[Bioc-devel] How to check package changes?

Marcus Davy mdavy at hortresearch.co.nz
Mon Apr 16 03:52:12 CEST 2007

Thanks to Colin Smith and Sean Davis for their comments.

The BioC monthly news report;


is useful but summarizes changes for all packages by month. For others not
particular familiar with svn, a history log for any particular package is
available with;

svn co https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/[Package]
/tmp/[Package] # continued line

svn log /tmp/[Package]



On 4/4/07 9:30 AM, "Colin A. Smith" <colin at colinsmith.org> wrote:

> I use personally think Trac is a great way to monitor changes to
> packages in an svn repository:
> http://trac.edgewall.org/
> In addition to having a very nice looking interface, it makes it easy
> to monitor change logs on a directory by directory basis. For example:
> http://trac.edgewall.org/log/trunk/contrib
> http://trac.edgewall.org/log/trunk/trac
> (Please pardon the ads, they would not be there if we installed it
> ourselves.)
> I use Trac all the time on another project and I'd love to see it set
> up for Bioconductor. I really miss the web based interface that went
> away with CVS.
> For xcms, I keep a separate change log that's more intended for user
> consumption:
> https://readonly:readonly@hedgehog.fhcrc.org/bioconductor/trunk/
> madman/Rpacks/xcms/CHANGELOG
> -Colin
> On Apr 3, 2007, at 14:00 , Marcus Davy wrote:
>> Hi,
>> I am putting this on the development list as I think it is most
>> appropriate
>> for discussion here.
>> This is a general question: Is there any way to quickly find out how a
>> package has evolved though version development? -Some sort of
>> change log
>> additional to the versioning information available. For example, as
>> the R
>> software evolves we can see changes in the base packages at
>> http://cran.r-project.org/src/base/NEWS
>> The motivation for this is to quickly see what changes have
>> occurred between
>> stable and development package releases.
>> Trolling through some R/bioC base and contributed packages
>> installed on my
>> system I cannot see anything obvious. I guess this depends on the
>> package
>> author, for example in the limma package an output from a written
>> log file
>> is available using changeLog().
>> Maybe subversion is the best way of getting this sort of
>> information from
>> packages although less people are familiar with svn.
>> Marcus


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