using Bioblend with external authentication
Hi We would like to start using BioBlend on our production servers (which use external authentication) as well. We have changed the apache conf file by adding <Location "/galaxy/api"> Satisfy Any Allow from all </Location> Nevertheless, we still get the following error, when using one of the example scripts: $ python list_data_libraries.py galaxy-dev.fmi.ch *************** Initiating Galaxy connection Retrieving Data Library list Traceback (most recent call last): File "list_data_libraries.py", line 23, in <module> libraries = gi.libraries.get_libraries() File "/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/libraries/__init__.py", line 216, in get_libraries libraries = Client._get(self, deleted=deleted) File "/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/client.py", line 147, in _get raise ConnectionError(msg) bioblend.galaxy.client.ConnectionError: GET: error 401: '<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN">\n<html><head>\n<title>401 Authorization Required</title>\n</head><body>\n<h1>Authorization Required</h1>\n<p>This server could not verify that you\nare authorized to access the document\nrequested. Either you supplied the wrong\ncredentials (e.g., bad password), or your\nbrowser doesn\'t understand how to supply\nthe credentials required.</p>....</body></html>\n', 0 attempts left: None $ Is there anything else we need to change in the conf file, or do we have to do something different? Thank you very much for any help with this Hans-Rudolf -- Hans-Rudolf Hotz, PhD Bioinformatics Support Friedrich Miescher Institute for Biomedical Research Maulbeerstrasse 66 4058 Basel/Switzerland
My guess is that it has to do with the prefix there. Is the Galaxy API at galaxy-dev.fmi.ch/galaxy/api or galaxy-dev.fmi.ch/api? On Thu, Oct 22, 2015 at 6:41 AM Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
Hi
We would like to start using BioBlend on our production servers (which use external authentication) as well.
We have changed the apache conf file by adding
<Location "/galaxy/api"> Satisfy Any Allow from all </Location>
Nevertheless, we still get the following error, when using one of the example scripts:
$ python list_data_libraries.py galaxy-dev.fmi.ch *************** Initiating Galaxy connection Retrieving Data Library list Traceback (most recent call last): File "list_data_libraries.py", line 23, in <module> libraries = gi.libraries.get_libraries() File
"/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/libraries/__init__.py", line 216, in get_libraries libraries = Client._get(self, deleted=deleted) File
"/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/client.py", line 147, in _get raise ConnectionError(msg) bioblend.galaxy.client.ConnectionError: GET: error 401: '<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN">\n<html><head>\n<title>401 Authorization Required</title>\n</head><body>\n<h1>Authorization Required</h1>\n<p>This server could not verify that you\nare authorized to access the document\nrequested. Either you supplied the wrong\ncredentials (e.g., bad password), or your\nbrowser doesn\'t understand how to supply\nthe credentials required.</p>....</body></html>\n', 0 attempts left: None $
Is there anything else we need to change in the conf file, or do we have to do something different?
Thank you very much for any help with this 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/
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Hi all Thanks to a great effort by Dannon, we have solved the problem. Since I took the discussion off-list after his initial reply, I now owe you the solution: My initial mistake was the change in the apache config file. I should have added: <Location "/api"> Satisfy Any Allow from all </Location> Since our Galaxy is not served from a sub directory (such as /galaxy) - D'OH !! In the whole process, we identified a problem in the Galaxy code, which is now nicely patched: https://github.com/galaxyproject/galaxy/pull/1003 Regards, Hans-Rudolf On 10/22/2015 04:09 PM, Dannon Baker wrote:
My guess is that it has to do with the prefix there. Is the Galaxy API at galaxy-dev.fmi.ch/galaxy/api <http://galaxy-dev.fmi.ch/galaxy/api> or galaxy-dev.fmi.ch/api <http://galaxy-dev.fmi.ch/api>?
On Thu, Oct 22, 2015 at 6:41 AM Hans-Rudolf Hotz <hrh@fmi.ch <mailto:hrh@fmi.ch>> wrote:
Hi
We would like to start using BioBlend on our production servers (which use external authentication) as well.
We have changed the apache conf file by adding
<Location "/galaxy/api"> Satisfy Any Allow from all </Location>
Nevertheless, we still get the following error, when using one of the example scripts:
$ python list_data_libraries.py galaxy-dev.fmi.ch <http://galaxy-dev.fmi.ch> *************** Initiating Galaxy connection Retrieving Data Library list Traceback (most recent call last): File "list_data_libraries.py", line 23, in <module> libraries = gi.libraries.get_libraries() File "/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/libraries/__init__.py", line 216, in get_libraries libraries = Client._get(self, deleted=deleted) File "/****/lib/python2.6/site-packages/bioblend-0.6.1-py2.6.egg/bioblend/galaxy/client.py", line 147, in _get raise ConnectionError(msg) bioblend.galaxy.client.ConnectionError: GET: error 401: '<!DOCTYPE HTML PUBLIC "-//IETF//DTD HTML 2.0//EN">\n<html><head>\n<title>401 Authorization Required</title>\n</head><body>\n<h1>Authorization Required</h1>\n<p>This server could not verify that you\nare authorized to access the document\nrequested. Either you supplied the wrong\ncredentials (e.g., bad password), or your\nbrowser doesn\'t understand how to supply\nthe credentials required.</p>....</body></html>\n', 0 attempts left: None $
Is there anything else we need to change in the conf file, or do we have to do something different?
Thank you very much for any help with this 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