Update handling of input targets csv file

[glebkuznetsov]

Currently, optmage parses an inputs targets csv file in order of arguments. Additionally, the headers in the example file have opaque names.

Thus we should:

1. Clean up the input targets template file to have better header names.
2. Parse the file according to column name, and not by order. This will be cleaner code.

[dbgoodman]

Can you give more context here? Not sure what input (?) file interface you
mean.

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Daniel B. Goodman
NSF GRFP Fellow
Division of Health Sciences and Technology
Massachusetts Institute of Technology
Bioinformatics and Integrative Genomics
P: (617) 459-2949 | E: [email protected] www.dbgoodman.com

On Tue, May 20, 2014 at 2:46 PM, Gleb Kuznetsov [email protected]:

Right now we're reading positional arguments, but we probably want to read
column names; using more of a template file pattern.

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[glebkuznetsov]

Updated the first comment which describes the issue to clarify.