Re: [galaxy-dev] missing .fa files in rsync datacache indexes

2012-09-26 Thread Dave Bouvier
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,

Re: [galaxy-dev] missing .fa files in rsync datacache indexes

2012-09-26 Thread Kevin Y
Thank again Dave, For anyone who is interested, I've written a script for converting the 2bit's into fa's here: https://bitbucket.org/gvl/gen_loc_files Also packaged is a script to generate loc files by traversing the rsynced folder, there is more work to be done on it though. All

Re: [galaxy-dev] missing .fa files in rsync datacache indexes

2012-09-25 Thread Dave Bouvier
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 We've, noticed that despite soft links pointing to it, there

Re: [galaxy-dev] missing .fa files in rsync datacache indexes

2012-09-25 Thread Kevin Y
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 d...@bx.psu.edu wrote: Kevin, Correct, converting from 2bit to