[EMBOSS] transeq and ambiguous codons

[Peter Rice]

Peter C. wrote:
> Thinking about this again, rather than adding a whole new argument
> (-version), why not just include the program version as the first line of
> the help output (from -help)? This should also solve the corner case
> of standalone builds, and makes it very easy to find the version
> (without having to know about the embossversion tool).

Too late ... I already have working code for --version :-)

This can report the EMBOSS version number. For EMBASSY applications it
also reports the EMBASSY package version number (something embossversion
is unable to do).

There was also a "version:" ACD application attribute. This has to be
renamed to "versionnumber:" to avoid a clash with the new qualifier
name, and will be reported if defined. The "versionnumber" attribute in
ACD was originally defined only for third party applications in the
SoapLab interface so we do not expect renaming the attribute to cause
any problems (we will make the changes to SoapLab).

However, the suggestion of adding the the -help output is a good one. I
will add something there too.

regards,

Peter Rice