I have successfully used the "Extract MAF blocks" tool from Galaxy, using the cached alignments. However, when trying to import MAF blocks (mm9) from UCSC genome browser, Galaxy seems not to be recognizing the file. First, the number of blocks appears as: ? blocks and species are not recognized. Even trying to update metadata does not change this information. The file itself does not show signs of corruption. Any suggestions on how to solve this issue?
Thank you. Ana.