Hi Turner,
In universe_wsgi.ini, set 'use_pbkdf2 = False' in the '[app:main]' section.
You probably do not need to make any changes to PostgreSQL's configuration
unless your database is running on a different host from your Galaxy server.
For proftpd.conf, the most important bits are these:
# Do not authenticate against real (system) usersAuthPAM
off# Set up mod_sql_password - Galaxy passwords are stored
as hex-encoded SHA1SQLPasswordEngine
onSQLPasswordEncoding hex# Set up mod_sql to authenticate
against the Galaxy databaseSQLEngine
onSQLBackend postgresSQLConnectInfo
galax...@dbserver.example.org dbuser dbpasswordSQLAuthTypes
SHA1SQLAuthenticate users# An empty
directory in case chroot failsSQLDefaultHomedir
/var/opt/local/proftpd# Define a custom query for lookup that returns
a passwd-like entry. UID and GID should match your Galaxy
user.SQLUserInfo
custom:/LookupGalaxyUserSQLNamedQuery
LookupGalaxyUser SELECT
"email,password,'512','512','/home/nate/galaxy_dist/database/ftp/%U','/bin/bash'
FROM galaxy_user WHERE email='%U'"
In your instance you most likely want:
SQLConnectInfo galaxydb@/var/run/postgresql galaxyftp galaxyftpUsersPassword
In SQLNamedQuery, make sure that you change the first 512 to the uid of the
system user id your Galaxy server is running as, and the second 512 to the
system group id. These can be obtained with `id -u` and `id -g` on the
command line. /home/nate/galaxy_dist/database/ftp should be changed to the
directory on your server in which files uploaded via FTP should be placed
(this location is not permanent - the files themselves will be copied into
the Galaxy directory).
Hope this helps,
--nate
On Thu, Feb 20, 2014 at 11:33 PM, Conrad, Turner Allen <
conr...@livemail.uthscsa.edu> wrote:
> Thanks, Nate! Got it to run after playing with the postgresql url, table
> was created, and I began populating it with my admin account. I also
> prepared the database for ftp by creating a user for lookup. As for
> proftpd, I have it installed, but am not quite sure what do now. How must I
> edit the postgresql and proftpd configuration files before changing the
> galaxy ini?
>
> ----------------------------------------------------
> 1LT Turner A Conrad, USAR IRR
> Ph.D. Candidate
> Graduate School of Biomedical Sciences
>
> MED 4.017V
> Dept. of Microbiology and Immunology
> 7703 Floyd Curl Drive
> San Antonio, TX 78229
>
> Email: conr...@livemail.uthscsa.edu
> Office: (210) 567-3947
> Cell: (210) 954-0893
>
> On Feb 20, 2014 10:23 PM, Nate Coraor <n...@bx.psu.edu> wrote:
> >
> > Hi Turner,
> >
> > You should be connecting to the database that Galaxy is using, specified
> in the database_connection option in universe_wsgi.ini. If you have not yet
> started Galaxy at least once, then the tables will not have been created
> yet. Once you run Galaxy and the tables have been created, you should be
> able to connect to that database (galaxydb, or whatever you have set in
> database_connection) with psql and the GRANT should succeed.
> >
> > --nate
> >
> >
> > On Thu, Feb 20, 2014 at 9:49 AM, Conrad, Turner Allen <
> conr...@livemail.uthscsa.edu> wrote:
> >>
> >> Hi,
> >>
> >>
> >> I'm not experienced with postgres and ftp and am thus having
> difficulties setting up an ftp server on my local Galaxy instance, but it
> is essential as our files are all over 2GB. The admin support page (
> https://wiki.galaxyproject.org/Admin/Config/Upload%20via%20FTP) is a
> little fuzzy on the details. I'm currently running the server out of Ubuntu
> 13.10 desktop both physically and via SSH. So far, I've created a
> local account postgres with a psql database galaxydb and user
> galaxyftp, but I can't figure out whether the galaxy_user table is supposed
> to exist, needs to be created, nor how to add this information to the
> database_connection option in universe_wsgi.ini. ALTER ROLE has been
> completed successfully, but I get the error ERROR: relation "galaxy_user"
> does not exist upon attempting GRANT SELECT ON. Is there a simple
> explanation of how to complete this task and get the proftpd server up and
> running for Ubuntu? Please assume proftpd is installed, but not configured,
> the database is in the state described above, and I am starting with sudo
> su - postgres followed by psql galaxydb .
> >>
> >>
> >>
> >> Turner Conrad
> >> UTHSCSA
> >>
> >> ___________________________________________________________
> >> 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/
> >
> >
>
___________________________________________________________
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/
