From the monthly archives:

March 2006

Test post with mtcolorer/colorer

March 28, 2006

Here’s a block of multiline code…

foreach my $person (@people) {
my %tags = (Supervised => ‘pi’,
# Supervised_by => ’student’,
Worked_with => ‘collaborated’);
foreach my $tag (keys %tags) {
# next if ($limit_to && $tag ne $limit_to);
if (my @data = $person->$tag) {
my $year = $lineage->discover_year_appeared($person);
next if ($year eq ‘unknown’ && [...]

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modENCODE RFAs announced

March 27, 2006

The National Human Genome Research Institute (NHGRI) plans to initiate a model organism ENCODE (modENCODE) Project that will try to identify all of the sequence-based functional elements in the Caenorhabditis elegans and/or Drosophila melanogaster genomes. The project will be run as a Research Network called the modENCODE Consortium which is supported by two RFAs. [...]

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Production servers updated to WS155

March 26, 2006

brie6, aceserver, blast, gene, crestone, and vab have all been updated to the WS155 release of the database. I need to remove some apparent debugging statements in the check_disk_space() methods of Bio::WormBase…

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New genetic map almost complete

March 26, 2006

I’m almost done putting the finishing touches on a new Genetic Map display. Intended as a drop-in replacement for the Acedb GMap, the new Genetic Map leverages the GBrowse infrastructure providing a familiar user interface as that for browsing the genome.
I still need to fix a few small things (what in the hell is [...]

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Migrating from Wordpress to Movable Type

March 24, 2006

Okay, I know I’m cutting against the grain here but I’m going to migrate back to Movable Type after dabbling with Wordpress for a few months. Yes, the installation of Wordpress is easier. Yes it’s nice not to have to rebuild pages all the time. The Wordpress skins are good but I don’t [...]

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Bio::WormBase.pm released to SourceForge

March 14, 2006

I’ve made a huge number of changes under the hood to make the update process simpler and more stable. A number of things precipitated these changes, including the rapidly expanding size of the database, increasing number of denormalized support databases, the need to run the site in a load balancing situation — and most [...]

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