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FAILURE: fopen_or_die failed to open "tmp/<some-seq>.fa" for "rb" #4

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splaisan opened this issue Jun 1, 2017 · 2 comments
Open

FAILURE: fopen_or_die failed to open "tmp/<some-seq>.fa" for "rb" #4

splaisan opened this issue Jun 1, 2017 · 2 comments

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@splaisan
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splaisan commented Jun 1, 2017 •
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Hi,
I get this kind of error every couple of screens during RunLastzChain.sh (http://genomewiki.ucsc.edu/index.php/Whole_genome_alignment_howto#Example.2C_step_1:_Alignments_with_Blastz) execution and believe it has to do with lastz.
Is this normal like due to the presence of N'n in the sequence or does it reveal a problem with my code or lastz?
Thanks for your lights
Stephane
@jokelley
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I have the same question, was this ever answered, i cannot figure out why this fails for some of my lines.

@splaisan
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no clue, it is some time ago and I probably switched to other tools then due to lack of answers.
Sorry!

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@splaisan @jokelley