[Phylobase-devl] Aug. virtual hackathon

Thu Aug 13 17:41:19 CEST 2009

Hi all -

  I just committed the last changes in my branch and a PDF document [1]
that describes what I have been doing on my branch. I wrote it fairly
quickly, so I hope there aren't too many mistakes.

  I know that there are still a couple of bugs here and there and a
couple of functions that need more attention but you should be able to
play with my modifications with not too many woes.

  I didn't update the documentation at all, so (unfortunately) you have
to look at the code to understand what I changed. I didn't update the
vignette either.

  It builds without the vignette (R CMD build fm-branch --no-vignettes).
It doesn't check however, but I don't think it's related to my changes
as it fails with the following error message:
* checking PDF version of manual without index ... ERROR
It looks that it comes from a typo in the vignette. I'll try to
investigate the problem.

  Concerning the hackathlon, Aug 18th, 11am EDT works for me.

  Concerning what needs to be done during the hackathlon, I'd prefer to
use the tracker this time instead of the wiki.

  Feel free to ask questions about the document or the changes I made in
my branch.

  Cheers,
  -- François

[1] you can find it at www/misc/fm-branch.pdf in the subversion tree

On Thu, 2009-08-13 at 11:01 -0400, Ben Bolker wrote:
> I would also prefer not a weekend (but not impossible either).
> 
>   Just to start the ball rolling, I propose Tuesday August 18
> at 11 AM EDT (a little early for west-coast folks, but not
> horrendous -- since Marguerite
> can't play right now, we don't have to worry about Hawai'i)
> 
>   ??
> 
>   cheers
>     Ben
> 
> Peter Cowan wrote:
> > If I gather correctly, most folks are available after the 13th and  
> > before the 24th, except for Thibaut who is currently far away from a  
> > computer.
> > 
> > What days in that period work best?  Last time did we schedule it over  
> > a weekend, or did it just feel like that because I was traveling?  I  
> > prefer it not be a weekend, but can do it if need be.  Proposals for a  
> > specific starting day and duration welcome.
> > 
> > Before, we actually start coding, it's probably worthwhile having at  
> > least some discussion about the changes that Francois has made, and  
> > any other major changes people would like.  It would also be good to  
> > get the RUnit stuff checked in (if I can help at all with that let me  
> > know Jim) so that we can make a good dent in writing unit tests (which  
> > will make any future changes much easier to carry out).
> > 
> > Cheers
> > 
> > Peter
> > 
> > On Aug 3, 2009, at 4:48 PM, Marguerite Butler wrote:
> > 
> >> Hi Folks,
> >>
> >> This does sound great. Some of the students I've worked with would  
> >> really appreciate a more stable package that was also easier to  
> >> install.
> >>
> >> But I won't be able to participate this time. Need to work on my  
> >> tenure packet (ugg) and upcoming classes.
> >>
> >> Marguerite
> >>
> >> On Aug 3, 2009, at 11:11 AM, Jim Regetz wrote:
> >>
> >>> This sounds great - I'm definitely interested. I don't expect to have
> >>> any major schedule conflicts in the next month, so this is a good  
> >>> time.
> >>>
> >>> I wasn't able to commit the RUnit tests before embarking on a busy  
> >>> July
> >>> of traveling, so that's still on my plate. I also have some notes  
> >>> on a
> >>> few unresolved issues I've encountered while working with phylo4d
> >>> objects, but I'll have to dust them off and remind myself of the  
> >>> details
> >>> before saying anything useful about that.
> >>>
> >>> Cheers,
> >>> Jim
> >>>
> >>> Peter Cowan wrote:
> >>>> phylobase devs,
> >>>>
> >>>> Last December, we had a very successful virtual hackathon.  However,
> >>>> development has stalled since then.  Would folks be interested/ 
> >>>> willing
> >>>> to participate in a hackathon in the next month, focused on  
> >>>> preparing
> >>>> the package for a release to CRAN?  The school year is looming so I
> >>>> suspect for many the sooner the better, though ESA is this week,  
> >>>> which
> >>>> will keep at least Steve occupied.
> >>>>
> >>>> * If you are able, what are the best days for you?
> >>>>
> >>>> * What needs to be done before we can submit the package to CRAN?   
> >>>> How
> >>>> long do you expect they will take?
> >>>>
> >>>>
> >>>> Personally I'm free anytime.  I need to finish up some changes I've
> >>>> started with the plotting functions, I suspect it will take me a day
> >>>> or two wrap them up.
> >>>>
> >>>> Peter
> >>>> _______________________________________________
> >>>> Phylobase-devl mailing list
> >>>> Phylobase-devl at lists.r-forge.r-project.org
> >>>> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/phylobase-devl
> >>>>
> >>> _______________________________________________
> >>> Phylobase-devl mailing list
> >>> Phylobase-devl at lists.r-forge.r-project.org
> >>> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/phylobase-devl
> >> ____________________________________________
> >> Marguerite A. Butler
> >> Assistant Professor
> >> Department of Zoology
> >> University of Hawaii
> >> 2538 McCarthy Mall, Snyder 405
> >> Honolulu, HI  96822
> >>
> >> Dept: 808-956-8617
> >> Lab:  808-956-5867
> >> FAX:   808-956-9812
> >> http://www.hawaii.edu/zoology/faculty/butler.html
> >> http://www2.hawaii.edu/~mbutler
> >> http://www.hawaii.edu/zoology/
> >>
> >>
> >>
> >>
> >> _______________________________________________
> >> Phylobase-devl mailing list
> >> Phylobase-devl at lists.r-forge.r-project.org
> >> https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/phylobase-devl
> > 
> > _______________________________________________
> > Phylobase-devl mailing list
> > Phylobase-devl at lists.r-forge.r-project.org
> > https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/phylobase-devl
> 
> 
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