[BioPython] Martel problems and MS-Windows

[Michiel Jan Laurens de Hoon]

I have put fixed Windows installers that now contain Martel on the biopython 
website. I am bound to forget to delete Martel on my machine again for the next 
biopython release, so I also vote to remove the version check. Another option 
would be to install Martel if the distributed version is newer than *or equal 
to* the installed version.

--Michiel.

Brad Chapman wrote:

> Hey guys;
> 
> Michiel:
> 
>>>You are right, Martel did get skipped because it was already present 
>>>on my machine. Why is it necessary to check version number of Martel? 
>>>Is it possible that a version of Martel is already present that is 
>>>newer than the one included with Biopython?
> 
> 
> Jeff:
> 
>>This was my doing.  At the time (and still now, I believe), Andrew 
>>wanted also to distribute Martel as a separate package, that people can 
>>use outside of Biopython.  So thus, the CVS version, and possible 
>>distributions, were ahead of Biopython.  But now that it appears that 
>>Martel development is stabilizing, perhaps it is time to revisit that 
>>decision.
> 
> 
> My vote is that it's not really necessary, since I thought that
> distutils would already do the work of determining if the files to
> be installed are newer than the stuff in site-packages. Of course, I
> guess this based on time-stamps so it's not a perfect system, but
> should work for most cases and make things a little less confusing.
> 
> On the other hand, it's not too tough to bump the version on making
> new releases or if new changes go into CVS -- I think I was just
> sleeping (well, really studying for exams) during the whole Martel
> install debate a while back, so I didn't know to do this on the last
> release. I added it to the build release directions, so it shouldn't
> be a problem in the future if we leave things the way they are.
> 
> By the way, Michiel -- the quick fix is to just remove Martel from
> your site-packages before building the installer. We'll have a real
> fix of some sort for the next release.
> 
> Brad
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> 

-- 
Michiel de Hoon, Assistant Professor
University of Tokyo, Institute of Medical Science
Human Genome Center
4-6-1 Shirokane-dai, Minato-ku
Tokyo 108-8639
Japan
http://bonsai.ims.u-tokyo.ac.jp/~mdehoon