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Sun May 7 13:26:17 2006 UTC (13 years, 8 months ago) by overbeek
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add documentation on the Genome Log

<h1>The Genome Log as Implemented in the SEED: May 7, 2006</h1>

As we add genomes, replace genomes, add features, alter starts, etc. we generate <i>log entries</i>.
The generation of log entries has been going on for quite some time,
but during the last week Kaitlyn and I have attempted to straighten
things up a bit.  Most importantly, the log entries are now browsable,
so you should be able to easily check to see when changes were made
and by whom.
For now, access to the <b>Genome Log</b> is via an inconspicuous
little link set in the main entry page to the SEED.  It appears just
above the list of genomes that can be selected.  If you click on it,
you should get a list of genomes for which log entries exist.  You
will not be shown genome IDs; rather, you see only the <i>genome
decsriptions</i>.  The reason IDs are not shown is that a specific
genome description may apply to a sequence of distinct genome IDs as
the genome is improved.
If you select one of the genome descriptions, you will be shown the
list of existing log entries.  At this point, I have made log entries
showing when start positions have been modified in prokaryotes and
splice variants in eukaryotes.  From now on, as new features are
added, old ones deleted, new genomes added, or other forms of
maintenance, entries will be added to the <b>Genome Log</b> and you
can peruse them.
Log entries may contain links to display <i>maps</i>, which show a
correspondence between genes.  Currently, you can get maps showing
which PEGs were replaced due to changes in start positions.
Over the next few months, we will upgrade the displays to support
listing selected types of changes to all genomes in chronological
order, which would allow you to easily see what genomes have been
added and when.

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