New datatypes with code dependencies

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New datatypes with code dependencies

Cristel Thomas
Hello,

We'd like to add some datatypes to Galaxy specific to flow cytometry (finally). One of the datatype is a binary format which requires rpy2/R to be read (no good python module available to do that).
How do you guys deal with that? 

Thanks,
Cris

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Re: New datatypes with code dependencies

Björn Grüning-3
Hi Cristal,

Am 14.12.2016 um 22:07 schrieb Cristel Thomas:
> Hello,
>
> We'd like to add some datatypes to Galaxy specific to flow cytometry
> (finally). One of the datatype is a binary format which requires rpy2/R
> to be read (no good python module available to do that).
> How do you guys deal with that?

Is this needed for an converter or for the sniffer?
For the sniffer we do not have a good solution for this I'm afraid.
Does the datatype has a magic bit or something similar?

Cheers,
Bjoern

> Thanks,
> Cris
>
>
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
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>
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Re: New datatypes with code dependencies

Cristel Thomas
It's for the sniffer. I'll have to look into the magic bit, but it's obvious enough that someone else would have thought about it and done it already (or maybe I"m overly optimistic)
I could have a version without the sniffer to merge to Galaxy, but it's not super ideal.

On Wed, Dec 14, 2016 at 4:16 PM, Björn Grüning <[hidden email]> wrote:
Hi Cristal,

Am 14.12.2016 um 22:07 schrieb Cristel Thomas:
> Hello,
>
> We'd like to add some datatypes to Galaxy specific to flow cytometry
> (finally). One of the datatype is a binary format which requires rpy2/R
> to be read (no good python module available to do that).
> How do you guys deal with that?

Is this needed for an converter or for the sniffer?
For the sniffer we do not have a good solution for this I'm afraid.
Does the datatype has a magic bit or something similar?

Cheers,
Bjoern

> Thanks,
> Cris
>
>
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client.  To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>   https://lists.galaxyproject.org/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/mailinglists/
>


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