[mira_talk] Re: hybrid assembly crashes - file not found

On Monday 09 March 2009 Andreas Petzold wrote:
> [...]
> Before I kept all my experiment files in one separate folder and the "files
> to assemble" contained the correct paths. Now I started the assembly in the
> folder with the experiment files and everything seems to work fine ...
> I can't explain why but maybe you could try something for further
> debbuging: Make a assembly of 1000 (or more) experiment files that lie in
> another folder .... :-)

Hi Andreas,

sorry for the late reply, just came back from the VAAM 2009 conference where I 
had a short talk on sequencing and reseqeucnings and what nice thing one can 
do with hybrid data sets.

Awkward problem you have there. I also used that tactic earlier, but then 
switched to "just the filenames" in the fofn and setting a master directory 
name via "-DIR:exp=..." (before completely switching to FASTA + XML). I 
haven't used the path+filename in fofn since quite some time, perhaps something 
broke without me noticing.

I've taken it up on the TODO list, medium priority as you found a workaround, 
but would switch to "high" if you need it badly. Loading data should be 
something which works without crashing *sigh*

Regards,
  Bastien



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