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- What is Tripal?
- --------------
- Tripal is a collection of open-source freely available Drupal modules
- and is a member of the GMOD family of tools. Tripal serves as a web
- interface for the GMOD Chado database and is designed to reduce the
- time and cost required for construction of an online genomic, genetic
- and breeding database.
- Features
- --------------
- - a Chado installer
- - Data loaders for ontologies (controlled vocabularies), GFF files,
- and FASTA files, publications (from PubMed and AGIRCOLA).
- - Generic Bulk Data Loader Modules allows for creation of custom
- loading templates.
- - Drupal nodes (web pages) are automatically generated for organisms,
- genomic features, biological libraries, and stocks
- - Supports creation of materialized views for faster data queries.
- - Display templates are provided for all content types for
- easier customization.
- - Views Integration allows for custom listings of data
- - Content pieces exposed as blocks allowing the use of Panels for
- custom layouts of Tripal Nodes
- Required Modules
- --------------
- - Drupal 7.x
- - Drupal Core Modules: Search, Path and PHP modules.
- - Drupal contributed modules: Views
- - Database containing GMOD Chado Schema (can be installed by the
- Tripal Core module)
-
- NOTE: A PostgreSQL database is required for installation of the
- Chado Schema
- Installation
- --------------
- Please follow the instructions in the online Tripal User's Guide:
- http://tripal.info/tutorials/v2.0/installation
- Upgrade from Tripal v2.x to v3.x
- ---------------------------------
- Note: Upgrade can only be performed using 'drush' command.
- Note: Deprecated API functions from Tripal v1.x have been removed from Tripal
- v3. Therefore, use of deprecated API functions in templates or custom
- modules may cause a white screen of death (WSOD). Check teh server logs if this
- occurs to find where deprecated functions may be used.
- Upgrade Instructions:
- Step 1: Put the site in maintenance mode.
- Step 2: Remove old Tripal v2 package and replace with Tripal v3 package
- Step 3: Enable the tripal module
- drush pm-enable tripal
-
- Step 4: Enable the tripal_chado module
- drush pm-enable tripal_chado
-
- Step 5: Apply updates
- drush updatedb
-
- Step 6: Return to your Tripal site, and click the link that appears for
- preparing Chado and launch the job.
- Customization
- --------------
- Tripal can be used “as is” but also allows for complete customization.
- PHP-based template files are provided for all data types to allow for
- precise customizations as required by the community. A well-developed
- Tripal API provides a uniform set of variables and functions for
- accessing any and all data within the Chado database.
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