Re: [Biopython] Support for Xdna, SnapGene and GCK formats
Peter Cock <[email protected]>
| Newsgroups | gmane.comp.python.bio.general |
|---|---|
| Message-ID | <CAKVJ-_5=LOQRczOEO6=vqqswee5N6=GVgL0mBvdBD2sufnp38Q@mail.gmail.com> |
Hello Damien, Apologies that your past emails didn't reach me. I wonder if anyone else did see them (and then f this is happening to anyone else)? This is really frustrating, but following our discussion on Twitter, I can still see your original and new emails to the mailing list on the archive - but not in my GMail, not even in the spam folder: https://mailman.open-bio.org/pipermail/biopython/2018-December/016574.html https://mailman.open-bio.org/pipermail/biopython/2019-July/016647.html https://mailman.open-bio.org/pipermail/biopython/2019-July/016648.html https://twitter.com/gouttegd/status/1156170774329380864 I've not used any of the tools and their formats, but this still seems like a good fit for Biopython's SeqIO: "Xdna" format, used by DNA Strider and Serial Cloner: http://serialbasics.free.fr/Serial_Cloner.html SnapGene format: https://www.snapgene.com/ "GCK" format, used by Gene Construction Kit: http://www.textco.com/gene-construction-kit.php Damian's code is here: https://git.incenp.org/damien/binseqs/src/branch/master/incenp/bio/seqio Note we'd ask you to dual license this, as done here for example: https://github.com/biopython/biopython/blob/master/Bio/SeqRecord.py Also some minimal tests would be needed - are you able to share at least one small file in each new format? And are you testing on both Python 2.7 and 3.x? If that all seems fine, I look forward to a pull request. Thank you for your patience! Peter _______________________________________________ Biopython mailing list - [email protected] https://mailman.open-bio.org/mailman/listinfo/biopython