Read object is not fully exposed to python

[camillescott]

_khmermodule.cc defines most of the machinery for a Read type (a simple struct declared in read_parsers.hh), but does not define a __new__ method and doesn't fully expose it to python. This would be convenient for some applications.

[mr-c]

@brtaylor92 status?

[mr-c]

See #728 for a detailed checklist.

[ctb]

Fixed; see #728 and linked issues.

[mr-c]

Using ipython I'm not see how to make a new ReadParser read from Python...

[ctb]

Please go ahead and file a new issue, then, with more specifics about what's needed. More important IMO is #769.

[mr-c]

We should make exposing the read object part of #769 then as that is all
the same code area.

On Sat, Jun 13, 2015 at 11:47 AM C. Titus Brown notifications@github.com
wrote:

Please go ahead and file a new issue, then, with more specifics about
what's needed. More important IMO is #769
#769.

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Michael R. Crusoe: Programmer & Bioinformatician crusoe@ucdavis.edu
mcrusoe@msu.edu
The lab for Data Intensive Biology; University of California, Davis
https://impactstory.org/MichaelRCrusoe http://twitter.com/biocrusoe

[ctb]

I would like to see a specific use case, so -0 on just including it to round things out. So far we have no need to create a Read object in Python that I can see, and until we no longer depend on screed we have access to screed.Record().