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tripal
Lacey Sanderson d28fa625bb MViews: Added new default view %!s(int64=11) %!d(string=hai) anos
docs 8a898014b8 Renamed branch from 7.x-1.x to 7.x-2.x. Also merged bug fixes from 6.x-1.x %!s(int64=11) %!d(string=hai) anos
tripal_analysis a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_bulk_loader b48bdacee4 Changed the description of the default admin views to stipulate not to disable them %!s(int64=11) %!d(string=hai) anos
tripal_contact a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_core d28fa625bb MViews: Added new default view %!s(int64=11) %!d(string=hai) anos
tripal_cv 8c80a17d2e Transactions are working on GFF loader and added to OBO Loader %!s(int64=11) %!d(string=hai) anos
tripal_db b48bdacee4 Changed the description of the default admin views to stipulate not to disable them %!s(int64=11) %!d(string=hai) anos
tripal_feature ea9feba75a added missing file, fixed mistake with two form_alter hooks in pub module %!s(int64=11) %!d(string=hai) anos
tripal_featuremap a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_genetic 388be47c64 Changed dependancies making tripal_views required %!s(int64=11) %!d(string=hai) anos
tripal_library a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_natural_diversity 388be47c64 Changed dependancies making tripal_views required %!s(int64=11) %!d(string=hai) anos
tripal_organism a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_phenotype 388be47c64 Changed dependancies making tripal_views required %!s(int64=11) %!d(string=hai) anos
tripal_project a77526a07e Removed ability to preview nodes. The templates are messed up in preview and it's easier to just remove the button %!s(int64=11) %!d(string=hai) anos
tripal_pub ea9feba75a added missing file, fixed mistake with two form_alter hooks in pub module %!s(int64=11) %!d(string=hai) anos
tripal_stock 93b64de231 Merge branch '7.x-2.x' of git.drupal.org:sandbox/spficklin/1337878 into 7.x-2.x %!s(int64=11) %!d(string=hai) anos
tripal_views 9350baa59b Jobs: Added Views Integration and new default view %!s(int64=11) %!d(string=hai) anos
.gitignore 455df59fcc removing empty lines %!s(int64=13) %!d(string=hai) anos
README.txt 8a898014b8 Renamed branch from 7.x-1.x to 7.x-2.x. Also merged bug fixes from 6.x-1.x %!s(int64=11) %!d(string=hai) anos

README.txt

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 allow anyone
with genomic data to quickly create an online genomic database using
community supported tools.


Features
--------------
- a Chado installer
- Data loaders for ontologies (controlled vocabularies), GFF files,
and FASTA files
- Generic 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
- Web pages can be enriched with analysis results from BLAST,
KAAS/KEGG, InterProScan, and Gene Ontology (GO)
- 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 6.x (work is currently underway for a 7.x compatible
version)
- Drupal Core Modules: Search and Path
- 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

Highly Recommended Modules
- Views 2.x (Views 3.x compatible version already exists in 6.x-0.4-dev)
- Views Data Export


Installation
--------------
Please follow the online tutorial for installation instructions:
http://www.gmod.org/wiki/Tripal_Tutorial_v1.1


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.


Future Work
--------------
Currently, Tripal only supports a large subset of the
current Chado schema, but further development is underway. Meanwhile,
others can use the Tripal API to develop their own extensions. Those
extensions can in turn be made available for anyone to use. These
custom extensions, the Tripal package, and access to support resource
such as an active mailing list can be found on the Tripal website
(http://tripal.sourceforge.net).

For more information, see the recent publication:

Stephen P. Ficklin, Lacey-Anne Sanderson, Chun-Huai Cheng, Margaret
Staton, Taein Lee, Il-Hyung Cho, Sook Jung, Kirstin E Bett, Dorrie
Main. Tripal: a construction Toolkit for Online Genome Databases.
Database, Sept 2011. Vol 2011.