web service

Web service
Higher Edu - Research dev card
Development from the higher education and research community
  • Creation or important update: 02/01/12
  • Minor correction: 02/01/12

Datum : web application for sharing data from databases

This software was developed (or is under development) within the higher education and research community. Its stability can vary (see fields below) and its working state is not guaranteed.
  • Web site
  • System:
  • License(s): GPL - v2
  • Status: internal use, under development
  • Support: maintained, ongoing development
  • Designer(s): Olivier Maury
  • Contact designer(s): Olivier.Maury (chez) grignon.inra.fr
  • Laboratory, service:

 

General software features

Datum is a web application, so a server-based software for use with a web browse. It aims sharin data from databases and information related to these databases:

  • sharing data and files, with access rights (management of users and permissions)
    • browsing tables and data from the database
    • data reports with charts (defined with SQL queries)
    • dynamic charts
  • display of the database schema
  • integration of datasets (CSV files)
  • project information : news, little CMS feature
  • user history, internationalisation, help, database management, statistics, ...

Some databases use specific module to :

  • change the interface layout
  • create template files for the integration
  • add specific integrations and data extractions

One software instance can manage several databases.
A daemon can run asynchronous tasks, as data extraction, without blocking the page display.

Datum is based on the PHP framework, Yii.

Context in which the software is used

Developed for one project, the application was made generic to interface the database of the research unit.

So, this common code base is used by several projects in the "Biosphere-Atmosphere" research team at INRA "Environnement et Grandes Cultures" and for the information system of SOERE PRO (Systems of observation and long-term experimentation for environmental research on organic wast products).

Higher Edu - Research dev card
Development from the higher education and research community
  • Creation or important update: 13/09/11
  • Minor correction: 28/09/11

SIGDEF : system for the management and distribution of software licenses

This software was developed (or is under development) within the higher education and research community. Its stability can vary (see fields below) and its working state is not guaranteed.
  • System:
  • Current version: 1.0 - 02/05/2011
  • License(s): GPL, CeCILL - En étude.
  • Status: internal use, under development
  • Support: maintained, no ongoing development
  • Designer(s): IRD - DSI - Service Informatique Scientifique : Stéphane DEBARD (conception), Geoffrey PASCAL (conception et développement)
  • Contact designer(s): stephane.debard@ird.fr
  • Laboratory, service:

 

General software features

SIGDEF is a generic designed application to deliver and manage licences. This tool is intended for IT support services. Two interfaces (one for users and another for administrators) allow to send orders to activate software licenses and to manage them easily.

1 - User Interface:

  • Identification (with a directory, a .htaccess file) or no identification.
  • Choice of the software and its version (management of both individual or grouped orders), choice of the installation of the application(s) following validation instructions.
  • Downloading documents related to usage and access rights (agreements, contracts, letters ...).
  • Summary and acceptance of the users' charter.

2 - Administrator Interface:

  • Control and validation of submitted orders (control of the user information and the user choices).
  • Email license sending after validation, validation may be done ​​by one or several services.
  • Synthesis and search of current orders, committed or sent.

Future work:
- Export raw results of the synthesis of commands.
- Specific requests and crossing data to make assessments on the controls.

The documentation is complete: installation, utilization and assessment, including the design documentation (database, workflow).

Context in which the software is used

Software editors allow software vendors to group the purchasing of licenses for several software packages in order to reduce costs. Companies delegate license management to the IT support services. These licenses are often distributed with the help of ID or activation files provided to the manager without the support of monitoring or management tools.

SIGDEF provide tools for the license management and deployment on a large scale.

SIGDEF is currently used in production (for more than one year) to manage licenses in Geographic Information Systems.
Two independent teams of the same ISD use this application to validate and distribute the licenses to their users (200 users).

Higher Edu - Research dev card
Development from the higher education and research community
  • Creation or important update: 02/05/11
  • Minor correction: 02/05/11

TASE : online tool for searching candidate regions from SNPs data

This software was developed (or is under development) within the higher education and research community. Its stability can vary (see fields below) and its working state is not guaranteed.
  • Web site
  • System:
  • Current version: 5.0 - 11/01/2011
  • Status: internal use
  • Support: maintained, ongoing development
  • Designer(s): M.HEBRARD, C.HAMEL, G.MANES, I.MOUGENOT
  • Contact designer(s): maxime.hebrard@inserm.fr
  • Laboratory, service:

 

General software features

TASE is a webtool dedicated to the study of hereditary diseases.

  • From a whole-genome SNP scan (Single Nucleotide Polymorphism), the soft identifying candidate regions which could contain the gene causing the disease.
  • TASE analyze data of DNA chips from 10K to 900K.
  • TASE have a web interface and is easy to use.

language: Javascript and Perl-cgi.

Other functions :

  • Display family tree using cranefoot (French cranefoot card).
  • Specific tests according family profile : autosomal dominante or recessive transmission, consanguineous family or not.
  • Select whitch individual you want to test and his status (sick or healthy).
  • Display graphic results in whole genome view or chromosome specific.
Context in which the software is used

Our team study hereditary retinal distrophies that are monogenic and very heterogeneous diseases.
TASE analyzes whole genome data (SNP chips) and display candidate regions.
Then these regions are sequencing to identify causative mutation.

Exemple of use :

  • Autosomal dominante transmission:
    • Identifying causative gene among known genes.
    • Finding unknown gene or locus in large family.
  • Autosomal recessive transmission:
  • Identifying causative gene among known genes, even small family (only 3 individuals).

Syndicate content