Re: [galaxy-user] Installing Galaxy on my computer

[Lilach F]

Hi Peter,
Thank you very much for the help!

Another question:
What type of instance I should select in order to analyze 2 whole exomes, 20
Gb each (total: 40 Gb)?

Thanks,
   Lilach



2011/9/12 Lilach F 

> Thank you very much for the big help!
>Lilach
>
>
> 2011/9/12 Peter Cock 
>
>> On Mon, Sep 12, 2011 at 5:20 PM, Lilach F  wrote:
>> > Hi Jennifer,
>> > I already tried 2 weeks ago to upload my whole exome data by FTP,
>> according
>> > to the instructions you sent below. The files are too big, it should
>> take
>> > days for each file, and it always stops in the middle after 12  hours or
>> so.
>> > So I gave up.
>> >
>> > If I use Galaxy on a cloud, I can work with the files on my computer, or
>> I
>> > will still have to upload them by ftp? I guess I will still have to
>> upload
>> > them, so it doesn't solve my problem?
>>
>> If you use Amazon, they have a service where you can post
>> them a hard drive and they copy it onto their cloud for you.
>> This costs money of course, but avoids the network problem.
>>
>> The other option is to check with your local computing people -
>> perhaps there is a cluster or local super computing group you
>> can get access to?
>>
>> Peter
>>
>
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Re: [galaxy-user] Installing Galaxy on my computer

[Lilach F]

Thank you very much for the big help!
   Lilach

2011/9/12 Peter Cock 

> On Mon, Sep 12, 2011 at 5:20 PM, Lilach F  wrote:
> > Hi Jennifer,
> > I already tried 2 weeks ago to upload my whole exome data by FTP,
> according
> > to the instructions you sent below. The files are too big, it should take
> > days for each file, and it always stops in the middle after 12  hours or
> so.
> > So I gave up.
> >
> > If I use Galaxy on a cloud, I can work with the files on my computer, or
> I
> > will still have to upload them by ftp? I guess I will still have to
> upload
> > them, so it doesn't solve my problem?
>
> If you use Amazon, they have a service where you can post
> them a hard drive and they copy it onto their cloud for you.
> This costs money of course, but avoids the network problem.
>
> The other option is to check with your local computing people -
> perhaps there is a cluster or local super computing group you
> can get access to?
>
> Peter
>
___
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Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
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use the Galaxy Development list:

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Re: [galaxy-user] Installing Galaxy on my computer

[Peter Cock]

On Mon, Sep 12, 2011 at 5:20 PM, Lilach F  wrote:
> Hi Jennifer,
> I already tried 2 weeks ago to upload my whole exome data by FTP, according
> to the instructions you sent below. The files are too big, it should take
> days for each file, and it always stops in the middle after 12  hours or so.
> So I gave up.
>
> If I use Galaxy on a cloud, I can work with the files on my computer, or I
> will still have to upload them by ftp? I guess I will still have to upload
> them, so it doesn't solve my problem?

If you use Amazon, they have a service where you can post
them a hard drive and they copy it onto their cloud for you.
This costs money of course, but avoids the network problem.

The other option is to check with your local computing people -
perhaps there is a cluster or local super computing group you
can get access to?

Peter

___
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using "reply all" in your mail client.  For discussion of
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Re: [galaxy-user] Installing Galaxy on my computer

[Lilach F]

Hi Jennifer,
I already tried 2 weeks ago to upload my whole exome data by FTP, according
to the instructions you sent below. The files are too big, it should take
days for each file, and it always stops in the middle after 12  hours or so.
So I gave up.

If I use Galaxy on a cloud, I can work with the files on my computer, or I
will still have to upload them by ftp? I guess I will still have to upload
them, so it doesn't solve my problem?


