ACEDB3 -> ACEDB4.1

Dave Matthews matthews at GREENGENES.CIT.CORNELL.EDU
Sat Feb 3 16:47:42 EST 1996


> Also, are there other things I need to know when upgrading from
> 3.0 to 4.1? Has anyone written any documentation on upgrading?

Well, not really.  The best I know of is
<a href="ftp://probe.nalusda.gov/pub/acedocs/sampledb/">SampleDB</a>,
a small sample ace4 database that's supposed to function as "executable
documentation".

The main things you need to work on, as far as I recall, are:

1. Some of the magic tags that drive particular features of the GMAP
display have changed.  See SampleDB's models.wrm and the explanations in
<a href="http://probe.nalusda.gov:8000/acedocs/magic">Magic Tags</a> and 
<a href="http://greengenes.cit.cornell.edu/acedoc/GMAP.html">The Genetic Map 
Display</a>.

2. The GMAP display is now configurable, and configurations can be saved in
objects of class ?View.  See "The Genetic Map Display".  SampleDB contains
some Views that are better than the configuration you get if you don't use
a default View at all.

3. The traditional online help system now runs via Mosaic, using html
files in a new directory $ACEDB/whelp.  This requires a script in the new
directory wscripts.  See SampleDB.

4. Pick_me_to_call no longer assumes the data files are in $ACEDB/
externalFiles.  To invoke xv now on those same files now, replace
"Pick_me_to_call xv my.gif" with "Pick_me_to_call display my.gif" and create
the following executable script named $ACEDB/wscripts/display:

#!/bin/csh
xv $ACEDB/externalFiles/$1 &


- Dave




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