Re: [galaxy-dev] proxy settings?
Hi Nate,
My solution was a bit of a hack and there may be better ways of doing it (I
haven't read all the docs yet - just started with Galaxy last week)
Python is not my strong suit and there may be more elegant ways, but here's how
I usually connect thru our proxy:
--
proxy_info = {
'user' : 'DOMAIN\\username',
'pass' : 'thisismypassword',
'host' : proxy.yoyodyne.com,
'port' : 8080
}
# build a new opener that uses a proxy requiring authorization
proxy_support = urllib2.ProxyHandler({http :
http://%(user)s:%(pass)s@%(host)s:%(port)d % proxy_info})
opener = urllib2.build_opener(proxy_support, urllib2.HTTPHandler)
# install it
urllib2.install_opener(opener)
#then open the page with urllib2
page = urllib2.urlopen( cur_URL )
--
I was in a hurry so tweaked data_source.py, fetch.py,
genomespace_file_browser.py, ucsc_proxy.py, and upload.py but it would make
more sense to read the proxy_info from universe_wsgi.ini
If you can point me at an example of a tool that reads from the config, I'll
try and put it together.
The best solution would be for Python to pick up the local $http_proxy env
settings but I've never managed to get that working!
--Russell
-Original Message-
From: Nate Coraor [mailto:n...@bx.psu.edu]
Sent: Friday, 2 December 2011 7:03 a.m.
To: Smithies, Russell
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: [galaxy-dev] proxy settings?
On Nov 29, 2011, at 9:35 PM, Smithies, Russell wrote:
Found the cure - just required adding urllib2.ProxyHandler in the
data_source tools.
Why doesn't Galaxy pick up the system http_proxy variables?
Hi Russell,
Thanks for tracking down the problem. Could you send a patch for this?
--nate
--Russell Smithies
From: galaxy-dev-boun...@lists.bx.psu.edu
[mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Smithies,
Russell
Sent: Wednesday, 30 November 2011 9:09 a.m.
To: galaxy-dev@lists.bx.psu.edu
Subject: [galaxy-dev] proxy settings?
I'm new to Galaxy so I'm not sure if this a Galaxy or linux/apache question
.
When I try to Get Data from UCSC or any other external site, I get a 407
error from our proxy as I need to authenticate.
Is the request going out as the 'galaxy' user or 'apache' or the user that's
logged in?
I already have http_proxy and ftp_proxy configured in /etc/profile (we're
running Centos 6) but I assume there a correct place to configure this for
Galaxy?
The error message I'm seeing is:
An error occurred running this job: The remote data source application
may be off line, please try again later. Error: ('http error', 407,
'Proxy Access Denied', httplib.HTTPMessage instance at 0x35d2998)
Any ideas?
Thanx,
Russell Smithies
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Re: [galaxy-dev] proxy settings?
On Nov 29, 2011, at 9:35 PM, Smithies, Russell wrote:
Found the cure – just required adding urllib2.ProxyHandler in the data_source
tools.
Why doesn’t Galaxy pick up the system http_proxy variables?
Hi Russell,
Thanks for tracking down the problem. Could you send a patch for this?
--nate
--Russell Smithies
From: galaxy-dev-boun...@lists.bx.psu.edu
[mailto:galaxy-dev-boun...@lists.bx.psu.edu] On Behalf Of Smithies, Russell
Sent: Wednesday, 30 November 2011 9:09 a.m.
To: galaxy-dev@lists.bx.psu.edu
Subject: [galaxy-dev] proxy settings?
I’m new to Galaxy so I’m not sure if this a Galaxy or linux/apache question .
When I try to “Get Data” from UCSC or any other external site, I get a 407
error from our proxy as I need to authenticate.
Is the request going out as the ‘galaxy’ user or ‘apache’ or the user that’s
logged in?
I already have http_proxy and ftp_proxy configured in /etc/profile (we’re
running Centos 6) but I assume there a correct place to configure this for
Galaxy?
The error message I’m seeing is:
An error occurred running this job: The remote data source application may be
off line, please try again later. Error: ('http error', 407, 'Proxy Access
Denied', httplib.HTTPMessage instance at 0x35d2998)
Any ideas?
Thanx,
Russell Smithies
Attention: The information contained in this message and/or attachments from
AgResearch Limited is intended only for the persons or entities to which it
is addressed and may contain confidential and/or privileged material. Any
review, retransmission, dissemination or other use of, or taking of any
action in reliance upon, this information by persons or entities other than
the intended recipients is prohibited by AgResearch Limited. If you have
received this message in error, please notify the sender immediately.
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[galaxy-dev] proxy settings?
I'm new to Galaxy so I'm not sure if this a Galaxy or linux/apache question .
When I try to Get Data from UCSC or any other external site, I get a 407
error from our proxy as I need to authenticate.
Is the request going out as the 'galaxy' user or 'apache' or the user that's
logged in?
I already have http_proxy and ftp_proxy configured in /etc/profile (we're
running Centos 6) but I assume there a correct place to configure this for
Galaxy?
The error message I'm seeing is:
An error occurred running this job: The remote data source application may be
off line, please try again later. Error: ('http error', 407, 'Proxy Access
Denied', httplib.HTTPMessage instance at 0x35d2998)
Any ideas?
Thanx,
Russell Smithies
===
Attention: The information contained in this message and/or attachments
from AgResearch Limited is intended only for the persons or entities
to which it is addressed and may contain confidential and/or privileged
material. Any review, retransmission, dissemination or other use of, or
taking of any action in reliance upon, this information by persons or
entities other than the intended recipients is prohibited by AgResearch
Limited. If you have received this message in error, please notify the
sender immediately.
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