you specify username, password and email in the body (payload) of the POST
as Key:Value pairs.
Code from the API method: (
username = payload[ 'username' ] email = payload[ 'email' ] password =
payload[ 'password' ]
There are also other conditions that need to be fulfilled (e.g. user
creation has to be turned on in the configuration) - you will find these
when you look at the source code of the method (because the documentation
is not perfect yet, sorry).
On Sun, Dec 29, 2013 at 11:22 PM, xlwang <xlwang_0903(a)163.com> wrote:
> I still have some confusion.
> post /api/users , when i use postman, it seems like this:
> No other parameters? How to confirm the new user's information?Such as
> user name, password.
> Can you give me a example please?Thank you!
> At 2013-12-30 06:04:15,"Martin Čech" <marten(a)bx.psu.edu> wrote:
> to create a user through API you send a POST request to /api/users
> More information about User API here:
> On Fri, Dec 27, 2013 at 5:11 AM, xlwang <xlwang_0903(a)163.com> wrote:
>> I want to create users through Galaxy API.For example, I can get users
>> information through url like this(use postman):
>> But how to create a user?
>> Please keep all replies on the list by using "reply all"
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>> To search Galaxy mailing lists use the unified search at:
Hi - I have a tools that generates a tab-delimited text file as output.
when I click the eye icon to view the data, all the fields are compressed
as if there were no tabs. If I expand the history view, the little preview
window shows the contents as tabbed. I've verified that the spaces are
indeed '\t' tab characters. Why would Galaxy not display this file as a
So someone asked me to install the package Prokka on Galaxy.
I did and everything went well!
However, the following error comes up, when they try to work with Prokka:
Fatal error: Exit code 2 ()
[tbl2asn] This copy of tbl2asn is more than a year old. Please download the current version.
[20:20:53] Could not run command: tbl2asn -V b -a r10k -l paired-ends -M n -N 1 -y 'Annotated using prokka 1.10 from http://www.vicbioinformatics.com' -Z outdir\/prokka\.err -i outdir\/prokka\.fsa 2> /dev/null
According to a google search, there is very little on this error.
And it has been around for a while but I didn't find a posted solution.
Cordialement / Regards,
System Administrator (Linux)
Direction Générale des Technologies de l'Information et de la Communication
* Bur. : 1-514-343-6111 poste 16568
Université de Montréal
PAVILLON ROGER-GAUDRY, bureau X-218
As you probably know, the central BioMart server is currently
unavailable (see: http://www.biomart.org/notice.html). Hence, the "Get
Data -> BioMart Central server" tool in our local Galaxy installation
does not work anymore - well, this is also the case on usegalaxy.org.
We can easily switch the tool to point to a different Mart server, i.e.:
Change: <inputs action="http://www.biomart.org/biomart/martview" ....
to: <inputs action="http://www.ebi.ac.uk/uniprot/biomart/martview" ....
However, we would like to switch to the ensembl Mart server:
It looks like the ensembl Mart server is nowadays embedded in the
ensembl web site, and the requests are not send to Galaxy, but end up on
the ensembl web page, where they cause a "Error 404 - Page not found".
Unfortunately, I am not that savvy about the inner works of the ensembl
web site anymore ;)
Has anyone else looked into this problem and found already a solution?
Thank you very much for any help
I am truly sorry to bother everyone again but i still experience problems:
This time with atlas 3.10 owned by iuc
At the beginning without modifying anything, the error log was saying " mkdir : cannot create directory ATLAS/build : No such file or directory"
After that I tried to modify the tool_dependencies.xml :
L48 : "mkdir ATLAS/build &&" changed to "mkdir build &&"
The error is "/bin/sh: 4 : cannot open /host/static_full_blas_lapack.diff: No such file"
I can see it, if I go with a web browser, but I cannot download it manually nor click on it without crashing the web browser.
M Olivier CLAUDE- PhD Student
INSERM/UPMC UMRS ICAN 1166 – Equipe 2
Faculté de médecine Pitié-Salpêtrière
91, bld de l'Hôpital - 3ème étage - Porte 305
75013 Paris - FRANCE
is there any option to not remove files that has been imported to Galaxy
from FTP directory and to not remove files that haven't been imported
since 3 days?
Zuzanna K. Filutowska, HPC Systems Administrator
Poznan Supercomputing and Networking Center
Institute of Bioorganic Chemistry Polish Academy of Sciences
Seize the day boys! Make your lifes extraordinary! --John Keating
I started getting the following error whenever I try to load a file into Galaxy local.
Traceback (most recent call last):
File "/usr/local/galaxy/galaxy-dist/tools/data_source/upload.py", line 8, in <module>
from galaxy import eggs
ImportError: cannot import name eggs
I will appreciate if someone can tell me what could happen to cause such issue and how to resolve it.
I am trying to setup a Galaxy instance for a multi-user production environment and I tried to follow the instructions here:
but when I tried to start my galaxy instance (GALAXY_RUN_ALL=1 sh run.sh --daemon) I got the following error in my browser:Bad Gateway
The proxy server received an invalid
response from an upstream server.
I don't get any errors from the paster.log files so I am guessing the error is somewhere in my apache configuration although I can't see where it could be.
Has anyone encountered this problem before?
P.S. My apache configuration is as follows:
I added that to my apache httpd.conf file:
#RewriteRule ^/galaxy(.*) http://localhost:8091$1 [P]
RewriteRule ^/galaxy$ /galaxy/ [R]
RewriteRule ^/galaxy/static/style/(.*) /home/galaxy/galaxy/static/june_2007_style/blue/$1 [L]
RewriteRule ^/galaxy/static/scripts/(.*) /home/galaxy/galaxy/static/scripts/packed/$1 [L]
RewriteRule ^/galaxy/static/(.*) /home/galaxy/galaxy/static/$1 [L]
RewriteRule ^/galaxy/favicon.ico /home/galaxy/galaxy/static/favicon.ico [L]
RewriteRule ^/galaxy/robots.txt /home/galaxy/galaxy/static/robots.txt [L]
LoadModule uwsgi_module /etc/httpd/modules/mod_uwsgi.so
I am also attaching my job_conf.xml and galaxy.ini file.