Bowtie2 build index

Question

[rahman.samir33]

Hi, I wanted to know how long it takes to build an index on bowtie2 using hg19. Bowtie2 creates 6 files with suffixes .1.bt2, .2.bt2, .3.bt2, .4.bt2, .rev.1.bt2, and .rev.2.bt2. .1.bt2, .2.bt2, .3.bt2, .4.bt2 have been created at least an hour ago. I am still waiting for the other two files.

These are the last few lines printed on my Mac terminal:

Entering Ebwt loop Getting block 1 of 1 No samples; assembling all-inclusive block Sorting block of length 2897310462 for bucket 1 (Using difference cover)

How much longer do I have to wait?

Answer 1

[GenoMax]

A couple of hours perhaps.

You could have downloaded pre-made indexes from here.

[rahman.samir33]

Thank you for your reply!