[Biopython-dev] Features of the GSOC branch ready to be merged

[Kristian Rother]

Hi Joao,

I've tested the Atom-element feature, added one more test function, and
did a small refactoring of Atom.__init__.

In my opinion, this is safe to merge.

latest commit:
https://github.com/krother/biopython/tree/JoaoRodrigues/atom-element

As I understood, the other two features you mentioned are not in this branch.

Best,
   Kristian



> Hello all,
>
> I've been looking at the code I wrote for the GSOC to see what is ready to
> be merged in the main branch. I have to thank Kristian and whoever
> participated in the Python & Friends for the input.
>
> From what I gathered, and from my own tests, I believe the following
> functions are solid enough:
>
>
>    1.
> Bio/PDB/Atom.py<https://github.com/JoaoRodrigues/biopython/blob/GSOC2010/Bio/PDB/Atom.py#L75-105>:
>    automatically guessing atom element from atom name
>    2. Bio/PDB/Structure.py
>       1. Building biological unit from REMARK 350 in the header
> (link<https://github.com/JoaoRodrigues/biopython/blob/GSOC2010/Bio/PDB/Structure.py#L78-110>
>       )
>       2. Renumbering residues
> (link<https://github.com/JoaoRodrigues/biopython/blob/GSOC2010/Bio/PDB/Structure.py#L66-76>
>       )
>
>
> Let me know what you all think.
>
> Best,
>
> João [...] Rodrigues
> http://doeidoei.wordpress.com
>
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