[AMOS-help] Error message with Hawkeye using Velvet.asm.afg file

[Luke S. <luk...@uw...>]

Greetings,
I have run ~5 million fastq reads through Velvet and created the asm.afg
file for Amos. For what it's worth, my Velvet commands are as follows:
  ./velvetg output_directory/ -cov_cutoff 4 -min_contig_lgth 100
-read_trkg  yes -exp_cov auto -amos_file yes

then I used Amos (commands):
   bank-transact -cf \
    -m <my.afg> \
    -b <my_new.bnk>

Unfortunately, when I try to run Hawkeye (Command: hawkeye my_new.bnk) and
I am getting an error message which I am trying to figure out:

> Session management error: None of the authentication protocols specified
> are supported
> Opening my_new.bnk... ERROR in openBank():
> WHAT: Could not open bank file, my_new.bnk/CTG.ifo, No such file or
directory
> LINE: 1037
> FILE: Bank_AMOS.cc
> Loading mates
> inserts: 0 mated: 0 matelisted: 0 unmated: 0 happy: 0 unhappy: 0
> Segmentation fault

So, I opened the file my_new.bnk and found a "RED.ifo"(all files were
"RED.some_suffix"), but no "CTG.ifo". Perhaps this has something to do with
Velvet's data transformation to .afg file, and/or the way I processed the
data in Velvet (which was by the book/default-standard). I cannot locate
any Velvet output files.ifo.

I'm now considering starting the whole process over and running the data
instead entirely through Amos, but am thinking it may not be able to
handle the ~5 million fastq short reads..

Any suggestions or ideas?

Thanks,
Luke