Re: [MUMmer-help] MUMmer: Promer Nucmer errors

[Apurv P. <apu...@gm...>]

Alex,
I tried the file conversion but still no luck. To make sure, lets say I
converted test.fasta to UNIX format. What does the new file name look like?
I want to make sure I followed the procedure to the tee. Thanks for your
help.
------------------------------------------------------------
Apurv Puri
University of Illinois at Urbana-Champaign
Chemical & Biomolecular Engineering
apu...@gm...
814 490 7971



On Tue, Oct 20, 2009 at 2:07 PM, Bossers, Alex <Ale...@wu...> wrote:

>  I am not sure if this is your problem but when I notice non zero errors
> its usually because I migrate files between unix and windows which use
> different line-endings. Convert your fasta files to unix format (various
> ustils but Notepad++ is a free good solution on windows).
>
> This usually resolves it for me.
>
> Alex
>
>
>
>
>
> *From:* Apurv Puri [mailto:apu...@gm...]
> *Sent:* Monday, October 19, 2009 12:28 AM
> *To:* mum...@li...
> *Subject:* [MUMmer-help] MUMmer: Promer Nucmer errors
>
>
>
> Hi,
> I've been having some problems using the promer and nucmer options of the
> mummer program. The following error keeps popping up when I use Promer and
> Nucmer.
>
> Promer
> ERROR: prepro -r returned non-zero
>
> Nucmer
> ERROR: prenuc -r returned non-zero
>
> The scripts in aux_bin seem to not work. I am not sure if it is the query
> or reference files that keep producing these errors. I am absolutely sure I
> am using fasta format files. Any help is appreciated.
> ------------------------------------------------------------
> Apurv Puri
> University of Illinois at Urbana-Champaign
> Chemical & Biomolecular Engineering
> apu...@gm...
> 814 490 7971
>
>
>