Hello Galaxy,
We are implementing a fresh instance of Galaxy in the school server for teaching purposes. So obtaining genomic data from the UCSC servers can present a problem by overloading the connection. To make things faster, we want to obtain the data for the genomic data and have it in our servers, speeding up data retrieval. At first I was under the impression that we had to use MySQL for this, and downloaded MySQL files from the UCSC servers by using:
$ rsync -avzP rsync:// hgdownload.cse.ucsc.edu/mysql .
We have successfully added the data to MySQL in our server, but now do not know how to make galaxy see the data. However after searching more about the problem, I found out that I could have used the following instead:
$ rsync -avzP rsync://datacache.g2.bx.psu.edu/indexes/ .
Was downloading the mysql files unnecessary or can I still be able to use them? Also, would it be more efficient to use the second rsync option instead?
Thank you for your help, --Ricardo Perez