Hello, מירב

It looks like the indexing system/format in 'bwa index' has changed

and we haven't updated the wiki to reflect the changes.

The reverse index (which includes the .r* files) are now part of the forward index. You

should be fine to proceed.

I'll update the wiki to reflect this.

From https://github.com/lh3/bwa/blob/master/NEWS :

Release 0.5.10 and 0.6.0 (12 November, 2011)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

The 0.6.0 release comes with two major changes. Firstly, the index data structure has been changed to support genomes longer than 4GB. The forward and reverse backward genome is now integrated in one index.

On Thu, May 30, 2013 at 8:03 AM, מירב . <mermam@gmail.com> wrote:

Hello all,

I am trying to install BWA , I used the command:
" bwa index -a bwtsw /global_data/hg18full.fa " and I got only 5 files insted of 8

The missing files are
rbwt
rpac
.rsa
I didn't recieve any error message while running.
thanks for your help

merav

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