[BioRuby] GSoC weekly status report No.7

[Marjan Povolni]

http://blog.mpthecoder.com/post/26930939671/gsoc-weekly-status-report-no-7

I was hoping to get more done over the weekend, but the internet connection
was down, so I had to take the weekend off :)

Otherwise I’m working toward the 0.2 version. The deadline is set for
Saturday evening. What will be in it keeps changing, but for now there are
new toString() and recursiveToString() methods in Feature class, and
append_to(…) methods which accept an Appender object, for more efficient
output. The utility for correctly counting features is now notably faster,
and gff3-ffetch has a new option for passing FASTA data to output.

Currently in planning are: support for new types of records (pragmas and
comments), GDC support and Ruby interface for the validation utility. More
could be added to this list, but I also have to make a plan for the second
half of the summer, and that will take some time too.

I was hoping to use the GDC which comes with Ubuntu 12.04, but I gave up on
that because of some confusing errors I was receiving in the D stdlib. I
will try to build the GDC directly from its GitHub repository and get my
library to compile with it.

Making man pages for binaries in gems is also a problem which currently has
no elegant solution. I don’t want to force my users to type “gem man
command”, so I’m planning to split the current repository into two:
gff3-pltools in D and then the second repository for the Ruby library. The
gff3-pltools would then receive a more traditional installation procedure
and receive proper man pages.

--
Marjan