Help to install Sybil software


 
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# 1  
Old 03-01-2011
Help to install Sybil software

Hello everyone,

I'm currently trying to install a software for my job... Sadly, noone can help me with UNIX Smilie

I'm working on cygwin, with a proxy to access web (I dunno if these informations are needed)

Here is the link to my software : Sybil: Downloads

What I have been able to do :

- install Appache HTML (common directory, without PREFIX)
- install PostGRE

I didn't install PERL because as far as I remember, i think it's already installed.


And now, I'm lost......
I have downloaded and unpacked the sample thing, but I'm unable to create a database......



Any help would be welcome !
Carole

Last edited by zaxxon; 03-01-2011 at 12:19 PM.. Reason: added name of software into the subject
# 2  
Old 03-01-2011
Quote:
I didn't install PERL because as far as I remember, i think it's already installed.
You want to make sure it is. Maybe try issuing the command perl in your shell and/or check your software package management, whichever you are using (rpm? ...?).

The info page you linked says:
Quote:
... and that you are logged in as a user with CREATE DATABASE privileges. See the man page for createdb for additional help with this command.
Have you done this?
What error message do you get, when trying to create the database?
# 3  
Old 03-01-2011
Thank you for your help,

I have tried
Code:
per

: nothing happen, no error, nothing...

Here is the
Code:
createdb

error :
creatdb : could not connect to database postgres : could not connect to server : No such file or directory
Is the server running locally and accepting connections on Unix domain socket "/tmp/.s.PGSQL.5432" ?

I googled this error, but so far, I just found that I haven't configure PostgreSQL as it should be....

Thanks,
Carole
# 4  
Old 03-02-2011
Seems it is installed since it will be waiting for input. Issung perl -v will show you more info.

Quote:
I just found that I haven't configure PostgreSQL as it should be....
When it is installed, as you wrote, you should check if it is up and running.
ps -ef| grep -i postgre should show some processes up and running.
If it is up and running, I doubt createdb will just run without supplying an administrative user id and password when trying to connect.
There should be some logfiles being written by PostgreSQL, where it logs it's messages so you can get a clue maybe, what is not working (if it is not already running).
There should be plenty of guides on the web that explain, how to set up a PostgreSQL database.
# 5  
Old 03-02-2011
I confirm for perl, It's v5.10.1

I have no process of postgre. I'm gonna try to find out how to make it running
Thank you, at least I know now where is the bug.

I will be back later, if needed, with postgre working Smilie

Thanks,
Bye

---------- Post updated at 08:18 AM ---------- Previous update was at 03:22 AM ----------

I'm back...

Apache is working well (I see it with firefox)
Postgre is, I think, working well because I can create users, grant select and things like that,
Perl is installed as said before.


BUT

I'm unable to finish my installation, probably due to lack of knowledge...

What I have done so far : (from : Sybil: Downloads )

Step one : OK
Step two : OK, but... The original file has been replaced by another file wich seems to give the same results ?
Step theree :
- Unpack : OK
- Copy of directory : OK
- Edit of the first line of chado_demo/conf/sybil.conf : NO
===> I don't understand what I should write ????

- Edit of chado_demo/conf/demo.conf : YES, but
===> My postgreSQL user is sybil, as created before. But it have no password, so I leave the pasword field empty ('')

- Temporary images folder thing : OK, i think...
===> I create the folders /usr/local/apache2/tmp/sybil/ with chmod 777 and put the according path in the file (I can provide the file if needed)

- Shared URL path : Dunno...
===> I put the path as said (can provide the file too)





What I get when opening my browser on apache : the page try to load, without success...


Help, please !
# 6  
Old 03-02-2011
Quote:
Step two : OK, but... The original file has been replaced by another file wich seems to give the same results ?
There is many substeps in there, no clue which you talk about.

Quote:
Step theree :
- Unpack : OK
- Copy of directory : OK
- Edit of the first line of chado_demo/conf/sybil.conf : NO
===> I don't understand what I should write ????
The install doc says:
Quote:
Edit the first (uncommented) line in chado_demo/conf/Sybil.conf to reference the correct database. Initially this line reads as follows (in the format "schema:dbms:server/host"):ChadoMart:Postgres:localhost
So edit the listed file. The 1st line seems to point to the database. Since you created a database, iirc, you should place it's name there, so the application knows where to connect to. I am not able to download that stuff to have a look into it, but you might also get a grip on some PostgreSQL documentation to get familiar a bit with it.

Quote:
- Shared URL path : Dunno...
===> I put the path as said (can provide the file too)
I can't explain better than the doc already does:
Quote:
# The first <path>, under the location 'shared_htdocs' must be changed to the URL
# of the directory to which src/content/shared/htdocs was copied:
#
<location name='shared_htdocs'>
<path>/sybil_demo/</path>
To give you an overview how things work (usually)

You have a webserver. In this case this is an Apache 2. So it has some directory, htdocs for example, where the default stuff is in, it offers to the public via http. You can configure your Apache so that it offers more directories than just that etc. One of it should point at least to the place, where this Sybil software got the content it offers via web. Usually some directory with a index file (html, php, ...). This web interface is used to enter and retrieve data, when you work with this application (from the glimpse at it).
The data this web application receives is stored and supplied from the database, PostgreSQL in this case which sits in the "background".

Such applications work with a normal database user to connect to the database. The webserver has to point to the directory, where the web content is placed.

Maybe there is some other installation instructions in the downloaded archive. I guess I can't help you more from this point.
 
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