Hello, My name is Edgar Fernandez. I'm a sys. admin. at University of Montreal. I've been ask by a teacher to check out Galaxy. So I've installed locally on my computer galaxy (I'm running openSUSE x86_64 but I'll install it on SUSE Linux ia64). I've executed the run.sh script and I've somewhat successfully made the website work. I say somewhat because I have a couple of issues: 1. The website is not well displayed (refer to the attachment) 2. I've changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1 I was also wondering if there is a step by step tutorial to install all the dependencies? I'm finding myself overwhelmed with all the different dependencies. Cordialement / Regards, Edgar Fernandez 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
Edgar, I have been exploring similar outcomes and run into similar issues. I have recently found this post http://seqanswers.com/forums/showthread.php?t=23629 That I'm sure will prove helpful to you. This show how to get it working, including the dependancies and reference genomes .. advice on securing it is already on the galaxy websites. Another observation I would make is that the vast majority of help and advice you will find on the web relates to a galaxy environments built on Ubuntu, (12.04 LTS seem to be the version of choice). The instructions above will help you install it on SUSE but I found that having to translate the steps from Ubuntu to SUSE was occasionally problematic. Hope this helps. Regards, Alistair From: galaxy-dev-bounces@lists.bx.psu.edu [mailto:galaxy-dev-bounces@lists.bx.psu.edu] On Behalf Of fernandez Edgar Sent: Thursday, 12 December 2013 4:31 AM To: galaxy-dev@bx.psu.edu Subject: [galaxy-dev] galaxy local installation Hello, My name is Edgar Fernandez. I'm a sys. admin. at University of Montreal. I've been ask by a teacher to check out Galaxy. So I've installed locally on my computer galaxy (I'm running openSUSE x86_64 but I'll install it on SUSE Linux ia64). I've executed the run.sh script and I've somewhat successfully made the website work. I say somewhat because I have a couple of issues: 1. The website is not well displayed (refer to the attachment) 2. I've changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1 I was also wondering if there is a step by step tutorial to install all the dependencies? I'm finding myself overwhelmed with all the different dependencies. Cordialement / Regards, Edgar Fernandez 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
Hello, Thank you very much for the quick answers. There were very useful. Now I hope I'm not bothering you with a couple more questions. I read more thoroughly the documentation for installing a production environment and I was wondering: 1. Is it possible to run the web server through apache but not as a proxy server? a. If so what are the steps exactly? I only found the explanation for a proxy server... 2. Will this kind of installation will work on red hat 6 enterprise server ? Cordialement / Regards, Edgar Fernandez De : Alistair Chilcott [mailto:Alistair.Chilcott@utas.edu.au] Envoyé : December-11-13 10:10 PM À : fernandez Edgar; galaxy-dev@bx.psu.edu Objet : RE: galaxy local installation Edgar, I have been exploring similar outcomes and run into similar issues. I have recently found this post http://seqanswers.com/forums/showthread.php?t=23629 That I'm sure will prove helpful to you. This show how to get it working, including the dependancies and reference genomes .. advice on securing it is already on the galaxy websites. Another observation I would make is that the vast majority of help and advice you will find on the web relates to a galaxy environments built on Ubuntu, (12.04 LTS seem to be the version of choice). The instructions above will help you install it on SUSE but I found that having to translate the steps from Ubuntu to SUSE was occasionally problematic. Hope this helps. Regards, Alistair From: galaxy-dev-bounces@lists.bx.psu.edu<mailto:galaxy-dev-bounces@lists.bx.psu.edu> [mailto:galaxy-dev-bounces@lists.bx.psu.edu] On Behalf Of fernandez Edgar Sent: Thursday, 12 December 2013 4:31 AM To: galaxy-dev@bx.psu.edu<mailto:galaxy-dev@bx.psu.edu> Subject: [galaxy-dev] galaxy local installation Hello, My name is Edgar Fernandez. I'm a sys. admin. at University of Montreal. I've been ask by a teacher to check out Galaxy. So I've installed locally on my computer galaxy (I'm running openSUSE x86_64 but I'll install it on SUSE Linux ia64). I've executed the run.sh script and I've somewhat successfully made the website work. I say somewhat because I have a couple of issues: 1. The website is not well displayed (refer to the attachment) 2. I've changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1 I was also wondering if there is a step by step tutorial to install all the dependencies? I'm finding myself overwhelmed with all the different dependencies. Cordialement / Regards, Edgar Fernandez 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
Hello, Edgar - thanks for installing Galaxy! Regarding the screenshots: it looks like Galaxy's static css stylesheet isn't being loaded properly. Is this still occurring for you? Do you see anything when you try to go to http://localhost:8080/static/style/base.css in your browser? (You should see some text) Thanks, Carl On Thu, Dec 12, 2013 at 2:51 PM, fernandez Edgar < edgar.fernandez@umontreal.ca> wrote:
Hello,
Thank you very much for the quick answers.
