Hi, Does anyone know how to access the locally cached alignment files (MAF)? On the website: Under "Fetch Alignments/Sequences" > "Extract MAF blocks", you get to a screen with a pull-down menu labeled "MAF source". Here, there is an option "Locally cached alignments", however clicking on it does nothing. Am I missing something? Thanks, Merwin
The database metadata assignment for the input interval file needs to be assigned. Currently at Galaxy Main (http://usegalaxy.org), MAF indexes are available for the genome databases hg19 and dm3.
Thanks, Jen, Galaxy team
I added a metadata line to my interval data file, but under "Choose MAF source" it still says "No options available." This is the first two lines of my interval file:
track name=pleioRegions db=hg19
chr3 3400000 4500000 1 0.3 +
Any idea of what I'm doing wrong?
Thank you, Merwin
The track line is not needed and may cause other problems with this tool. Instead, assign the hg19 database to the dataset itself. Do this by clicking on the pencil icon (top right corner of a dataset's box in the history) and changing the database assignment on the Edit Attributes forms that come up in the middle pane and save.