Question: Maf Alignments
0
Stewart Stevens • 20 wrote:
Hi,
I have a local Galaxy instance. (http://bioanalysis.otago.ac.nz/
galaxy) A problem I'm having is when I try to extract a multiple
alignment I get an error, "The MAF source specified
(28_WAY_MULTIZ_hg18) appears to be invalid.,"
The background is that I have downloaded the alignment from
http://hgdownload.cse.ucsc.edu/goldenPath
and modified the maf_index.loc file according to the commented
example.
I'm new to python but I did have a look in the debugger and it seems
to be missing an index file. The parameters it has loaded from
maf_index.loc appear to be as expected. I'm guessing with more
looking at the code it will become clear that a script to produce
these indexes from mafs needs to be run. Or should these indexes be
being built on the fly? Maybe someone can save me a load more
digging? Thanks if you can!
Cheers,
Stewart
--
Stewart Stevens
Software Developer - Integrated Genomics
University of Otago
Department of Biochemistry
Tel: +64(0)3 479 7863
Fax: +64(0)3 479 7866
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modified 10.0 years ago
by
Daniel Blankenberg ♦♦ 1.7k
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written
10.0 years ago by
Stewart Stevens • 20
