Re: [galaxy-dev] error and question from using galaxy kickstart

2018-10-12 Thread Rui Wang
Never mind folks, it was that I had an older version of nginx running with a different config file. After I added the upload module and restarted it, now I could simply go to the UI by just specifying the host name. But...how do I stop/start this still remains unclear. please help if you could.

[galaxy-dev] error and question from using galaxy kickstart

2018-10-12 Thread Rui Wang
Hi Folks, So I managed to ran through the ansible. What I did was to remove certain steps. For example, I don't need slurm-drmaa and docker, then I skipped the update cache. After these minor changes, it finished successfully(?) with an error message it ignored. Then I tried to access the UI, but

Re: [galaxy-dev] can't create user on a new instance

2018-10-12 Thread Rui Wang
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

Re: [galaxy-dev] can't create user on a new instance

2018-10-12 Thread Rui Wang
Hi Qiang, I looked at the postgres, here is the ownership info: bioinfoadmin=> \l List of databases Name |Owner | Encoding | Collate |Ctype| Access privileges

Re: [galaxy-dev] can't create user on a new instance

2018-10-12 Thread Rui Wang
Hi Marius, Thanks for your suggestion! I tried it with a different browser that never accessed galaxy, but it still gave me the same message. :-( Any thoughts? Cheers, Rui On Wed, Oct 10, 2018 at 11:25 PM Marius van den Beek wrote: > Hi Rui, > > The session token is used to prevent certain

[galaxy-dev] Error when trying to update tool vcf_to_alignment in testtoolshed

2018-10-12 Thread Peter van Heusden
Hi there I had a failed updated (network problem) of the sanbi-uwc tool vcf_to_alignment and now when I try and do an update I get: $ planemo shed_update --shed_target testtoolshed cd '/home/pvh/Documents/code/SANBI/tools-sanbi-uwc/tools/vcf_to_alignment' && git rev-parse HEAD cd

Re: [galaxy-dev] can't create user on a new instance

2018-10-12 Thread Rui Wang
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?