >>> bug reports, etc, in a machine-readable querable plain text format,
>> >>> e.g.
>> >>> http://cran.r-project.org/web/packages/XML/  Certainly there are other
>> >>> examples (cpan, etc).
>> >>>
>> >>> Would be nice if everyone wrapped some semantics like DOAP around this
>> >>> to
>> >>> make these things more universal.
>> >>>
>> >>> Does JORS provide a machine-readable version of the metadata in their
>> >>> descriptions?
>> >>>
>> >>>
>> >>> On Tue, Dec 3, 2013 at 9:29 AM, Brian Hole
>> >>> <brian.hole at ubiquitypress.com>
>> >>> wrote:
>> >>>>
>> >>>> JORS (the Journal of Open Research Software) is another alternative:
>> >>>> http://openresearchsoftware.metajnl.com - with the additional benefit
>> >>>> that
>> >>>> the descriptions are citable.
>> >>>>
>> >>>> - Brian
>> >>>>
>> >>>> On 3 December 2013 17:17, Tom Morris <tfmorris at gmail.com> wrote:
>> >>>>>
>> >>>>> On Tue, Dec 3, 2013 at 12:10 PM, Arfon Smith <arfon at github.com>
>> >>>>> wrote:
>> >>>>>>
>> >>>>>> I'd be interested to hear if there's been any effort put into how
>> >>>>>> to
>> >>>>>> properly describe the function of a piece of code in a file like
>> >>>>>> BibJSON. For example, knowing that a piece of code was written in
>> >>>>>> Python, was for an astrophysics domain and performed coordinate
>> >>>>>> transformations. It feels like that could be encapsulated in some
>> >>>>>> kind
>> >>>>>> of meta descriptor file which could then be indexed (and searched).
>> >>>>>>
>> >>>>>> Has anyone seen anything like this done?
>> >>>>>
>> >>>>>
>> >>>>> DOAP? https://github.com/edumbill/doap/wiki
>> >>>>>
>> >>>>> Tom
>> >>>>>
>> >>>>> _______________________________________________
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>> >>>>>
>> >>>>
>> >>>>
>> >>>> _______________________________________________
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>> >>>>
>> >>>
>> >>>
>> >>>
>> >>> --
>> >>> Carl Boettiger
>> >>> UC Santa Cruz
>> >>> http://carlboettiger.info/
>> >>
>> >>
>> >>
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>> >
>> >
>> >
>> > --
>> > Carl Boettiger
>> > UC Santa Cruz
>> > http://carlboettiger.info/
>> >
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