[ensembl-dev] virtual machine update/ensembl API

[juha.muilu at kolumbus.fi]

Hi Will and Andy, 
Great thanks for the help!  Should I update the bio-perl API as well ?
Cheers, Juha

Will McLaren [wm2 at ebi.ac.uk] kirjoitti: 
> Hi Juha,
> 
> You can use the INSTALL.pl script in
> $HOME/ensembl-api-folder/ensembl-tools/scripts/variant_effect_predictor/ to
> retrieve the latest cache files after you have done the CVS update as
> suggested by Andy.
> 
> Regards
> 
> Will McLaren
> Ensembl Variation
> 
> 
> On 8 November 2012 13:02, Andy Yates <ayates at ebi.ac.uk> wrote:
> 
> > Hi Juha,
> >
> > Currently our update procedure is to download a fresh VM from our FTP site
> > with each release as we will be introducing more things into it as we merge
> > our various internal VMs. However the APIs on the VMs are just CVS
> > checkouts with little dependency on the underlying OS so you can update say
> > the 68 API to 69 by doing:
> >
> > cd $HOME/ensembl-api-folder
> > for d in ensembl*; do
> > echo Updating $d
> > cd $d && cvs -q update -dP -A -r branch-ensembl-69 && cd -
> > done
> >
> > The VEP cache files need to be re-downloaded but there should be no OS
> > dependency issues with them
> >
> > Regards,
> >
> > Andy
> >
> > Andrew Yates                   Ensembl Core Software Project Leader
> > EMBL-EBI                       Tel: +44-(0)1223-492538
> > Wellcome Trust Genome Campus   Fax: +44-(0)1223-494468
> > Cambridge CB10 1SD, UK         http://www.ensembl.org/
> >
> > On 8 Nov 2012, at 05:27, juha.muilu at kolumbus.fi wrote:
> >
> > >
> > > Hi
> > > Wondering what  is the best procedure to update existing ensemble
> > virtual machine to the latest release.  Are there any dependencies with
> > operating system or cache settings variation api is using for example?
> > >
> > > Best regards, Juha
> > >
> > >
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