Example configuration to set up custom Ensembl site using GenomeHubs
Either follow the full tutorial at genomehubs.gitbooks.io or try out the example script to get a GenomeHubs Ensembl site up and running as quickly as possible.
cd
git clone https://github.com/genomehubs/demo
cd demo
./demo.sh Sets up a GenomeHubs site hosting a mirror of the core database for the Glanville fritillary, Melitaea cinxia and imports the genome of the winter moth, Operophtera brumata, into a GenomeHubs site from FASTA and GFF
If the easy-mirror container is unable to connect to the mysql-server container this is usually because the mysql-server cintainer configuration did not finish before the easy-mirror container started. This will usually be resolved by rerunning the script.
If the containers already exist when either demo script is run, they will be removed. Rerun the the script to continue.
If any of the containers fail to run correctly with a permissions error this is likely to be due to running the scripts as a user with a UID other than 1000. There are work arounds for this but we are unable to support problems caused by incompatible users/permissions. Try again on a server/vm wher you are able to run Docker as UID 1000.
If you are not running Docker on a local machine and are unable to access the site on 127.0.0.1:8881, try following these suggestions to access the site.