WAVe 0.1: almost there!

I’m getting near version 0.1. In ideal conditions there is search, browsing, navigation… for all the genes… looking good so far!

The tree was almost finished today, time to add more and more features!

Houston, we have a Gene Tree!

There is a gene tree working on WAVe finally. Only missing the empty data types issue… I’ll try to correct it later… Content is only loaded in an iFrame also, it should be AJAX in a div, but for now it works!

Time for greater things: features, features, features! And a theme?

XmlCard Up

Today developed the algorithm for reading the tree for each gene… so many stuff to test (LSDB? no leafs? gene values or GeNS values? statis or dynamic?)

Therefore, XML card methods are done… and there is a lot of code to comment!!!

VarCrawler finito

Finally managed to finish the VarCrawler (sub)application for WAVe.

Deploy calls Creator and then Builder.

Creator for starting up and loading default values, Builder will read variants from all the web and load information from GeNS.

It is running now… for 6 hours and is at COLA63…

Back on builder

(Re)Started developing the variant reader. IDbases and other general databases are almost there. More on tomorrow!

MySQL is OK so far!

LSDB list final

Finalized the LSDB-Gene list with verification against IDBases, LOVD and UMD datbases.

Plenty more genes now (also removed lots of “dead” genes and other erroneous links! Sent it to Adam at Leicester… ask him to share with the world?

On other news, tomorrow time to migrate the system to MySQL!

Gene-LSDB list

Finished Stage 1 of the list containing LSDB and Gene relations. I won’t leave it like it is.
Next step will include careful verifications for each IDbases, UMD and LOVD (include version number) and a normalization of the list.

One file with all the lists will be easier to maintain.

Then, send it to Leicester.

DiseaseCard GeneCards Update

Updated DiseaseCard database to fit the new GeneCards link. And this was accomplished before UniProt!

(note: first post from MacJournal)

WAVe: jQuery Tree online

WAVe finally has a Javascript tree. There are many many issues with the data… PubMed ID values are being passed to OMIM addresses… don’t know what’s wrong!

Still have to rewrite the xmlCard methods and re-test (and comment) all the tree functions!

Semantic Web in 20 minutes – Part 2

Full morning presenting “Semantic Web in 20 minutes”. Several questions but I guess I’ve managed to explain everything… don’t really know what the general opinion from “upstairs” but we’ll see…

The afternoon was lost trying to install PHP and OpenConf in CICUA’s bioserver!