Hello Laure

 

this idea cannot be applied in my use case.

indeed I don’t want that users can choose which data to display. I want to hide some data based on their name/group/address (anything that can be useful to clasify my users).

 

Thank you for sharing your ideas :)

 

Fred

De : Laure QUINTRIC [mailto:Laure.Quintric@ifremer.fr]
Envoyé : mercredi 13 septembre 2017 13:54
À : Peter Cock <p.j.a.cock@googlemail.com>; SAPET, Frederic <frederic.sapet@biogemma.com>
Cc : Galaxy-dev <galaxy-dev@lists.galaxyproject.org>
Objet : Re: [galaxy-dev] Displaying tool select list according to user

 

A workaround would be to do this :

- first, create a tool which will output a tabular loc file with all the custom banks for the connected user.
- then add in the ncbi_blast wrapper a select list with the attribute from_dataset to load the loc file generated by the previous tool  : see the example here : https://docs.galaxyproject.org/en/latest/dev/schema.html#from-dataset

I have something like this in the ncbi_blast tool:
        <param name="userdb_loc_file" type="data" format="tabular" label="My custom dbs"/>
        <param name="custom_db" type="select" size="120" optional="true" multiple="true" display="checkboxes" label="Select our custom db">
            <options from_dataset="userdb_loc_file">
                <column name="value" index="0"/>
                <column name="name" index="1"/>
                <column name="path" index="2"/>
            </options>

and I set in param userdb_loc_file the loc file which is in my history and looks like this :
NCBI_nt<tab>NCBI_nt 2017-05-19<tab>/path/to/biobanks/n/NCBI_nt/current/NCBI_nt/NCBI_nt

Laure

Le 12/09/2017 à 17:25, Peter Cock a écrit :

Thanks Fred,

 

That's the previous discussion I was trying to find -

sadly no clear solution but some ideas to explore.

 

It does seem filtering example.loc by user or role

is not a niche request. I wonder if this could be

linked to the Galaxy data library permissions

structure as a way to manage the access rights?

 

Peter

 

On Tue, Sep 12, 2017 at 4:20 PM, SAPET, Frederic <frederic.sapet@biogemma.com> wrote:

Hi Laure,

 

There are others users (including me! ) that need this kind of function :

http://dev.list.galaxyproject.org/Blast-db-permission-td4670440.html

 

@Galaxy team:

Do we need to add an issue in GitHub ?

Do you think that it could be enabled one day ?

 

I think this something that could be nice to develop !

I would be glad to help.

 

Thank a lot

 

Fred

 

De : galaxy-dev [mailto:galaxy-dev-bounces@lists.galaxyproject.org] De la part de Peter Cock
Envoyé : mardi 12 septembre 2017 14:56
À : Laure QUINTRIC <Laure.Quintric@ifremer.fr>
Cc : Galaxy-dev <galaxy-dev@lists.galaxyproject.org>
Objet : Re: [galaxy-dev] Displaying tool select list according to user

 

Hi Laure,

 

I don't think there is any easy to use mechanism for this in Galaxy.

Unfortunately Galaxy loads all the *.loc files at startup and treats

them as global values available to all users equally.

 

I can't find the email thread, but I recall someone previously trying

to do something with a single large example.loc file for all users

but with an extra column for filtering by account name. I forget if

they got these changes to work or not.

 

Assuming you only have a few separate versions of the example.loc

file, you could create copies of the BLAST wrapper XML file which

use the specific *.loc file - and then restrict the tool by user?

 

In either case at a minimum you would have to maintain local

changes to the BLAST wrappers (and potentially changes to

Galaxy itself), which is not a good situation.

 

Peter

 

On Tue, Sep 12, 2017 at 1:41 PM, Laure QUINTRIC <Laure.Quintric@ifremer.fr> wrote:

Hello Galaxy users,

I try to figure out how I can display a select list into a galaxy tool according to the connected user.

I have several .loc files containing the paths for custom blast databases I have created for several users (user1.loc, user2.loc, and so on). I would like the blast tool to display the specific databases for the connected user (user1 or user2).

Any idea on how to proceed ?
Regards,
Laure


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-- 
Laure QUINTRIC
IDM-RIC - Cellule Bio-informatique
02 98 22 49 11