ABI 377 GENOTYPER
Andy Law Big Nose
Andy.Law at bbsrc.ac.uk
Tue May 30 08:54:33 EST 1995
In article <n.morrison-250595131943 at 18.104.22.168>,
n.morrison at garvan.unsw.edu.au (Nigel Morrison) wrote:
> WHEN WILL THE ABI 377 GENESCAN SOFTWARE BE READY?
> We bought two ABI377 "ABI PRISM" machines for automated genotyping and DNA
> sequencing. We were not told that the software GENESCAN for the automated
> genotyping was not ready for the powermac. Despite this problem ABI is
> advertising (in Biosystems Reporter issue 24, February Page 1) that the
> famous geneticist JOHNTODD of the new Wellcome Trust Center for Human
> Genetics at the University of Oxford, used the ABI PPRISM to map the
> polygenes involved in diabetes suceptibility. John Todd's paper (Nature
> 371:130-136) was a beautiful example of genetic analysis of complex
> disorders. The suggestion that John Todd uses the ABI PRISM (377)
> certainly influenced our level of comfort in buying these machines.
> Quoting the Biosystems Reporter " "We could not have completed this project
> in the time we did without the ABI PRISM Automated Genotyping Sysem," Todd
> commented." For future work in mutation detection, it will be invaluable."
> The Biosystems reporter also stated that: "Todd's group was able to rapidly
> (in six months) and accurately screen the entire human genome for
> micosatellite marker alleles that might be linked to diabetes."
> Now we find that the software is not ready, so how could he have used the
> ABI PRISM?; or does ABI PRISM now refer to the ABI373 model which is
> superceded by the ABI 377. The questions are, what model machine was used
> for the Nature paper, what computer software is reliable and when will the
> ABI GENESCAN software be ready? We are waiting for the software, and it
> appears that we will be waiting more than the six months it took Todd to
> finish his project.
As I understand it the situation is as follows:-
* The GENESCAN software does exist and works on most older models of
Mac with an fpu.
* ABI's software engineers decided to follow Microsoft's example and
ignore Apple's guidelines when writing the code that wrote the
gel images to the screen.
* Apple have changed the way that video memory is mapped to the screen
(as they always said they would) in order to allow easy use of multi-
scan monitors and on-the-fly resolution switching. This applies to all
machines currently in Apple's product line from Performa 475 to
* Software that followed Apple's guidelines still works. Software that
did not (i.e. GENESCAN etc.) is broken on the new machines.
* ABI seem unconcerned about this problem (since they probably already
have your money for the machines) and are being very slow in producing
a fix for what should be a relatively trivial code fix.
If you can find a Quadra or Centris 650 type machine, then the software
should run on it. These were the last machines made by Apple that used the
old style video architecture. I heard a rumour that ABI had bought up a
stock pile of these machines to cover themselves with this problem, but it
seems that either it was untrue or they have run out.
I reserve the right to be proved wrong over any or all of the above.
( Andy.Law @ bbsrc.ac.uk )
( Big Nose in Edinburgh )
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