ufficent... no ?
>>
>> Cheers,
>>
>> Yvan
>>
>>
>> - Mail d'origine -
>> De: Hans-Rudolf Hotz
>> À: Yvan Le Bras , Md. Rezaul Karim <
>> rezaul.ka...@insight-centre.org>, Mohamed Kassam ,
>> Timothée VIRGOULAY
Dear all,
Could you please let me know if there a webDAV client in Galaxy.
I would to implment a tool using the webDav client to let Galaxy
communicate with another database to bring data from a database into
Galaxy server.
Best regards,
Mohamed
Hi Fred,
Thanks a lot,, we are also intereted on that solution for our private
database.
Hope that we have any good news soon.
Best regards,
Mohamed
2017-09-21 16:01 GMT+02:00 SAPET, Frederic :
> Hi,
>
>
>
> I have created 3 issues!
>
>
>
> Use different .loc files depending on user's paramet
Dear all,
We would like to test Galaxy on the cloud, Did someone had any experience
with the Cloud Azure Microsoft ?
Best regards,
Mohamed
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in your mail client. To manage your s
Dear all,
I made a tool that is doing analysis every two days and send me a
notification by email when the analyis is completed.
I would like to know if I can run this kind of job and how to integrate
this tool in Galaxy tools panel in Galaxy ? If someone has this experience
can help me.
Than
; it...
>>
>> Wishing you a good week end.
>>
>> Cheers,
>>
>> Yvan
>>
>>
>> Message d'origine
>> De : "Md. Rezaul Karim"
>> Date : 26/05/2017 15:45 (GMT+01:00)
>> À : 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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ot;/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py",
> line 66, in _ldap_function_call
> result = func(*args,**kwargs)
> ValueError: option error
>
>
> Any idea ?
>
> Thanks,
>
> Mohamed
>
> 2017-02-24 9:11 GMT+01:00 Mohamed Kassam
p_function_call(None,_ldap.set_option,option,invalue)
File
"/home/galaxy/galaxy-dist/.venv/lib/python2.7/site-packages/ldap/functions.py",
line 66, in _ldap_function_call
result = func(*args,**kwargs)
ValueError: option error
Any idea ?
Thanks,
Mohamed
2017-02-24 9:11 GMT+01:0
Dear all,
I have migrate my old version of Galaxy to the new release V17.01, And I am
facing this error when I am running run.sh, any clue ?
Installing collected packages: python-ldap
Found existing installation: python-ldap 2.4.17
DEPRECATION: Uninstalling a distutils installed project (py
user. However, since other Galaxy
> tools use *.loc files, someone else may have some ideas.
>
> You might be able to try using a BLAST database in a
> shared data library (Galaxy has a role based permissions
> system you could use), but the user would first have to
> import the data
Dear all,
I would like to know if it is possible to put permission on the macro.xml
for ncbi-blast + database.
For example if I want to show the db to one user and not to all.
Best reagards,
Mohamed
___
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Dear all,
I would like to send as a parameter the name of the user (either user email
or username).
I tried in my xml file the option
But I have in results
X__user_email__
Any clue ?
Thanks in advance,
Mohamed
___
Please kee
using?
> - what LDAP server are you using?
> - how did you configured LDAP auth? remote user or using
> config/auth_conf.xml
>
> Cheers,
> Nicola
>
>
> On 15/09/16 18:27, Mohamed Kassam wrote:
>
>> Dear all
>> I have an issue today, with authentication in o
Dear all
I have an issue today, with authentication in our galaxy instance.
I restarted our instance and now new user can not be auto register
automatically.
I am using the ldap of our institute, old user can login but when a new user
wants to login it says user or email invalid however I saw on
Dear all,
I've created different pages in html and php, and I put them in apache by
changing the port.
Now I changed the SSL certifcate and I moved galaxy web adress to https.
However my other page are not recognized because they are still in http.
Do you know where I can put my php and html pages
Dear all,
I have create a tool on javascript and html.
I tried to use the xml tool from ucsc and flymine.
I would like to know if it is possible to replace
http://www.flymine.org"; check_values="false" method="get">
go to Flymine server $GALAXY_URL
By something like onclick
Dear all,
I created a tool in html +pytho, like for the UCSC. My tool is doing a
process then return a confirmation of the success of the job.
I 'm blocked at the point that I saw that I have to put method="get" but
how to tell to Galaxy to run the job and submit on my history the process.
Is t
Dear all,
I would like to add an url on my help section of a tool on my xml file
however it does not work,
https://10.38.14.14/api/fs/dir.html?path=/home/user/&user=galaxy
I think it is the &user=galaxy doesn't work in the xml .
