Re: [galaxy-dev] Multiple web servers and handlers Galaxy failed

Hi Makis, I recently implemented something like this using uWSGI with a nginx frontend. Would you consider using uWSGI instead of your current approach? On 4 Dec 2015 09:40, "Makis Ladoukakis" wrote: > Sorry for bumping my own question but I didn't get any replies. Has

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hi, I now learned that R-3.2.2 binaries for Mac OS X are available (https://cran.r-project.org/bin/macosx/) - could that be a potential help for R-related problems in galaxy on Mac OS X? Cheers, Hans ___ Please keep all replies on the

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hello Hans, I'm not sure if it would help to use the pre-compiled binaries, as you would still need some of the underlying libraries for building R packages. We're not far from having this fixed ... there is a newer revision of R on the main toolshed, that nevertheless will (probably) fail

Re: [galaxy-dev] wolfpsort

Hi Olivier, First of all, let's double check what kind of machine you are running, in case that gives us some clues: $ arch $ uname -a Let's double check which Perl you have, $ which perl $ perl -v $ /usr/bin/perl -v NOTE: You have to pipe the input file into this tool, it does not take the

Re: [galaxy-dev] wolfpsort

On Fri, Dec 4, 2015 at 11:19 AM, Olivier CLAUDE wrote: > Hi Peter, > Thanks for all. > > ... > >> >> What happens if you try to do this: >> >> $ cd /path/you/put/wolfpsort >> $ ./runWolfPsortSummary animal >> <~/repositories/pico_galaxy/test-data/four_human_proteins.fasta >>

Re: [galaxy-dev] Multiple web servers and handlers Galaxy failed

It is uwsgi that I am trying but with apache. Could you let me know what changes you made to the configuration of Galaxy? Thank you, Makis Date: Fri, 4 Dec 2015 10:01:56 +0200 Subject: Re: [galaxy-dev] Multiple web servers and handlers Galaxy failed From: p...@sanbi.ac.za To:

Re: [galaxy-dev] Multiple web servers and handlers Galaxy failed

I've written up my experiences in a blog: http://pvh.wp.sanbi.ac.za/2015/12/04/faster-galaxy-with-uwsgi/ The only Galaxy side changes were the ones mentioned on the Scaling page. The Bad Gateway message means that Apache can't talk to the uWSGI so what is the state of uWSGI? Are you using

Re: [galaxy-dev] wolfpsort

On Fri, Dec 4, 2015 at 2:16 PM, Peter Cock wrote: > On Fri, Dec 4, 2015 at 12:59 PM, Olivier CLAUDE wrote: >> Ok i did not saw it. >> I runned it with ./ and it worked fine. It gave me the same answer you gave >> me earlier. >> >> Olivier > >

Re: [galaxy-dev] wolfpsort

Ok i did not saw it. I runned it with ./ and it worked fine. It gave me the same answer you gave me earlier. Olivier -Message d'origine- De : Peter Cock [mailto:p.j.a.c...@googlemail.com] Envoyé : vendredi 4 décembre 2015 12:40 À : Olivier CLAUDE Cc :

Re: [galaxy-dev] wolfpsort

On Fri, Dec 4, 2015 at 12:59 PM, Olivier CLAUDE wrote: > Ok i did not saw it. > I runned it with ./ and it worked fine. It gave me the same answer you gave > me earlier. > > Olivier Excellent :) So, this matches what I found - as long as I changed to the Wolf PSORT

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Hello Hans (and other OS X users), I hope that the last remaining problem should be fixed now. There is a new revision of package_r_3_2_1 and package_cairo_1_12_14 on the toolshed. Make sure you get package_cairo_1_12_14 first when you upgrade. The underlying problem was that cairo was missing

Re: [galaxy-dev] wolfpsort

Everything is working fine now. I experienced problems : I forgot to delete some files this made a conflict. If anybody needs, the python script has to be in the bin folder of the computer not in the HOME folder (I've made a mistake with the tilde) Thanks again, normally I will not bother you

Re: [galaxy-dev] gcc error during pixman-0.32.4 installation on Mac OS X 10.11

Awesome Marius, thank you very much for looking into this! M. On Fri, Dec 4, 2015 at 12:30 PM Marius van den Beek wrote: > Hello Hans (and other OS X users), > > I hope that the last remaining problem should be fixed now. > There is a new revision of package_r_3_2_1 and

Re: [galaxy-dev] Multiple web servers and handlers Galaxy failed

Hi Makis, as a small pointer, please have a look at the ansible playrole we provide: https://github.com/galaxyproject/ansible-galaxy-extras or the Galaxy Docker Image: https://github.com/bgruening/docker-galaxy-stable all steps are described here and can be reused. Cheers, Bjoern Am

[galaxy-dev] How does one create a viewer for a new datatype to display a webpage if eyeball is clicked?

Good afternoon, I am trying create a display module for a special binary datatype. When someone requests to view the output file in the History using the eyeball it will kick off my code to create an HTML display in the Galaxy center section. I am looking at binary.py but I am not sure if