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start [2016/08/18 14:16] 132.168.73.77 [Example dataset] |
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hEIDI stands for (**h**) **E**xploitation et **I**ntégration des **D**onnées d'**I**dentification (Identification Data Exploitation and Integration) | hEIDI stands for (**h**) **E**xploitation et **I**ntégration des **D**onnées d'**I**dentification (Identification Data Exploitation and Integration) | ||
+ | |||
+ | ===== Versions and download ===== | ||
**Download** is available at the following FTP site : [[ftp://ftp.cea.fr/pub/edyp/heidi]] | **Download** is available at the following FTP site : [[ftp://ftp.cea.fr/pub/edyp/heidi]] | ||
+ | The last version of hEIDI, version 1.14.3, is compatible with [[http://biodev.extra.cea.fr/docs/irma|IRMA]] 1.31.1 (could be downloaded [[ftp://ftp.cea.fr/pub/edyp/irma|here]]) and [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=msidb#MSI_db_model|MSIdb Schema version E.2]] (See //Full Versions// bellow for more information) | ||
- | This application helps user go further with identified data. It works on [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=msidb|Mass Spectrometry Identification database]] (MSIdb) which compiles validated identification results and permit experts to do data mining on these results. | + | hEIDI allows the management, the filtering, the comparison and the export of multiple identification results. It is based on [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=msidb|Mass Spectrometry Identification databases]] (MSIdb) which compiles validated identification results. |
+ | |||
+ | ===== Main Features ===== | ||
Indeed, hEIDI has been developed to integrate the EDyP laboratory analysis pipeline : \\ | Indeed, hEIDI has been developed to integrate the EDyP laboratory analysis pipeline : \\ | ||
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{{ :pipeline.png |}} | {{ :pipeline.png |}} | ||
- | ==== Use cases ==== | + | |
+ | ===== Installation ===== | ||
+ | |||
+ | Here are described the requirements and installation steps needed to use hEIDI. | ||
+ | |||
+ | * Requirements | ||
+ | * Java version 1.6 or higher must be installed (in this case, download hEIDI-1.14.3-part1.zip and hEIDI-1.14.3-part2.zip) or get the hEIDI embedded jre (in this case download hEIDI-1.14.3-jre.zip) | ||
+ | * Postgresql server : Version 8.x or 9.x (See [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=msidb#installing_database|MSIdb]] page) | ||
+ | * IRMa | ||
+ | * get last version (1.31.1) on the dedicated [[ftp://ftp.cea.fr/pub/edyp/irma|FTP]] site | ||
+ | * see installation instruction : [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=instalguide|IRMa Installation]] | ||
+ | |||
+ | * Installation Steps | ||
+ | - Create a MSIdb on postgresql serveur : [[http://biodev.extra.cea.fr/docs/irma/doku.php?id=msidb#adding_a_msidb|MSIdb]] | ||
+ | - Unzip downloaded hEIDI file. (version 1.14.3) ftp://ftp.cea.fr/pub/edyp/heidi. | ||
+ | - Run <Heidi_folder>/bin/heidi.exe to launch hEIDI | ||
+ | |||
+ | |||
+ | ===== Example dataset ===== | ||
+ | |||
+ | The ftp folder [[ftp://ftp.cea.fr/pub/edyp/heidi]] contains a postgresql database dump (AT_CHLORO_EX.backup) that can be used as a test dataset to start with hEIDI. In order to use this database you must first connect to the postgresql server, create a new empty database then restore schema and data from the database dump file (see [[https://www.pgadmin.org/docs/1.22/restore.html|PgAdmin 'Restore' documentation page]]). Once the database is restored, follow the [[firstSteps|quick start guide]] steps to connect to this test database with hEIDI. | ||
+ | |||
+ | |||
+ | ===== how to use hEIDI ===== | ||
* Read our [[firstSteps|quick start guide]]. | * Read our [[firstSteps|quick start guide]]. | ||
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Read the [[.:userGuide:start|User documentation]] to understand main concepts and algorithms used in hEIDI. | Read the [[.:userGuide:start|User documentation]] to understand main concepts and algorithms used in hEIDI. | ||
- | ==== Versions ==== | + | ==== Full Versions ==== |
{{:msidb_irma_heidi_compat.png |Which hEIDI/IRMa/MSIdb}} | {{:msidb_irma_heidi_compat.png |Which hEIDI/IRMa/MSIdb}} |