[BiO BB] Genbank file conversion to GCG format
pmr at ebi.ac.uk
Fri Jul 20 12:22:32 EDT 2007
> On Jul 20, 2007, at 4:53 AM, Sterten at aol.com wrote:
> no checksum needed these days, data storage is reliable.
Hah! It isn't reliable in this case. GCG added the checksum to catch
users who edited their sequence files and deliberately (or accidentally
while editing the annotation in the header) changed the sequence data :-)
If you edit a GCG file, you run the reformat program to calculate a new
> Should be easy to write a short program to convert the formats...
Generating the checksum is ... ummm .... interesting. It helps if you
have a friend with access to the GCG "reformat" program who can tell you
if you got it right. Some years ago there was a thread in one of the
bionet newsgroups (ah, those were the days) when it took 4 attempts
before someone could reliably agree with GCG's calculation (upper and
lower case, numeric characters, spaces, and other IUPAC "standard"
sequence characters such as "=" all have to be considered.
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