activate authentication through LDAP using the auth_conf file
Dear all I am looking into authentication through LDAP using the auth_conf file (we are currently using Apache to handle this). And it looks like, I am stuck at a very early step: I have started with a fresh checkout of release 16.04 (git clone -b master https://github.com/galaxyproject/galaxy.git) some modifications in galaxy.ini (host, port) and: auth_config_file = config/auth_conf.xml I start galaxy, and I try to login. In the log file I get: galaxy.webapps.galaxy.controllers.user DEBUG 2016-07-22 12:41:50,741 trans.app.config.auth_config_file: ./config/auth_conf.xml galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: email is hansrudolf.hotz@fmi.ch galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: .... This is what I expect...so far so good but further down, I get: galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,742 LDAP authenticate: could not load ldap module According to our sysadmin, "python-ldap" is installed on the machine (running Red Hat 7.2). But I assume, it has to be within the galaxy created virtual env, hasn't-it? Hence I have tried the following cd <galaxy-root> . .venv/bin/activate pip install python-ldap Is this the right way to do it? Doing this, I have been running into the following error: Modules/errors.h:8:18: fatal error: lber.h: No such file or directory #include "lber.h" So I guess I have to tell my sysadmin to install "openldap-devel in order to have 'lber.h' on the system? Or do I have to do something else? Thank you very much for your help Hans-Rudolf -- Hans-Rudolf Hotz, PhD Bioinformatics Support Friedrich Miescher Institute for Biomedical Research Maulbeerstrasse 66 4058 Basel/Switzerland
There's an open PR with a few build issues to build a Galaxy-side wheel for python-ldap here: https://github.com/galaxyproject/starforge/pull/97, and once that's resolved it should be automatically installed as a conditional dependency the usual Galaxy way. Until then, yeah, a workaround is to activate the virtualenv and pip install it. As you found out, to do that you'll need a few system packages -- I had to install both libldap2-dev and libsasl2-dev on an ubuntu box here to get it to build. Good luck! -Dannon On Fri, Jul 22, 2016 at 7:07 AM Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
Dear all
I am looking into authentication through LDAP using the auth_conf file (we are currently using Apache to handle this). And it looks like, I am stuck at a very early step:
I have started with a fresh checkout of release 16.04 (git clone -b master https://github.com/galaxyproject/galaxy.git)
some modifications in galaxy.ini (host, port) and:
auth_config_file = config/auth_conf.xml
I start galaxy, and I try to login. In the log file I get:
galaxy.webapps.galaxy.controllers.user DEBUG 2016-07-22 12:41:50,741 trans.app.config.auth_config_file: ./config/auth_conf.xml galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: email is hansrudolf.hotz@fmi.ch galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: ....
This is what I expect...so far so good
but further down, I get:
galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,742 LDAP authenticate: could not load ldap module
According to our sysadmin, "python-ldap" is installed on the machine (running Red Hat 7.2). But I assume, it has to be within the galaxy created virtual env, hasn't-it?
Hence I have tried the following
cd <galaxy-root> . .venv/bin/activate pip install python-ldap
Is this the right way to do it?
Doing this, I have been running into the following error:
Modules/errors.h:8:18: fatal error: lber.h: No such file or directory #include "lber.h"
So I guess I have to tell my sysadmin to install "openldap-devel in order to have 'lber.h' on the system?
Or do I have to do something else?
Thank you very much for your help Hans-Rudolf
--
Hans-Rudolf Hotz, PhD Bioinformatics Support
Friedrich Miescher Institute for Biomedical Research Maulbeerstrasse 66 4058 Basel/Switzerland ___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Hi Dannon Thank you very much for the quick reply: Our sysadmin installed: openldap-devel cyrus-sasl-devel on our (Red Hat 7.2) box. And, I can now run
. .venv/bin/activate pip install python-ldap
looks like it is working now....except, that I now have to figure out the correct settings in auth_conf.xml Regards, Hans-Rudolf On 07/22/2016 01:24 PM, Dannon Baker wrote:
There's an open PR with a few build issues to build a Galaxy-side wheel for python-ldap here: https://github.com/galaxyproject/starforge/pull/97, and once that's resolved it should be automatically installed as a conditional dependency the usual Galaxy way.
Until then, yeah, a workaround is to activate the virtualenv and pip install it. As you found out, to do that you'll need a few system packages -- I had to install both libldap2-dev and libsasl2-dev on an ubuntu box here to get it to build. Good luck!
-Dannon
On Fri, Jul 22, 2016 at 7:07 AM Hans-Rudolf Hotz <hrh@fmi.ch <mailto:hrh@fmi.ch>> wrote:
Dear all
I am looking into authentication through LDAP using the auth_conf file (we are currently using Apache to handle this). And it looks like, I am stuck at a very early step:
I have started with a fresh checkout of release 16.04 (git clone -b master https://github.com/galaxyproject/galaxy.git)
some modifications in galaxy.ini (host, port) and:
auth_config_file = config/auth_conf.xml
I start galaxy, and I try to login. In the log file I get:
galaxy.webapps.galaxy.controllers.user DEBUG 2016-07-22 12:41:50,741 trans.app.config.auth_config_file: ./config/auth_conf.xml galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: email is hansrudolf.hotz@fmi.ch <mailto:hansrudolf.hotz@fmi.ch> galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,741 LDAP authenticate: ....
This is what I expect...so far so good
but further down, I get:
galaxy.auth.providers.ldap_ad DEBUG 2016-07-22 12:41:50,742 LDAP authenticate: could not load ldap module
According to our sysadmin, "python-ldap" is installed on the machine (running Red Hat 7.2). But I assume, it has to be within the galaxy created virtual env, hasn't-it?
Hence I have tried the following
cd <galaxy-root> . .venv/bin/activate pip install python-ldap
Is this the right way to do it?
Doing this, I have been running into the following error:
Modules/errors.h:8:18: fatal error: lber.h: No such file or directory #include "lber.h"
So I guess I have to tell my sysadmin to install "openldap-devel in order to have 'lber.h' on the system?
Or do I have to do something else?
Thank you very much for your help Hans-Rudolf
--
Hans-Rudolf Hotz, PhD Bioinformatics Support
Friedrich Miescher Institute for Biomedical Research Maulbeerstrasse 66 4058 Basel/Switzerland ___________________________________________________________ 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: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
participants (2)
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Dannon Baker -
Hans-Rudolf Hotz