Have you tried creating the BLAST databases as files in your history (by running makeblastdb within Galaxy), and then importing them into a shared data library (which can then be configured with role based permissions)?
Peter On Wed, Sep 20, 2017 at 9:39 AM, SAPET, Frederic <frederic.sa...@biogemma.com> wrote: > 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.quint...@ifremer.fr] > Envoyé : mercredi 13 septembre 2017 13:54 > À : Peter Cock <p.j.a.c...@googlemail.com>; SAPET, Frederic > <frederic.sa...@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.sa...@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-boun...@lists.galaxyproject.org] De la > part de Peter Cock > Envoyé : mardi 12 septembre 2017 14:56 > À : Laure QUINTRIC <laure.quint...@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.quint...@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 > > > ___________________________________________________________ > 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/ > > > > > > > > -- > > Laure QUINTRIC > > IDM-RIC - Cellule Bio-informatique > > 02 98 22 49 11 ___________________________________________________________ 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/
