Download Fed

Fed : one program
for many web sites
and databases
Raymond Ripp
PHP Apache http server
Disk
access
Web
Classes
/fed/php
/classes/php
/fed/phpRR
/classes/phpRR
/fed/phpLP
/classes/phpLP
Raw data
Paris
Tuebingen
…
Internal function call
or Web Service
http://lbgi.igbmc.fr/gx/phpRR/ShowPeople.php
Web
services
GxDb
Postgresql databases
S
• /fedlord
Q
• /genoret
L
• /gx
• /RetinoBase
• /idv
BIRD
• /dbgs
Fed
RetinoBase
GxDb
People
• Each user has a login, password
– For the httpd server (Apache require valid-user)
– For the Php session
• forwarded to php if Apache logged (except admin)
• if explicitely required by the user
• Each php program has to protect himself
– isLogged, isInWp, iAmInGrog, isMember, …
– Can be integrated in all Sql access, to all
databases, to specific databases, …
Datafiles and Galleries
• Each datafile has an owner
• belongs to a Grog
• is referenced in one or more Galleries
• A gallery has a parent Gallery
• links to datafiles
• can contain sub-galleries
• created by the users
Antibodies list
Datafile
Antibodies
SOPs and
protocols
Galleries > Database : Upload, Direct Feeding, Querying
The website gives access to the raw data and to the relational database
Relational Database
Integration
Upload form
Ext
Prog
Some raw datafiles are referenced
in the database
Most of the data are integrated in
the SQL tables
Direct feeding
?
You
Fed Website Architecture
• a hierarchical 3 levels tree organisation
– sections
– categories
– buds
• stored as html file with <ul> and <li> in
website/own/desk/MenuBarBora.php.
•
•
•
•
•
a page corresponds to the display of a section/categorie/bud.
all buds of the displayed category are clickable
all categories of the displayed section are clickable
all sections are always available.
a page is displayed by a centralized .php program
FedHTMLDocument.php (still called GenoretHTMLDocument)
according to the CSS stored in
website/own/css/bora/Bora.css.php
• .php pages called Dazibao can be created or modified by users
Dazibao
• The php program of the
Dazibao can be edited
directly with the web
browser by users if
authorized.
• It can be referenced
everywhere in the php
programs or in the main
Menu
PipeWork is a web tool allowing the user
to create and evaluate his own flowcharts
to process, query, filter and display the data
First draft of the graphical tool
Genoret Database
Raymond Ripp
Database content
• 143 genoret members, 54 collaborators
• 1428 datafiles
– 430 images,162 ppt, , 60 xls, pdf 263, zip 17,
CEL 20
• 198 datafile galleries
• 50 SOP galleries
• Patient databases
– Genoret: 5695 patients
• 1949 London, 2100 Montpellier, 601 Bonn, 46 Paris
– AMD consortium: 3292 patients (1051 already
genotyped at CNG)
• 972 Baltimore, 601 Bonn, 300 Créteil, 255 Jerusalem
46 Paris, 1300 Southampton
InAnno
• 1667 eye
• 802 teeth
• 2000 ear