[StarCluster] problem with arguments passed to plugin

[Justin Riley]

  This is a bug and will be fixed in the github code. However, although 
Python allows variable names like dirPath and Lpattern, a common 
convention in Python is to use all lowercase variable names. Also, 
multiple words in a variable name are often separated with a '_' 
character rather than capitalizing the words. You've used these 
conventions for most of the plugin config and your ShortReadPlugin class 
except in a few places but using it everywhere in your code is good 
practice.

~Justin


On 10/31/10 6:14 PM, Dan Tenenbaum wrote:
> Looks like you can't have any uppercase letters in your argument names.
> Dan
>
>
> On Sun, Oct 31, 2010 at 2:56 PM, Dan Tenenbaum <dtenenba at fhcrc.org 
> <mailto:dtenenba at fhcrc.org>> wrote:
>
>     Hi, I am getting:
>
>     PluginError: Not enough settings provided for plugin shortreadplugin
>
>     where I don't think I should.
>
>     My config:
>
>     [plugin shortreadplugin]
>     SETUP_CLASS = bioconductor.ShortReadPlugin
>     email=my at email.address
>     job_name=myfirsttest
>     output_bucket=my-bucket-name
>     access_key=my_access_key
>     secret_key=my_secret_key
>     dirPath=testsolexaexportfiles
>     _type=SolexaExport
>     pattern=s_3_export.txt
>     Lpattern=None
>     Rpattern=None
>     param=None
>
>
>     My plugin constructor signature line:
>          def __init__(self, email, job_name, output_bucket,
>     access_key, secret_key, dirPath, _type, pattern, Lpattern,
>     Rpattern, param):
>
>     There are 11 parameters passed to the plugin in the config file
>     (excepting SETUP_CLASS). And there are 11 variables expected in
>     the plugin constructor (excepting self).
>
>     So why is this telling me I am not passing enough settings?
>
>     Thanks
>     Dan
>
>
>
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