Commit f9ec32db authored by Matthieu Muffato's avatar Matthieu Muffato
Browse files

Merge branch 'version/2.0' into HEAD

* version/2.0:
  Updated the installation guide for 2.0
  Updated the Doxygen doc for 2.0
  Added the Doxygen documentation
  Added scripts documentation
  Added docs/index.html and use rawgit in README.md
  typo
  Include the CSS for the eHive HTML doc
  Doc update to please Doxygen
  bugfix: in each branch README.md will have to refer to its own version of docs
  adding reformatted install.html and README.md links to HTML documents (relying on htmlpreview functionality)

Conflicts:
	docs/hive_schema.html
parents b19e557c 70c33b3c

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EnsEMBL Hive
============
eHive
=====
EnsEMBL Hive is a system for running computation pipelines on distributed computing resources - clusters, farms or grids.
eHive is a system for running computation pipelines on distributed computing resources - clusters, farms or grids.
The name "Hive" comes from the way pipelines are processed by a swarm of autonomous agents.
The name comes from the way pipelines are processed by a swarm of autonomous agents.
Blackboard, Jobs and Workers
----------------------------
......@@ -28,7 +28,7 @@ However in some sense an Analysis also acts as a "container" for them.
PipeConfig file defines Analyses and dependency rules of the pipeline
---------------------------------------------------------------------
Hive pipeline databases are molded according to PipeConfig files which are Perl modules conforming to a special interface.
eHive pipeline databases are molded according to PipeConfig files which are Perl modules conforming to a special interface.
A PipeConfig file defines the stucture of the pipeline, which is a graph whose nodes are Analyses
(with their code, parameters and resource requirements) and edges are various dependency rules:
* Dataflow rules define how data that flows out of an Analysis can be used to trigger creation of Jobs in other Analyses
......@@ -44,13 +44,17 @@ There are also other parameters of Analyses that control, for example:
* what should be autimatically done with a Job if it needs more memory/time,
etc.
Available documentation
-----------------------
The main entry point is in docs/index.html (available locally, offline).
The online version is hosted [here](https://rawgit.com/Ensembl/ensembl-hive/version/2.1/docs/index.html).
Contact us (mailing list)
-------------------------
EnsEMBL Hive was originally conceived and used within EnsEMBL Compara group
eHive was originally conceived and used within EnsEMBL Compara group
for running Comparative Genomics pipelines, but since then it has been separated
into a separate software tool and is used in many projects both in Genome Campus, Cambridge and outside.
There is a Hive users' mailing list for questions, suggestions, discussions and announcements.
There is eHive users' mailing list for questions, suggestions, discussions and announcements.
To subscribe to it please visit:
http://listserver.ebi.ac.uk/mailman/listinfo/ehive-users
To subscribe to it please visit (http://listserver.ebi.ac.uk/mailman/listinfo/ehive-users)
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