Mohamed
_
Dear Bjoern,
I think it should work for me.
I will contatct you to see how it can work for my purpose.
Thank you in advance,
Mohamed
2016-07-28 20:59 GMT+02:00 Björn Grüning :
> Hi Steve & Mohammed,
>
> I'm working on a user-profile extension to get credentials for a user,
> but this will take
Hello Katherine,
You will save a lot the work some people are doing now.
You are not alone to face the same problem. We discussed last time about
that, iRODS, etc...
I think it is a good idea to emcrypt the password before it enters the
database. That Galaxy don't keep any trace of user name or
s and handled somewhere
> else in Galaxy.
>
> Steve
>
>
>
> —
> Department of Computing, Macquarie University
> http://web.science.mq.edu.au/~cassidy
>
> On 28 Jul 2016, at 6:04 PM, Mohamed Kassam wrote:
>
> Hi Steve,
> there is another solution is that th
pository to query, get data or add new data.
>
> At the moment, I need the token to be a data item in the history, but it
> would be better if it were part of the user session in Galaxy.
>
> Steve
>
>
> —
> Department of Computing, Macquarie University
> http://web.scien
Hello Cassidy,
I have the same problem like you because I need the user credential to
access to an external tools.
I tried the user session variables available in the tool
xml file: __user__, __user_email__, __user_name__ and __user_id__. I t
works perfectly I don't know if you need the password,
Dear all,
I did not want to open a new subject, because I have the same problem.
I tried to follow what is was described here
https://github.com/galaxyproject/galaxy/pull/393, I add the lines a
described in the github, but when I am clicking to my tool I got
[image: Images intégrées 1]
And if i
Dear all,
I would like to know if there is ana api which I can get the password and
username of a user directly for my python code. I would like to send these
infromation to an another server for connection.
Thanks in advance
___
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story details within Galaxy.
>
> Peter
>
>
> On Fri, Jul 15, 2016 at 9:28 AM, Mohamed Kassam
> wrote:
> > Dear all,
> > I would like to hide when typing a password in a tool I develloped.
> > Do you have the tag I have to use, I tried type=&
Dear all,
I would like to hide when typing a password in a tool I develloped.
Do you have the tag I have to use, I tried type="password" but it does not
work.
Thanks in advance,
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in
Nicola Soranzo :
> Hi Mohamed,
> you need to install python-ldap in your Python virtual environment, e.g.:
>
> $ . .venv/bin/activate
> (.venv)$ pip install python-ldap
>
> Cheers,
> Nicola
>
> Mohamed Kassam ha scritto
>
>
> Dear all,
> I updated
Dear all,
I updated my galaxy this mornig to the release 16_01.
But now my LDAP connection is nort working I have this error
galaxy.auth.providers.ldap_ad DEBUG 2016-05-17 15:23:38,681 LDAP
authenticate: could not load ldap module
Do you have any idea, I checked the auth_conf.xml and it is still
ed to
> https://github.com/galaxyproject/galaxy/blob/dev/client/galaxy/scripts/layout/masthead.js
> .
>
> On Tue, May 17, 2016 at 4:12 AM, Mohamed Kassam
> wrote:
>
>> Dear all,
>> I would like to know which file replaced the galaxy.masthead.js file.
>> Because I was p
Dear all,
I would like to know which file replaced the galaxy.masthead.js file.
Because I was putting in the banner the name and the logo of our local
galaxy.
Best regards,
Mohamed
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g 2016
> > June 7-9 -- Chapel Hill, NC -- https://irods.org/ugm2016
> >
> >
> >> Message: 2
> >> Date: Wed, 9 Mar 2016 01:24:24 +
> >> From: "Kandalaft, Iyad"
> >> To: James Taylor , Mohamed Kassam
> >>
> >> Cc:
Thank you for your message,
I sent to you Mikael an email if you can semd your pdf.
It is a good idea to see if in The galaxy dev team they can integrate iRODS
for the next release.
Best regards,
Mohamed
2016-03-09 12:01 GMT+01:00 Mikael Loaec :
> Hi,
>
> @URGI, we have sucessfully tested con
Dear all,
I would like to use our interlan iRODs to pull data.
I searched and i find that there is an object store for that.
How it works ? DO I need to configure something else ?
Thanks in advance,
Mohamed
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Dear all,
I would like to use our interlan iRODs to pull data.
I searched and i find that there is an object store for that.
How it works ? DO I need to configure something else ?
Thanks in advance,
Mohamed
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