Shiny in Galaxy

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Shiny in Galaxy

Mohamed Kassam
Dear all,

I have a shiny application working in my RStudio, but I would like to integrate it to Galaxy that the users can call my application via Galaxy .

Thanks in Advance,

Mohamed

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Re: Shiny in Galaxy

Md. Rezaul Karim
+1

On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]> wrote:
Dear all,

I have a shiny application working in my RStudio, but I would like to integrate it to Galaxy that the users can call my application via Galaxy .

Thanks in Advance,

Mohamed

___________________________________________________________
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in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
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Re: Shiny in Galaxy

Yvan Le Bras-2
In reply to this post by Mohamed Kassam
Dear Mohamed, Karim, galaxy-dev list,

A rapid e-mail to inform you that we plan to work on this task in the upcoming weeks with Thimothée and Valentin, copied. We have had some exchanges with Eric (Rasche) and Björn (Grüning) and it seems that using the Galaxy "interactive environment" functionality is a good way to proceed. Don't hesitate to give us more informations to collaborate on it... 

Wishing you a good week end. 

Cheers, 

Yvan 


-------- Message d'origine --------
De : "Md. Rezaul Karim" <[hidden email]>
Date : 26/05/2017 15:45 (GMT+01:00)
À : Mohamed Kassam <[hidden email]>
Cc : Galaxy Dev List <[hidden email]>
Objet : Re: [galaxy-dev] Shiny in Galaxy

+1

On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]> wrote:
Dear all,

I have a shiny application working in my RStudio, but I would like to integrate it to Galaxy that the users can call my application via Galaxy .

Thanks in Advance,

Mohamed

___________________________________________________________
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/

___________________________________________________________
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in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
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Re: Shiny in Galaxy

Hans-Rudolf Hotz
Hi Yvan and list

This is great news!

In my limited spare time, I am currently playing with shiny as well. My
current 'quick and dirty' trick goes like this:

The galaxy tool creates a new shiny app and the output of the galaxy
tool is a html page with the URL to the shiny app. I hope, I will have
something ready to show/discuss at GCC


Regards, Hans-Rudolf


On 05/26/2017 04:13 PM, Yvan Le Bras wrote:

> Dear Mohamed, Karim, galaxy-dev list,
>
> A rapid e-mail to inform you that we plan to work on this task in the
> upcoming weeks with Thimothée and Valentin, copied. We have had some
> exchanges with Eric (Rasche) and Björn (Grüning) and it seems that using
> the Galaxy "interactive environment" functionality is a good way to
> proceed. Don't hesitate to give us more informations to collaborate on
> it...
>
> Wishing you a good week end.
>
> Cheers,
>
> Yvan
>
>
> -------- Message d'origine --------
> De : "Md. Rezaul Karim" <[hidden email]>
> Date : 26/05/2017 15:45 (GMT+01:00)
> À : Mohamed Kassam <[hidden email]>
> Cc : Galaxy Dev List <[hidden email]>
> Objet : Re: [galaxy-dev] Shiny in Galaxy
>
> +1
>
> On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]
> <mailto:[hidden email]>> wrote:
>
>     Dear all,
>
>     I have a shiny application working in my RStudio, but I would like
>     to integrate it to Galaxy that the users can call my application via
>     Galaxy .
>
>     Thanks in Advance,
>
>     Mohamed
>
>     ___________________________________________________________
>     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/ <https://lists.galaxyproject.org/>
>
>     To search Galaxy mailing lists use the unified search at:
>     http://galaxyproject.org/search/ <http://galaxyproject.org/search/>
>
>
>
> ___________________________________________________________
> 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/
>
___________________________________________________________
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/

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  http://galaxyproject.org/search/
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Re: Shiny in Galaxy

Mohamed Kassam
Hello Yann and all,

Please feel free to give us some results on your work.
 It will be helpful to integrate shiny to Galaxy.

Thanks a lot for your help,

Best regards,

Mohamed

2017-05-29 9:39 GMT+02:00 Hans-Rudolf Hotz <[hidden email]>:
Hi Yvan and list

This is great news!

