Re: [galaxy-dev] Search software on public Galaxy servers

[Jeremy Goecks]

The tools API, incomplete as it is, could be used to automatically generate a 
list of tools for a single instance.

J.

On Mar 4, 2013, at 5:37 AM, Hans-Rudolf Hotz wrote:

> 
> 
> On 03/03/2013 05:18 PM, Dave Clements wrote:
>> Hi Bernardo,
>> 
>> I'm intrigued by this idea.  It might be possible to build a Google
>> custom search, similar to the Tools tab of the usegalaxy search
>> (http://galaxyproject.org/search/usegalaxy/).  That's would not be an
>> ideal solution, but it would be quick to implement.
>> 
> 
> or adding a new page to listing all the tools (similar to the "Tool versions" 
> page you get from the report tools). And this page can easily be called and 
> parsed from a central location.
> 
> This kind of reminds me to the "good old days" when we checked the list of 
> databases available from all the public SRS servers:
> 
> http://bioblog.instem.com/download/srs-parser-and-software-downloads/public-srs-installations/
> 
> where the info is all taken from pages like:
> 
> http://www.dkfz.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+databanks
> http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+databanks
> 
> 
> Such a page listing all the tools would also be nice for the users. Not 
> everybody likes search boxes. Some people prefer reading lists.
> 
> 
> Hans-Rudolf
> 
> 
> 
> 
> 
>> Let me take a look at this in a week or two (traveling this week) and
>> see if searching ~28 sites is tractable/possible with a free Google
>> custom search.
>> 
>> Thanks,
>> 
>> Dave C
>> 
>> 
>> On Thu, Feb 28, 2013 at 8:02 AM, Bernardo Bello > > wrote:
>> 
>>Hi community,
>> 
>>Due to the increasing Galaxy public servers PublicGalaxyServers
>> it would be very
>>useful to have a search tool in order to look for software
>>ready-to-use in the public servers.
>> 
>>Since I know this is not available. Will it be feasible?
>> 
>>Here is the Trello Card https://trello.com/c/FdF5h17c
>> 
>>Regards,
>> 
>>Bernardo
>> 
>> 
>> 
>>--
>> 
>>*Bernardo Bello Ortí*
>> 
>>PhD student
>> 
>>CReSA-IRTA
>> 
>>Campus de Bellaterra-Universitat Autònoma de Barcelona
>> 
>>Edifici CReSA
>> 
>>08193  Bellaterra (Barcelona, Spain)
>> 
>>Tel.: 647 42 52 63 *www.cresa.es  *
>> 
>>*
>>*
>> 
>> 
>> 
>>___
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>> 
>> 
>> 
>> 
>> --
>> http://galaxyproject.org/
>> http://getgalaxy.org/
>> http://usegalaxy.org/
>> http://wiki.galaxyproject.org/
>> 
>> 
>> ___
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>> 
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Re: [galaxy-dev] Search software on public Galaxy servers

[Bernardo Bello]

Hi,

I completely agree with Hans proposal. Creating a new page to list all the
tools would be a good alternative. In addition, this page could offer
categories of bioinformatic tools and more information of the tool in
question. Nevertheless, a Google search box is a very good starting point.

The potential of Galaxy is very high and organizing all the ready-to-use
tools can, on the one hand, save a lot of time to people who needs a
specific tool and, on the other hand, exploit the full potential of Galaxy
Public servers that, in my opinion, the still chaotic mode to use these
servers is limiting Galaxy usability and popularity.

Bernardo




2013/3/4 Hans-Rudolf Hotz 

>
>
> On 03/03/2013 05:18 PM, Dave Clements wrote:
>
>> Hi Bernardo,
>>
>> I'm intrigued by this idea.  It might be possible to build a Google
>> custom search, similar to the Tools tab of the usegalaxy search
>> (http://galaxyproject.org/**search/usegalaxy/).
>>  That's would not be an
>> ideal solution, but it would be quick to implement.
>>
>>
> or adding a new page to listing all the tools (similar to the "Tool
> versions" page you get from the report tools). And this page can easily be
> called and parsed from a central location.
>
> This kind of reminds me to the "good old days" when we checked the list of
> databases available from all the public SRS servers:
>
> http://bioblog.instem.com/**download/srs-parser-and-**
> software-downloads/public-srs-**installations/
>
> where the info is all taken from pages like:
>
> http://www.dkfz.de/menu/cgi-**bin/srs7.1.3.1/wgetz?-page+**databanks
> http://srs.ebi.ac.uk/srsbin/**cgi-bin/wgetz?-page+databanks
>
>
> Such a page listing all the tools would also be nice for the users. Not
> everybody likes search boxes. Some people prefer reading lists.
>
>
> Hans-Rudolf
>
>
>
>
>
>  Let me take a look at this in a week or two (traveling this week) and
>> see if searching ~28 sites is tractable/possible with a free Google
>> custom search.
>>
>> Thanks,
>>
>> Dave C
>>
>>
>> On Thu, Feb 28, 2013 at 8:02 AM, Bernardo Bello > > wrote:
>>
>> Hi community,
>>
>> Due to the increasing Galaxy public servers PublicGalaxyServers
>> 
>> >
>> it would be very
>>
>> useful to have a search tool in order to look for software
>> ready-to-use in the public servers.
>>
>> Since I know this is not available. Will it be feasible?
>>
>> Here is the Trello Card https://trello.com/c/FdF5h17c
>>
>> Regards,
>>
>> Bernardo
>>
>>
>>
>> --
>>
>> *Bernardo Bello Ortí*
>>
>>
>> PhD student
>>
>> CReSA-IRTA
>>
>> Campus de Bellaterra-Universitat Autònoma de Barcelona
>>
>> Edifici CReSA
>>
>> 08193  Bellaterra (Barcelona, Spain)
>>
>> Tel.: 647 42 52 63 *www.cresa.es  *
>>
>> *
>>
>> *
>>
>>
>>
>> __**_
>> 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/
>>
>>
>>
>>
>> --
>> 
>> >http://**galaxyproject.org/ 
>>
>> http://getgalaxy.org/
>> http://usegalaxy.org/
>> http://wiki.galaxyproject.org/
>>
>>
>> __**_
>> 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/
>>
>>


