[Baypiggies] importing variables into python namespace using argparse module

[Shiqi Yang]

It might be because the type is set to 'file' for args.sam_file_1 and
then the file object was returned as sam_file_1
then passed to open() in read_file()

maybe try change type=str would help

HTH,
Shiqi

On Wed, Sep 7, 2011 at 2:56 PM, Abhishek Pratap <abhishek.vit at gmail.com> wrote:
> Guys
>
> I think I am stuck again while trying to open a file. It looks like a
> type casting error but not sure.
>
> ##Error:
> TypeError: coercing to Unicode: need string or buffer, list found
>
>
> #code
>
> def read_file(file):
>    """Read the first same and create a dictionary
>    """
>    fh1 = open(file,'r')
>    for line in fh1:
>        print line
>
>
> sam_file_1 = args.sam_file_1
> sam_file_2 = args.sam_file_2
>
> read_file(sam_file_1)
>
>
> -Abhi
>
>
> On Wed, Sep 7, 2011 at 2:01 PM, Abhishek Pratap <abhishek.vit at gmail.com> wrote:
>> Thanks Simeon and Rami. Works now.
>>
>> -Abhi
>>
>>
>>
>>
>> On Wed, Sep 7, 2011 at 1:55 PM, Rami Chowdhury <rami.chowdhury at gmail.com> wrote:
>>> On Wed, Sep 7, 2011 at 21:11, Abhishek Pratap <abhishek.vit at gmail.com> wrote:
>>>> This might sound naive as I am trying to learn python.
>>>
>>> Not at all, we've all been there :-)
>>>
>>>> I am using argparse to parse the command line arguments but I am not
>>>> sure how they variables created by it are imported into python's
>>>> current namespace for downstream usage.
>>>
>>> The simple answer is that they're not. I'll explain further after the
>>> code sample
>>>
>>>> parser = argparse.ArgumentParser(description='Process some integers')
>>>>
>>>> parser.add_argument('--file_1', nargs=1 , type=file, required=True,
>>>> help='Name of file 1')
>>>> parser.add_argument('--file_2', nargs=1 , type=file, required=True,
>>>> help='Name of file 2')
>>>> parser.parse_args()
>>>
>>> Here, you need to capture the object that is returned from
>>> parser.parse_args() -- that object is where any data captured by the
>>> parser is stored, and you can access it from that object. So, for
>>> instance:
>>>
>>>>>> args = parser.parse_args()
>>>>>> print "File 1 is %s" % args.file_1
>>>
>>>> PS: Please let me know if this is not a appropriate forum to push such
>>>> questions and if there are other mailing list that I could use coz in
>>>> the coming days I am sure to send in a lot of email traffic.
>>>
>>> You could also try the main Python-language mailing list
>>> (python-list at python.org) -- there are more people on the list and you
>>> might get quicker responses to questions :-)
>>>
>>> Hope that helps,
>>> Rami
>>>
>>> --
>>> Rami Chowdhury
>>> "Never assume malice when stupidity will suffice." -- Hanlon's Razor
>>> +44-7581-430-517 / +1-408-597-7068 / +88-0189-245544
>>>
>>
> _______________________________________________
> Baypiggies mailing list
> Baypiggies at python.org
> To change your subscription options or unsubscribe:
> http://mail.python.org/mailman/listinfo/baypiggies
>