I think I am nearly there with the auth_ldap, but when I attempt to access the site I get the following message:
"Access to Galaxy is denied
Galaxy is configured to authenticate users via an external method (such as HTTP authentication in Apache), but a username was not provided by the upstream (proxy) server. This is generally due to a misconfiguration in the upstream server.
Please contact your local Galaxy administrator."
I am using a service account in the configuration and wonder if this could be a permissions issue.
Thanks, Iry
On 9/18/13 10:10 AM, "Maddhi, Srinivas" srinivas-maddhi@uiowa.edu wrote:
Another galaxy + nginx + LDAP user here.
Iry,
I have it working as well with help from Galaxy Wiki docs and mailing list archives. The configure options that were used to compile nginx: "--add-module=../nginx-auth-ldap.20130823 --add-module=../nginx-upload-module-2.2 --with-pcre=../pcre-8.33 --with-http_ssl_module --conf-path=/usr/local/etc/nginx/nginx.conf --pid-path=/var/run/nginx.pid --error-log-path=/var/log/nginx/error.log --http-log-path=/var/log/nginx/access.log --user=galaxy-qa --group=galaxy-qa --with-debug"
I also supplied the "proxy_set_header X-URL-SCHEME https;" directive in the "/" and "/api" location blocks.
Good luck!
John,
Thanks for the detailed response to Iry's question, and docs for this setup.
Related question: Are you aware of a mechanism that would transmit LDAP attributes, say "mail" for example, to downstream apps ? I have that question in to the author of that module and haven't heard back.
The need for that: in my use case, the email address associated with remote_user is not "remote_user@example.com" but rather "first_name-last_name@example.com". As such, I am stuck, less than ideally, with requiring users to use "first_name-last_name@example.com" as their username instead of just "short_name". Our previous solution to this was to hack galaxy-dist/lib/galaxy/web/framework/__init__.py which I would like to avoid for ease of maintainability purposes.
Thank you.
-----Original Message----- From: John Chilton chilton@msi.umn.edu Date: Wednesday, September 18, 2013 7:49 AM To: Iry Witham Iry.Witham@jax.org Cc: "galaxy-dev@lists.bx.psu.edu" galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] configuring auth_ldap for galaxy
You have to compile nginx with the auth-ldap module. Have you done this? I am doing using CloudBioLinux and here is how it is being done in that context, but it would probably be easier just doing it by hand:
https://github.com/chapmanb/cloudbiolinux/blob/master/cloudbio/galaxy/__i n it__.py
I have posted my information on configuring CloudMan's nginx for LDAP auth, but you can ignore the CloudMan stuff:
https://production-galaxy-instances-with-cloudman-and-cloudbiolinux.readt h edocs.org/en/latest/#configuring-nginx-conf
http {
auth_ldap_url ldap://ldap.example.com/dc=example,dc=com?uid?sub?(objectClass=person); #auth_ldap_binddn cn=nginx,ou=service,dc=example,dc=com; #auth_ldap_binddn_passwd mYsUperPas55W0Rd #auth_ldap_group_attribute uniquemember; # default 'member' #auth_ldap_group_attribute_is_dn on; # default on
...
}
location / { auth_ldap_require valid_user; auth_ldap "LDAP Auth Source Description"; proxy_set_header REMOTE_USER $remote_user;
proxy_pass http://galaxy_app; proxy_set_header X-Forwarded-Host $host; proxy_set_header X-Forwarded-For $proxy_add_x_forwarded_for; proxy_set_header X-URL-SCHEME https;
... }
# For API access, set REMOTE_USER if available so Galaxy # session based requests are let through, if REMOTE_USER is not # available pass the request through and let Galaxy determine # if a key is present and valid. location /api { proxy_set_header REMOTE_USER $remote_user; proxy_pass http://galaxy_app; proxy_set_header X-Forwarded-Host $host; proxy_set_header X-Forwarded-For $proxy_add_x_forwarded_for; }
-John
On Wed, Sep 18, 2013 at 7:37 AM, Iry Witham Iry.Witham@jax.org wrote:
Hi Team,
Has anyone had any experience with setting up auth_ldap for nginx? I am attempting to make this work, but nginx fails to start with the following message:
Starting nginx nginx: [emerg] unknown directive "auth_ldap_url" in /usr/local/nginx/conf/nginx.conf:48 startproc: exit status of parent of /usr/local/nginx/sbin/nginx: 1
failed
Any help would be appreciated.
Thanks,
Iry Witham
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