-- 

*Bernardo Bello Ortí*

PhD student

CReSA-IRTA

Campus de Bellaterra-Universitat Autònoma de Barcelona

Edifici CReSA

08193  Bellaterra (Barcelona, Spain)

Tel.: 647 42 52 63 *www.cresa.es  *

*
*
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Re: [galaxy-dev] Search software on public Galaxy servers

[Hans-Rudolf Hotz]

On 03/03/2013 05:18 PM, Dave Clements wrote:

Hi Bernardo,

I'm intrigued by this idea.  It might be possible to build a Google
custom search, similar to the Tools tab of the usegalaxy search
(http://galaxyproject.org/search/usegalaxy/).  That's would not be an
ideal solution, but it would be quick to implement.



or adding a new page to listing all the tools (similar to the "Tool 
versions" page you get from the report tools). And this page can easily 
be called and parsed from a central location.


This kind of reminds me to the "good old days" when we checked the list 
of databases available from all the public SRS servers:


http://bioblog.instem.com/download/srs-parser-and-software-downloads/public-srs-installations/

where the info is all taken from pages like:

http://www.dkfz.de/menu/cgi-bin/srs7.1.3.1/wgetz?-page+databanks
http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+databanks


Such a page listing all the tools would also be nice for the users. Not 
everybody likes search boxes. Some people prefer reading lists.



Hans-Rudolf






Let me take a look at this in a week or two (traveling this week) and
see if searching ~28 sites is tractable/possible with a free Google
custom search.

Thanks,

Dave C


On Thu, Feb 28, 2013 at 8:02 AM, Bernardo Bello mailto:popn...@gmail.com>> wrote:

Hi community,

Due to the increasing Galaxy public servers PublicGalaxyServers
 it would be very
useful to have a search tool in order to look for software
ready-to-use in the public servers.

Since I know this is not available. Will it be feasible?

Here is the Trello Card https://trello.com/c/FdF5h17c

Regards,

Bernardo



--

*Bernardo Bello Ortí*

PhD student

CReSA-IRTA

Campus de Bellaterra-Universitat Autònoma de Barcelona

Edifici CReSA

08193  Bellaterra (Barcelona, Spain)

Tel.: 647 42 52 63 *www.cresa.es  *

*
*



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--
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org/


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Re: [galaxy-dev] Search software on public Galaxy servers

[Dave Clements]

Hi Bernardo,

I'm intrigued by this idea.  It might be possible to build a Google custom
search, similar to the Tools tab of the usegalaxy search (
http://galaxyproject.org/search/usegalaxy/).  That's would not be an ideal
solution, but it would be quick to implement.

Let me take a look at this in a week or two (traveling this week) and see
if searching ~28 sites is tractable/possible with a free Google custom
search.

Thanks,

Dave C


On Thu, Feb 28, 2013 at 8:02 AM, Bernardo Bello  wrote:

> Hi community,
>
> Due to the increasing Galaxy public servers 
> PublicGalaxyServers it
> would be very useful to have a search tool in order to look for software
> ready-to-use in the public servers.
>
> Since I know this is not available. Will it be feasible?
>
> Here is the Trello Card https://trello.com/c/FdF5h17c
>
> Regards,
>
> Bernardo
>
>
>
> --
>
> *Bernardo Bello Ortí*
>
> PhD student
>
> CReSA-IRTA
>
> Campus de Bellaterra-Universitat Autònoma de Barcelona
>
> Edifici CReSA
>
> 08193  Bellaterra (Barcelona, Spain)
>
> Tel.: 647 42 52 63 *www.cresa.es  *
>
> *
> *
>
>
>
> ___
> 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/
>



-- 
http://galaxyproject.org/
http://getgalaxy.org/
http://usegalaxy.org/
http://wiki.galaxyproject.org/
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Please keep all replies on the list by using "reply all"
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[galaxy-dev] Search software on public Galaxy servers

[Bernardo Bello]

Hi community,

Due to the increasing Galaxy public servers
PublicGalaxyServers
it
would be very useful to have a search tool in order to look for software
ready-to-use in the public servers.

Since I know this is not available. Will it be feasible?

Here is the Trello Card https://trello.com/c/FdF5h17c

Regards,

Bernardo



-- 

*Bernardo Bello Ortí*

PhD student

CReSA-IRTA

Campus de Bellaterra-Universitat Autònoma de Barcelona

Edifici CReSA

08193  Bellaterra (Barcelona, Spain)

Tel.: 647 42 52 63 *www.cresa.es  *

*
*
___
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/