Basic Questions

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Basic Questions

Mark Lindsay
Apologies if this sounds like a basic question or if I am enquiring of the incorrect list.

I have just had a local instance of galaxy installed on my MacPro.

Could somebody inform me of the best options for loading large BAM files (5Gb) from the same hard drive into this instance of Galaxy. It states o that it is not possible to load files > 2Gb and that you must use either a URL or FTP.

My scripting knowledge is virtually non-existant….although I have access to people that do.

Cheers

Mark




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Re: Basic Questions

Dannon Baker-2
Hi Mark,

You may want to look into using Data Libraries for large imports like this -- it'll allow you to import the files into Galaxy without making an extra copy.  See https://wiki.galaxyproject.org/Admin/DataLibraries/UploadingLibraryFiles for more information -- specifically the 'allow_library_path_paste' portion.

-Dannon


On Tue, Jul 22, 2014 at 10:52 AM, Mark Lindsay <[hidden email]> wrote:
Apologies if this sounds like a basic question or if I am enquiring of the incorrect list.

I have just had a local instance of galaxy installed on my MacPro.

Could somebody inform me of the best options for loading large BAM files (5Gb) from the same hard drive into this instance of Galaxy. It states o that it is not possible to load files > 2Gb and that you must use either a URL or FTP.

My scripting knowledge is virtually non-existant….although I have access to people that do.

Cheers

Mark




___________________________________________________________
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Re: Basic Questions

Peter Cock
In reply to this post by Mark Lindsay
Set yourself as an administrator, and you can import the files
from disk (and link to them if you wish to avoid a copy) as part
of a data library. See:

https://wiki.galaxyproject.org/Admin/DataLibraries/UploadingLibraryFiles

Peter

On Tue, Jul 22, 2014 at 3:52 PM, Mark Lindsay <[hidden email]> wrote:

> Apologies if this sounds like a basic question or if I am enquiring of the incorrect list.
>
> I have just had a local instance of galaxy installed on my MacPro.
>
> Could somebody inform me of the best options for loading large BAM files (5Gb) from the same hard drive into this instance of Galaxy. It states o that it is not possible to load files > 2Gb and that you must use either a URL or FTP.
>
> My scripting knowledge is virtually non-existant….although I have access to people that do.
>
> Cheers
>
> Mark
>
>
>
>
> ___________________________________________________________
> 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:
>   http://lists.bx.psu.edu/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/mailinglists/

___________________________________________________________
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:
  http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/