Hey Folks, When I used the kickstart, I hit this always: TASK [galaxyprojectdotorg.galaxy-os : Update APT cache] ************************************************************************* [WARNING]: sftp transfer mechanism failed on [localhost]. Use ANSIBLE_DEBUG=1 to see detailed information fatal: [localhost]: FAILED! => {"changed": false, "failed": true, "msg": "Failed to update apt cache."} Have you seen this before? If you do, please give me a hand. :) Thanks, Rui On Fri, Oct 12, 2018 at 2:17 PM Rui Wang <ruiwang.sz@gmail.com> wrote:
Hi Qiang,
Let me try that. I think the postgres might be contaminated by the attempt to use kickstart. During that it modify the config of postgres permissions and it took me a while to clean those to get postgres working again(which may or may not really clean the change completely).
I'll get back to you on this. Also I'll let you know my attempts on the kickstart. The problem was with the updater. :-(
Thanks, Rui
On Fri, Oct 12, 2018 at 12:23 PM Qiang Gu <guq@ohsu.edu> wrote:
Hi Rui,
Galaxy will use the default sqlite if you comment out the db setting the config file (`config/galaxy.yml`). You mean the sqlite works the same as the postgresql, which doesn't allow you to create users? If that's the case, try `git clone` a new galaxy repo, in the galaxy folder, `git checkout remotes/original/release_18.05`, `git checkout -b release_18.05`, `./run.sh`. Basically, I would like to make the sqlite working first, then switch to postgresql. The above-mentioned steps may help identify the hidden issue.
Good luck!
-Qiang
------------------------------ *From:* Rui Wang [ruiwang.sz@gmail.com] *Sent:* Friday, October 12, 2018 1:01 AM *To:* Qiang Gu *Cc:* galaxy-dev@lists.galaxyproject.org *Subject:* Re: [galaxy-dev] can't create user on a new instance
Hi Qiang,
Thanks so much for the email. The default sqlite seems to be the same. I spent some time with the kickstart. That would be fantastic if it works...sadly it failed on me. :-( Let me make some more effort on that. Btw, do you have a better version of the instructions for the kickstart?
Cheers, Rui
On Wed, Oct 10, 2018 at 10:12 PM Qiang Gu <guq@ohsu.edu> wrote:
Hi Rui,
Does the default database sqlite work for you? I guess there is certain mis-configuration in your postgresql settings or certain element in the config/galaxy.yml file is broken. Try to enter your postgresql database in terminal using the same login info and create a table to make sure you have proper privileges. Alternatively, using GalaxyKickStart ( https://github.com/ARTbio/GalaxyKickStart) to deploy a server isn't that difficult and a postgresql database comes with it by default. Good luck!
Thanks,
-Qiang
------------------------------ *From:* galaxy-dev [galaxy-dev-bounces@lists.galaxyproject.org] on behalf of Rui Wang [ruiwang.sz@gmail.com] *Sent:* Wednesday, October 10, 2018 9:30 PM *To:* galaxy-dev@lists.galaxyproject.org *Subject:* Re: [galaxy-dev] can't create user on a new instance
Hi Folks,
I still could not create new user account with the same error message. Has anyone happened to see this before?
Cheers, Rui
On Tue, Oct 9, 2018 at 5:48 PM Rui Wang <ruiwang.sz@gmail.com> wrote:
Hey Folks,
I just installed a new 18.05 instance with a new postgresql db created. However, the UI doesn't allow me to create any user. After I provided all input information, it says
galaxy.web.framework.webapp WARNING 2018-10-09 17:28:35,735 [p:32925,w:1,m:0] [uWSGIWorker1Core2] Wrong session token found, denying request
in the server log. Btw, I enabled 'allow to create user' and admin user list is empty.
I looked into it, and it's a function in lib/galaxy/web/framework/webapp.py:
def check_csrf_token(self): session_csrf_token = self.request.params.get("session_csrf_token", None) problem = False if not session_csrf_token: log.warning("No session_csrf_token set, denying request.") problem = True elif session_csrf_token != self.session_csrf_token: log.warning("Wrong session token found, denying request.") problem = True
if problem: return self.show_warn_message("Failed to authorize action.")
Could someone give me a hand? :-)
Cheers, Rui