Re: [MUMmer-help] show-coords: show-coords.cc:1118: long int revC(long int, long int): Assertion `Len - Coord + 1 > 0' failed. Aborted

[Adam P. <aph...@gm...>]

Hi Art,
Can you double check that all of the sequence IDs in your reference and
query files are unique? i.e. the same ID is not repeated more than once per
file.

That failure happens when an alignment coordinate is outside of the range of
the sequence (usually a coordinate greater than the sequence length). I've
only ever seen it pop before when the sequence IDs weren't unique and the
program got confused about which sequence it was looking for.

Best,
-Adam


On Sat, Feb 26, 2011 at 11:00 AM, Arthur Pastuer
<art...@gm...>wrote:

> In my previous note I should have mentioned that I am applying the a delta
> filter with the -q option to the original delta file prior to running
> show-coords. When I run show-coords on the original delta file show-coords
> still works.
>
> art
>
>
> On Sat, Feb 26, 2011 at 10:46 AM, Arthur Pastuer <art...@gm...
> > wrote:
>
>>
>> What is the meaning of this the error below?
>> $show-coords -B file.delta > tab.file.coords
>> show-coords: show-coords.cc:1118: long int revC(long int, long int):
>> Assertion `Len - Coord + 1 > 0' failed.
>> Aborted
>>
>> This is the first time I have encountered this error and I am unsure why.
>> Is the error coming from line 1118 in the delta file?
>>
>> regards,
>> art
>>
>
>
>
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