In my limited spare time, I am currently playing with shiny as well. My current 'quick and dirty' trick goes like this:

The galaxy tool creates a new shiny app and the output of the galaxy tool is a html page with the URL to the shiny app. I hope, I will have something ready to show/discuss at GCC


Regards, Hans-Rudolf


On 05/26/2017 04:13 PM, Yvan Le Bras wrote:
Dear Mohamed, Karim, galaxy-dev list,

A rapid e-mail to inform you that we plan to work on this task in the
upcoming weeks with Thimothée and Valentin, copied. We have had some
exchanges with Eric (Rasche) and Björn (Grüning) and it seems that using
the Galaxy "interactive environment" functionality is a good way to
proceed. Don't hesitate to give us more informations to collaborate on
it...

Wishing you a good week end.

Cheers,

Yvan


-------- Message d'origine --------
De : "Md. Rezaul Karim" <[hidden email]>
Date : 26/05/2017 15:45 (GMT+01:00)
À : Mohamed Kassam <[hidden email]>
Cc : Galaxy Dev List <[hidden email]>
Objet : Re: [galaxy-dev] Shiny in Galaxy

+1

On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]
<mailto:[hidden email]>> wrote:

    Dear all,

    I have a shiny application working in my RStudio, but I would like
    to integrate it to Galaxy that the users can call my application via
    Galaxy .

    Thanks in Advance,

    Mohamed

    ___________________________________________________________
    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/ <https://lists.galaxyproject.org/>

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



___________________________________________________________
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/



___________________________________________________________
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in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
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Re: Shiny in Galaxy

Yvan Le Bras-2
In reply to this post by Hans-Rudolf Hotz
Hi Hans, Hi everyone,

I hope your return trip from GCC has been safe! Unfortunately, I didn't take time during gcc to see you Quick and dirty solution... Can we go further on this Shiny / Galaxy integration idea ? It seems that the Shiny licence can be a problem but it appears to me, if I don't make a mistake, that using the open source version of Shiny (without ssl and identification) on Galaxy through IE can be sufficent... no ?

Cheers,

Yvan


----- Mail d'origine -----
De: Hans-Rudolf Hotz <[hidden email]>
À: Yvan Le Bras <[hidden email]>, Md. Rezaul Karim <[hidden email]>, Mohamed Kassam <[hidden email]>, Timothée VIRGOULAY <[hidden email]>, Valentin CHAMBON <[hidden email]>
Cc: Galaxy Dev List <[hidden email]>
Envoyé: Mon, 29 May 2017 09:39:10 +0200 (CEST)
Objet: Re: [galaxy-dev] Shiny in Galaxy

Hi Yvan and list

This is great news!

In my limited spare time, I am currently playing with shiny as well. My
current 'quick and dirty' trick goes like this:

The galaxy tool creates a new shiny app and the output of the galaxy
tool is a html page with the URL to the shiny app. I hope, I will have
something ready to show/discuss at GCC


Regards, Hans-Rudolf


On 05/26/2017 04:13 PM, Yvan Le Bras wrote:

> Dear Mohamed, Karim, galaxy-dev list,
>
> A rapid e-mail to inform you that we plan to work on this task in the
> upcoming weeks with Thimothée and Valentin, copied. We have had some
> exchanges with Eric (Rasche) and Björn (Grüning) and it seems that using
> the Galaxy "interactive environment" functionality is a good way to
> proceed. Don't hesitate to give us more informations to collaborate on
> it...
>
> Wishing you a good week end.
>
> Cheers,
>
> Yvan
>
>
> -------- Message d'origine --------
> De : "Md. Rezaul Karim" <[hidden email]>
> Date : 26/05/2017 15:45 (GMT+01:00)
> À : Mohamed Kassam <[hidden email]>
> Cc : Galaxy Dev List <[hidden email]>
> Objet : Re: [galaxy-dev] Shiny in Galaxy
>
> +1
>
> On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]
> <mailto:[hidden email]>> wrote:
>
>     Dear all,
>
>     I have a shiny application working in my RStudio, but I would like
>     to integrate it to Galaxy that the users can call my application via
>     Galaxy .
>
>     Thanks in Advance,
>
>     Mohamed
>
>     ___________________________________________________________
>     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/ <https://lists.galaxyproject.org/>
>
>     To search Galaxy mailing lists use the unified search at:
>     http://galaxyproject.org/search/ <http://galaxyproject.org/search/>
>
>
>
> ___________________________________________________________
> 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/
>

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___________________________________________________________
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/

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Re: Shiny in Galaxy

Hans-Rudolf Hotz
Hi Yvan

Yes, after an additional week in the South of France, we traveled back
safely last weekend.

