Hi, On a fresh galaxy installation the server start fine when it looks at port 8080, but as soon as I change to port 80 I get the following error I think that is due to permissions since I have my galaxy inside a non-root galaxy user directory Any ideas on the best way to solve this would be appreciated Thanks --G
Starting server in PID 8799. Traceback (most recent call last): File "./scripts/paster.py", line 34, in <module> command.run() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 84, in run invoke(command, command_name, options, args[1:]) File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 123, in invoke exit_code = runner.run(args) File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 218, in run result = self.command() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/serve.py", line 303, in command serve() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/serve.py", line 287, in serve server(app) File "/usr/local/galaxy/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.7.egg/paste/deploy/loadwsgi.py", line 151, in server_wrapper **context.local_conf) File "/usr/local/galaxy/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.7.egg/paste/deploy/util/fixtypeerror.py", line 57, in fix_call val = callable(*args, **kw) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1314, in server_runner serve(wsgi_app, **kwargs) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1264, in serve threadpool_options=threadpool_options) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1114, in __init__ RequestHandlerClass, ssl_context) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1094, in __init__ RequestHandlerClass, ssl_context) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 328, in __init__ HTTPServer.__init__(self, server_address, RequestHandlerClass) File "/usr/lib/python2.7/SocketServer.py", line 408, in __init__ self.server_bind() File "/usr/lib/python2.7/BaseHTTPServer.py", line 108, in server_bind SocketServer.TCPServer.server_bind(self) File "/usr/lib/python2.7/SocketServer.py", line 419, in server_bind self.socket.bind(self.server_address) File "/usr/lib/python2.7/socket.py", line 224, in meth return getattr(self._sock,name)(*args) socket.error: [Errno 13] Permission denied
You run Galaxy is as non-root, likely as galaxy user. Only root can bind sockets to ports < 1024. If you want to use port 80, you need to configure Apache, nginx or another web server that will proxy requests to Galaxy. The web servers run as root, so they can bind sockets to port 80.
HI Gaueko, If you are on a UNIX/LInux system, you are running into a security restriction which requires root access to bind a sever to any port below 80. There are two common methods. One is to use an Apache or Nginx proxy server that forwards to your port, which has the advantage that you get web scalability and access to other authentication functionality.. The second method is to change the port settings. You can read more about the latter option at http://yaws.hyber.org/privbind.yaws
Be away that if done badly, you are opening up to web attacks. So open only port 80 and not other ports.
I hope this helps. Ted
UCSC CBSE http//soe.ucsc.edu/~ted/
On Aug 31, 2012, at 3:45 AM, Gaueko Erge wrote:
Hi, On a fresh galaxy installation the server start fine when it looks at port 8080, but as soon as I change to port 80 I get the following error I think that is due to permissions since I have my galaxy inside a non-root galaxy user directory Any ideas on the best way to solve this would be appreciated Thanks --G
Starting server in PID 8799. Traceback (most recent call last): File "./scripts/paster.py", line 34, in <module> command.run() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 84, in run invoke(command, command_name, options, args[1:]) File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 123, in invoke exit_code = runner.run(args) File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/command.py", line 218, in run result = self.command() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/serve.py", line 303, in command serve() File "/usr/local/galaxy/galaxy-dist/eggs/PasteScript-1.7.3-py2.7.egg/paste/script/serve.py", line 287, in serve server(app) File "/usr/local/galaxy/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.7.egg/paste/deploy/loadwsgi.py", line 151, in server_wrapper **context.local_conf) File "/usr/local/galaxy/galaxy-dist/eggs/PasteDeploy-1.3.3-py2.7.egg/paste/deploy/util/fixtypeerror.py", line 57, in fix_call val = callable(*args, **kw) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1314, in server_runner serve(wsgi_app, **kwargs) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1264, in serve threadpool_options=threadpool_options) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1114, in __init__ RequestHandlerClass, ssl_context) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 1094, in __init__ RequestHandlerClass, ssl_context) File "/usr/local/galaxy/galaxy-dist/eggs/Paste-1.6-py2.7.egg/paste/httpserver.py", line 328, in __init__ HTTPServer.__init__(self, server_address, RequestHandlerClass) File "/usr/lib/python2.7/SocketServer.py", line 408, in __init__ self.server_bind() File "/usr/lib/python2.7/BaseHTTPServer.py", line 108, in server_bind SocketServer.TCPServer.server_bind(self) File "/usr/lib/python2.7/SocketServer.py", line 419, in server_bind self.socket.bind(self.server_address) File "/usr/lib/python2.7/socket.py", line 224, in meth return getattr(self._sock,name)(*args) socket.error: [Errno 13] Permission denied ___________________________________________________________ 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:
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Gaueko Erge -
Lukasz Lacinski -
Ted Goldstein