There were very useful.
Now I hope I’m not bothering you with a couple more questions.
I read more thoroughly the documentation for installing a production environment and I was wondering:
1. Is it possible to run the web server through apache but not as a proxy server?
a. If so what are the steps exactly? I only found the explanation for a proxy server…
2. Will this kind of installation will work on red hat 6 enterprise server ?
Cordialement / Regards,
Edgar Fernandez
*De :* Alistair Chilcott [mailto:Alistair.Chilcott@utas.edu.au] *Envoyé :* December-11-13 10:10 PM *À :* fernandez Edgar; galaxy-dev@bx.psu.edu *Objet :* RE: galaxy local installation
Edgar,
I have been exploring similar outcomes and run into similar issues. I have recently found this post http://seqanswers.com/forums/showthread.php?t=23629
That I’m sure will prove helpful to you. This show how to get it working, including the dependancies and reference genomes .. advice on securing it is already on the galaxy websites.
Another observation I would make is that the vast majority of help and advice you will find on the web relates to a galaxy environments built on Ubuntu, (12.04 LTS seem to be the version of choice). The instructions above will help you install it on SUSE but I found that having to translate the steps from Ubuntu to SUSE was occasionally problematic.
Hope this helps.
Regards,
*Alistair *
*From:* galaxy-dev-bounces@lists.bx.psu.edu [ mailto:galaxy-dev-bounces@lists.bx.psu.edu<galaxy-dev-bounces@lists.bx.psu.edu>] *On Behalf Of *fernandez Edgar *Sent:* Thursday, 12 December 2013 4:31 AM *To:* galaxy-dev@bx.psu.edu *Subject:* [galaxy-dev] galaxy local installation
Hello,
My name is Edgar Fernandez. I’m a sys. admin. at University of Montreal.
I’ve been ask by a teacher to check out Galaxy.
So I’ve installed locally on my computer galaxy (I’m running openSUSE x86_64 but I’ll install it on SUSE Linux ia64).
I’ve executed the run.sh script and I’ve somewhat successfully made the website work.
I say somewhat because I have a couple of issues:
1. The website is not well displayed (refer to the attachment)
2. I’ve changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1
I was also wondering if there is a step by step tutorial to install all the dependencies?
I’m finding myself overwhelmed with all the different dependencies.
