On Wed, Sep 26, 2012 at 11:26 PM, Dave Bouvier <dave@bx.psu.edu> wrote:

Kevin,

We decided to exclude fasta files mainly because 2bit is a lossless compression with a much lower file size, so it would be a waste of our users' bandwidth and time to include the (approximately) four times larger files when 2bit is available.

--Dave B.

On 9/25/12 20:55:31.000, Kevin Y wrote:

Thanks Dave,
A question before we go ahead, why are they missing in the first place?

Does the main galaxy not actually need them? are the tools moving away
from fa?

Cheers,
Kevin.

On Tue, Sep 25, 2012 at 11:12 PM, Dave Bouvier <dave@bx.psu.edu
<mailto:dave@bx.psu.edu>> wrote:

Kevin,

Correct, converting from 2bit to fasta shouldn't cause any problems.

--Dave B.

On 9/25/12 03:20:14.000, Kevin Y wrote:

Hi,

Thanks for providing the indexes via rsync::
http://wiki.g2.bx.psu.edu/__Admin/Data%20Integration

<http://wiki.g2.bx.psu.edu/Admin/Data%20Integration>

We've, noticed that despite soft links pointing to it, there are
no .fa
files for example in hg19/seq/
However there are 2bit files.

Would you guys recommend we convert them from 2bit to fasta?

Thanks,
Kevin.

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