This commit was manufactured by cvs2svn to create branch 'branch-
ensembl-68'.

Sprout from master 2012-07-20 10:02:54 UTC ridwan <ma7@sanger.ac.uk> 'rename external data link - small d in data'
Delete:
    ensembl/conf/ini-files/Homo_sapiens.ini
    ensembl/conf/ini-files/Ictidomys_tridecemlineatus.ini
    ensembl/conf/ini-files/Oryzias_latipes.ini
    ensembl/conf/ini-files/Otolemur_garnettii.ini
    ensembl/htdocs/info/docs/compara/blastz_net.inc
    ensembl/htdocs/info/docs/compara/epo.inc
    ensembl/htdocs/info/docs/compara/epo_lc.inc
    ensembl/htdocs/info/docs/compara/pecan.inc
    ensembl/htdocs/info/docs/genebuild/assembly.html
    ensembl/htdocs/ssi/species/Homo_sapiens_annotation.html
    lucene/modules/EnsEMBL/Web/Object/Search.pm
rename external data link - small d in data and adding pause to ajax wait
This commit was manufactured by cvs2svn to create branch 'branch-
ensembl-68'.

Cherrypick from master 2012-07-20 12:47:22 UTC Simon Brent <sb23@sanger.ac.uk> 'fixed sample transcript':
    ensembl/conf/ini-files/Homo_sapiens.ini
    ensembl/htdocs/ssi/species/Homo_sapiens_annotation.html
Variation ID link contains HTML, render it as such.
Transcript stable ID didn't match name
Updated the display
re-ran script as some dates were incorrect
Updated the Compara species tree and the related documentation
re-ran script as dates for some species were incorrect
fixed margins for columns (branch update)
Adding information about the JEnsembl API. Brought across from head
Carry over previous error handling commits from head onto branch.
TwoCol fixes (branch update)
Changed the bit about lexographical ordering. Will move to HEAD
Bad link to wikipedia
check for group_total < 0 instead of == -1
e68 ami ids
This commit was manufactured by cvs2svn to create branch 'branch-
ensembl-68'.

Cherrypick from master 2012-07-31 09:43:57 UTC Bronwen Aken <ba1@sanger.ac.uk> '*** empty log message ***':
    ensembl/conf/ini-files/Ictidomys_tridecemlineatus.ini
    ensembl/conf/ini-files/Oryzias_latipes.ini
    ensembl/conf/ini-files/Otolemur_garnettii.ini
    ensembl/htdocs/info/docs/compara/blastz_net.inc
    ensembl/htdocs/info/docs/compara/epo.inc
    ensembl/htdocs/info/docs/compara/epo_lc.inc
    ensembl/htdocs/info/docs/compara/pecan.inc
    ensembl/htdocs/info/docs/genebuild/assembly.html
    lucene/modules/EnsEMBL/Web/Object/Search.pm
add in mising squirrel alias (bp1)
updated UCSC verison of the assembly to be mm10