I use the free version of the shiny server. In addition to what you
already have mentioned, we run into another 'feature' of the free
version: you cannot set the R path. You need to set the R path in the
environment of the user, the shiny server is running as.

I am currently not using IE, since I cannot use Docker in our production
environment. Hence the detour via an html page linking to the extra
shiny server. Maybe this will change with Singularity in the future......

Using IE is definitively the way forward.


Regards, Hans-Rudolf




On 07/06/2017 10:58 PM, Yvan Le Bras wrote:

> Hi Hans, Hi everyone,
>
> I hope your return trip from GCC has been safe! Unfortunately, I didn't take time during gcc to see you Quick and dirty solution... Can we go further on this Shiny / Galaxy integration idea ? It seems that the Shiny licence can be a problem but it appears to me, if I don't make a mistake, that using the open source version of Shiny (without ssl and identification) on Galaxy through IE can be sufficent... no ?
>
> Cheers,
>
> Yvan
>
>
> ----- Mail d'origine -----
> De: Hans-Rudolf Hotz <[hidden email]>
> À: Yvan Le Bras <[hidden email]>, Md. Rezaul Karim <[hidden email]>, Mohamed Kassam <[hidden email]>, Timothée VIRGOULAY <[hidden email]>, Valentin CHAMBON <[hidden email]>
> Cc: Galaxy Dev List <[hidden email]>
> Envoyé: Mon, 29 May 2017 09:39:10 +0200 (CEST)
> Objet: Re: [galaxy-dev] Shiny in Galaxy
>
> Hi Yvan and list
>
> This is great news!
>
> In my limited spare time, I am currently playing with shiny as well. My
> current 'quick and dirty' trick goes like this:
>
> The galaxy tool creates a new shiny app and the output of the galaxy
> tool is a html page with the URL to the shiny app. I hope, I will have
> something ready to show/discuss at GCC
>
>
> Regards, Hans-Rudolf
>
>
> On 05/26/2017 04:13 PM, Yvan Le Bras wrote:
>> Dear Mohamed, Karim, galaxy-dev list,
>>
>> A rapid e-mail to inform you that we plan to work on this task in the
>> upcoming weeks with Thimothée and Valentin, copied. We have had some
>> exchanges with Eric (Rasche) and Björn (Grüning) and it seems that using
>> the Galaxy "interactive environment" functionality is a good way to
>> proceed. Don't hesitate to give us more informations to collaborate on
>> it...
>>
>> Wishing you a good week end.
>>
>> Cheers,
>>
>> Yvan
>>
>>
>> -------- Message d'origine --------
>> De : "Md. Rezaul Karim" <[hidden email]>
>> Date : 26/05/2017 15:45 (GMT+01:00)
>> À : Mohamed Kassam <[hidden email]>
>> Cc : Galaxy Dev List <[hidden email]>
>> Objet : Re: [galaxy-dev] Shiny in Galaxy
>>
>> +1
>>
>> On May 26, 2017 2:44 PM, "Mohamed Kassam" <[hidden email]
>> <mailto:[hidden email]>> wrote:
>>
>>      Dear all,
>>
>>      I have a shiny application working in my RStudio, but I would like
>>      to integrate it to Galaxy that the users can call my application via
>>      Galaxy .
>>
>>      Thanks in Advance,
>>
>>      Mohamed
>>
>>      ___________________________________________________________
>>      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/ <https://lists.galaxyproject.org/>
>>
>>      To search Galaxy mailing lists use the unified search at:
>>      http://galaxyproject.org/search/ <http://galaxyproject.org/search/>
>>
>>
>>
>> ___________________________________________________________
>> 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/
>>
>
___________________________________________________________
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/
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