Cordialement / Regards,
*Edgar Fernandez*
System Administrator (Linux)
Direction Générale des Technologies de l'Information et de la Communication
( Bur. : *1-514-343-6111 <1-514-343-6111> poste 16568*
*Université de Montréal*
PAVILLON ROGER-GAUDRY, bureau X-218
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Hello Carl, The problem with the format of the website was resolved. However, I'm still wondering about the apache inquiry. Can it be done? Can I give apache the job of deploying the website instead of the run.sh script ? Furthermore, I do not want an apache proxy server, I just want apache to take care of the website Cordialement / Regards, Edgar Fernandez De : Carl Eberhard [mailto:carlfeberhard@gmail.com] Envoyé : December-12-13 5:25 PM À : fernandez Edgar Cc : Alistair Chilcott; galaxy-dev@bx.psu.edu Objet : Re: [galaxy-dev] galaxy local installation Hello, Edgar - thanks for installing Galaxy! Regarding the screenshots: it looks like Galaxy's static css stylesheet isn't being loaded properly. Is this still occurring for you? Do you see anything when you try to go to http://localhost:8080/static/style/base.css in your browser? (You should see some text) Thanks, Carl On Thu, Dec 12, 2013 at 2:51 PM, fernandez Edgar <edgar.fernandez@umontreal.ca<mailto:edgar.fernandez@umontreal.ca>> wrote: Hello, Thank you very much for the quick answers. There were very useful. Now I hope I'm not bothering you with a couple more questions. I read more thoroughly the documentation for installing a production environment and I was wondering: 1. Is it possible to run the web server through apache but not as a proxy server? a. If so what are the steps exactly? I only found the explanation for a proxy server... 2. Will this kind of installation will work on red hat 6 enterprise server ? Cordialement / Regards, Edgar Fernandez De : Alistair Chilcott [mailto:Alistair.Chilcott@utas.edu.au<mailto:Alistair.Chilcott@utas.edu.au>] Envoyé : December-11-13 10:10 PM À : fernandez Edgar; galaxy-dev@bx.psu.edu<mailto:galaxy-dev@bx.psu.edu> Objet : RE: galaxy local installation Edgar, I have been exploring similar outcomes and run into similar issues. I have recently found this post http://seqanswers.com/forums/showthread.php?t=23629 That I'm sure will prove helpful to you. This show how to get it working, including the dependancies and reference genomes .. advice on securing it is already on the galaxy websites. Another observation I would make is that the vast majority of help and advice you will find on the web relates to a galaxy environments built on Ubuntu, (12.04 LTS seem to be the version of choice). The instructions above will help you install it on SUSE but I found that having to translate the steps from Ubuntu to SUSE was occasionally problematic. Hope this helps. Regards, Alistair From: galaxy-dev-bounces@lists.bx.psu.edu<mailto:galaxy-dev-bounces@lists.bx.psu.edu> [mailto:galaxy-dev-bounces@lists.bx.psu.edu] On Behalf Of fernandez Edgar Sent: Thursday, 12 December 2013 4:31 AM To: galaxy-dev@bx.psu.edu<mailto:galaxy-dev@bx.psu.edu> Subject: [galaxy-dev] galaxy local installation Hello, My name is Edgar Fernandez. I'm a sys. admin. at University of Montreal. I've been ask by a teacher to check out Galaxy. So I've installed locally on my computer galaxy (I'm running openSUSE x86_64 but I'll install it on SUSE Linux ia64). I've executed the run.sh script and I've somewhat successfully made the website work. I say somewhat because I have a couple of issues: 1. The website is not well displayed (refer to the attachment) 2. I've changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1 I was also wondering if there is a step by step tutorial to install all the dependencies? I'm finding myself overwhelmed with all the different dependencies. Cordialement / Regards, Edgar Fernandez System Administrator (Linux) Direction Générale des Technologies de l'Information et de la Communication * Bur. : 1-514-343-6111<tel:1-514-343-6111> poste 16568 Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-218 ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Hi Edgar please find my comments within your text below: On 12/11/2013 06:30 PM, fernandez Edgar wrote:
Hello,
My name is Edgar Fernandez. I’m a sys. admin. at University of Montreal.
I’ve been ask by a teacher to check out Galaxy.
So I’ve installed locally on my computer galaxy (I’m running openSUSE x86_64 but I’ll install it on SUSE Linux ia64).
I’ve executed the run.sh script and I’ve somewhat successfully made the website work.
I say somewhat because I have a couple of issues:
1.The website is not well displayed (refer to the attachment)
just double checking: have you reloaded your page?
2.I’ve changed the value of host to 0.0.0.0 in the universe_wsgi.ini file and it still launches to 127.0.0.1
"127.0.0.1" seems correct to me, as this is the loopback address (ie 'localhost'.
I was also wondering if there is a step by step tutorial to install all the dependencies?
I’m finding myself overwhelmed with all the different dependencies.
well, I recommend, you first make a list of the tools you want to offer in Galaxy, and then figure out which dependencies you actually need. And then use these wiki pages: https://wiki.galaxyproject.org/Admin/Config/Tool%20Dependencies https://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies Regards, Hans-Rudolf
Cordialement / Regards,
**
*Edgar Fernandez*
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
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
participants (4)
-
Alistair Chilcott -
Carl Eberhard -
fernandez Edgar -
Hans-Rudolf Hotz