Thank you for the help!
   Lilach



2011/9/12 Jennifer Jackson 

> Hello Lilach,
>
> On 9/12/11 7:18 AM, Jennifer Jackson wrote:
>
>> Hi,
>> I am a new user of Galaxy.
>> I want to analyze whole human exome data with Galaxy and cannot upload
>> the files (10 Gb each) to the server.
>>
>
> If you need help uploading larger files, this prior Q/A has the details for
> FTP transfer:
> http://lists.bx.psu.edu/**pipermail/galaxy-user/2011-**
> September/003162.html
>
>  Should I install Galaxy on a PC, and work in Unix environment, or there
>> is a more comfortable way?
>> If I should install it - what should be the computer properties, and
>> where can I find the instructions for using it? I found the instructions
>> for installing in Wiki, but didn't find the what computer is should be
>> (RAM, HD, etc).
>>
>
> If you still decide to use your own instance, Galaxy itself should run on
> most platforms. However, there may be hardware dependencies for the 3rd
> party tools you intend to incorporate and use.
> http://galaxyproject.org/wiki/**Adminsee 
> "Tools"
>
> A simplified alternative to hosting a local instance is the Cloudman Galaxy
> option, please see:
> http://galaxyproject.org/wiki/**Admin/Cloud
> http://galaxyproject.org/wiki/**Big%20Picture/Choices
>
>
>> Thanks,
>> Lilach
>>
>
> Hopefully this helps. Going forward, please send all new questions directly
> "to" the mailing list and all replies with a "reply-all" to include the
> mailing list.
>
> Best,
>
> Jen
> Galaxy team
>
>  __**_
>> The Galaxy User list should be used for the discussion of
>> Galaxy analysis and other features on the public server
>> at usegalaxy.org. Please keep all replies on the list by
>> using "reply all" in your mail client. For discussion of
>> local Galaxy instances and the Galaxy source code, please
>> use the Galaxy Development list:
>>
>> http://lists.bx.psu.edu/**listinfo/galaxy-dev
>>
>> To manage your subscriptions to this and other Galaxy lists,
>> please use the interface at:
>>
>> http://lists.bx.psu.edu/
>>
>
> --
> Jennifer Jackson
> http://usegalaxy.org
> http://galaxyproject.org/**Support 
>
___
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
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Re: [galaxy-user] Installing Galaxy on my computer

[Jennifer Jackson]

Hello Lilach,

On 9/12/11 7:18 AM, Jennifer Jackson wrote:

Hi,
I am a new user of Galaxy.
I want to analyze whole human exome data with Galaxy and cannot upload
the files (10 Gb each) to the server.


If you need help uploading larger files, this prior Q/A has the details 
for FTP transfer:

http://lists.bx.psu.edu/pipermail/galaxy-user/2011-September/003162.html


Should I install Galaxy on a PC, and work in Unix environment, or there
is a more comfortable way?
If I should install it - what should be the computer properties, and
where can I find the instructions for using it? I found the instructions
for installing in Wiki, but didn't find the what computer is should be
(RAM, HD, etc).


If you still decide to use your own instance, Galaxy itself should run 
on most platforms. However, there may be hardware dependencies for the 
3rd party tools you intend to incorporate and use.

http://galaxyproject.org/wiki/Admin see "Tools"

A simplified alternative to hosting a local instance is the Cloudman 
Galaxy option, please see:

http://galaxyproject.org/wiki/Admin/Cloud
http://galaxyproject.org/wiki/Big%20Picture/Choices



Thanks,
Lilach


Hopefully this helps. Going forward, please send all new questions 
directly "to" the mailing list and all replies with a "reply-all" to 
include the mailing list.


Best,

Jen
Galaxy team


___
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Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
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use the Galaxy Development list:

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please use the interface at:

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--
Jennifer Jackson
http://usegalaxy.org
http://galaxyproject.org/Support
___
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Galaxy analysis and other features on the public server
at usegalaxy.org.  Please keep all replies on the list by
using "reply all" in your mail client.  For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:

 http://lists.bx.psu.edu/listinfo/galaxy-dev

To manage your subscriptions to this and other Galaxy lists,
please use the interface at:

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