[galaxy-dev] Picard tools don't include CreateSequenceDictionary?

[Scott Szakonyi]

Hello all,

I have some biologists here at Notre Dame who use the Picard
Tools CreateSequenceDictionary application as part of their workflow. I've
tried to locate it in the toolshed but all the Picard Tools versions that
are available don't seem to include it. Does anyone know where I might find
this tool to add to Galaxy?

Thanks!

-- 
Scott B. Szakonyi
Research Programmer

*Center for Research Computing*
107 Information Technology Center
Notre Dame, IN 46556
http://crc.nd.edu
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Re: [galaxy-dev] Picard tools don't include CreateSequenceDictionary?

[Scott Szakonyi]

Hi Nicola,

Thank you very much! I'm checking with my biologists to see if any of those
tools will work out for us. I'll be sure to open an issue if not.

Best,

Scott

On Mon, Feb 1, 2016 at 10:58 AM, Nicola Soranzo  wrote:

> Hi Scott,
> it seems that devteam's picard repository in the Tool Shed (
> https://toolshed.g2.bx.psu.edu/view/devteam/picard/ ) does not have a
> tool for this, but 4 tools include an automatic conversion of a FASTA
> dataset using CreateSequenceDictionary: BedToIntervalList,
> MergeBamAlignment, ReorderSam and ValidateSamFile.
>
> If you think this is not the best approach, please open an issue at
> https://github.com/galaxyproject/tools-devteam
>
> Chees,
> Nicola
>
>
> On 01/02/16 14:02, Scott Szakonyi wrote:
>
> Hello all,
>
> I have some biologists here at Notre Dame who use the Picard
> Tools CreateSequenceDictionary application as part of their workflow. I've
> tried to locate it in the toolshed but all the Picard Tools versions that
> are available don't seem to include it. Does anyone know where I might find
> this tool to add to Galaxy?
>
> Thanks!
>
> --
> Scott B. Szakonyi
> Research Programmer
>
> *Center for Research Computing*
> 107 Information Technology Center
> Notre Dame, IN 46556
> http://crc.nd.edu
>
>
> ___
> 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/
>
>
>


-- 
Scott B. Szakonyi
Research Programmer

*Center for Research Computing*
107 Information Technology Center
Notre Dame, IN 46556
http://crc.nd.edu
___
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
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