[Biopython-dev] KEGG enhancements

[Leighton Pritchard]

Thanks Peter,

I’m very happy for the REST interface to be introduced, in place of the scraping code.

Cheers,

L.

On 30 Aug 2014, at 02:23, Peter Cock <p.j.a.cock at googlemail.com<mailto:p.j.a.cock at googlemail.com>> wrote:

On Tue, Feb 5, 2013 at 9:36 PM, Peter Cock <p.j.a.cock at googlemail.com<mailto:p.j.a.cock at googlemail.com>> wrote:
On Tue, Feb 5, 2013 at 12:33 PM, Peter Cock <p.j.a.cock at googlemail.com<mailto:p.j.a.cock at googlemail.com>> wrote:
On Tue, Feb 5, 2013 at 12:32 PM, Peter Cock <p.j.a.cock at googlemail.com<mailto:p.j.a.cock at googlemail.com>> wrote:
Hi all,

We have a couple of new pull requests for KEGG enhancements,
which we can look at after the imminent Biopython 1.61 release
goes out this week.

Kevin's working on the REST API,
https://github.com/biopython/biopython/pull/152

Leighton's working on KGML and graphics,

Sorry, the correct URL, https://github.com/biopython/biopython/pull/155

Details below,

See also Leighton's blog posts about this work (with pictures):
http://armchairbiology.blogspot.co.uk/2013/01/keggwatch-part-i.html
http://armchairbiology.blogspot.co.uk/2013/02/keggwatch-part-ii.html
http://armchairbiology.blogspot.co.uk/2013/02/keggwatch-part-iii.html

Regards,

Peter

Hi all,

Given no comments positive or negative here or the original or
updated pull request (which I have just updated for Python 3),
I am inclined to apply this now (rebasing it onto the master):

https://github.com/biopython/biopython/pull/173

Once that is done, I'd like to integrate Kevin's KEGG REST API
work replacing Leighton's KGML_scrape.py code:

https://github.com/biopython/biopython/pull/152

Peter


--
Dr Leighton Pritchard
Information and Computing Sciences Group; Weeds, Pests and Diseases Theme
DG31, James Hutton Institute (Dundee)
Errol Road, Invergowrie, Perth and Kinross, Scotland, DD2 5DA
e: leighton.pritchard at hutton.ac.uk<mailto:leighton.pritchard at hutton.ac.uk>       w: http://www.hutton.ac.uk/staff/leighton-pritchard
gpg/pgp: 0xFEFC205C tel: +44(0)844 928 5428 x8827 or +44(0)1382 568827


If you are not the intended recipient, you should not read, copy, disclose or rely on any information contained in this email, and we would ask you to contact the sender immediately and delete the email from your system.  
Although the James Hutton Institute has taken reasonable precautions to ensure no viruses are present in this email, neither the Institute nor the sender accepts any responsibility for any viruses, and it is your 
responsibility to scan the email and any attachments.

The James Hutton Institute is a Scottish charitable company limited by guarantee.
Registered in Scotland No. SC374831
Registered Office: The James Hutton Institute, Invergowrie Dundee DD2 5DA.
Charity No. SC041796


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mailman.open-bio.org/pipermail/biopython-dev/attachments/20140830/930a6e14/attachment.html>