zhxd2/tripal @ 1a6972a7c9720b04d82fae6d30928362a86b1b3b

Sen descrición

2027 Achegas

Stephen Ficklin 1a6972a7c9 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
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	f13f1597a0 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_bulk_loader	ccb384e703 Replaced tabs with two spaces... updated node template	%!s(int64=11) %!d(string=hai) anos
tripal_contact	48d3e87fe4 Fixed problem with contact relationships template	%!s(int64=11) %!d(string=hai) anos
tripal_core	f7da451138 More work on node template	%!s(int64=11) %!d(string=hai) anos
tripal_cv	6bbb3eb45b Fixed access arguments for all menu items	%!s(int64=11) %!d(string=hai) anos
tripal_db	6bbb3eb45b Fixed access arguments for all menu items	%!s(int64=11) %!d(string=hai) anos
tripal_example	3df4ac86f3 Contact: Added relationship form; Relationship API: fixed bug so works with non-ranked relationship tables	%!s(int64=11) %!d(string=hai) anos
tripal_feature	7069e91cb2 Updated node template CSS... working on adding node template details on each content block	%!s(int64=11) %!d(string=hai) anos
tripal_featuremap	7069e91cb2 Updated node template CSS... working on adding node template details on each content block	%!s(int64=11) %!d(string=hai) anos
tripal_genetic	6bbb3eb45b Fixed access arguments for all menu items	%!s(int64=11) %!d(string=hai) anos
tripal_library	7069e91cb2 Updated node template CSS... working on adding node template details on each content block	%!s(int64=11) %!d(string=hai) anos
tripal_natural_diversity	6bbb3eb45b Fixed access arguments for all menu items	%!s(int64=11) %!d(string=hai) anos
tripal_organism	f7da451138 More work on node template	%!s(int64=11) %!d(string=hai) anos
tripal_phenotype	6bbb3eb45b Fixed access arguments for all menu items	%!s(int64=11) %!d(string=hai) anos
tripal_project	a08eac1253 Pub: Added relationships to node form. Currently uses title which is not feasible for long titles	%!s(int64=11) %!d(string=hai) anos
tripal_pub	4d1d2ffc0b Forgot to change pasted name...	%!s(int64=11) %!d(string=hai) anos
tripal_stock	7069e91cb2 Updated node template CSS... working on adding node template details on each content block	%!s(int64=11) %!d(string=hai) anos
tripal_views	ccb384e703 Replaced tabs with two spaces... updated node template	%!s(int64=11) %!d(string=hai) anos
.gitignore	455df59fcc removing empty lines	%!s(int64=13) %!d(string=hai) anos
LICENSE.txt	f8f44afa9c Added orphaned form items to sync form. Library module is now converted.	%!s(int64=11) %!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. 

			
		