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citiususc / veryfasttree

Efficient phylogenetic tree inference for massive taxonomic datasets
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Failure at Neighbor Joining #3

Closed Cyoung02 closed 1 year ago

Cyoung02 commented 4 years ago

Running Very FastTree fails when I run it on the following dataset: full.true.aln.zip

here's how i ran it

cat ../full.true.aln | VeryFastTree -gamma -nt -gtr -out veryfast.tre -log veryfastlog2.log -verbose 999

and here's the error message:

3966.46 seconds: ML Lengths 1 of 2320 splits
VeryFastTree: /home/colin/Desktop/NiemaLab/comparisons/veryfasttree/src/NeighbourJoining.tcc:1029: double veryfasttree::NeighbourJoining<Precision, Operations>::pairLogLk(veryfasttree::NeighbourJoining<Precision, Operations>::Profile&, veryfasttree::NeighbourJoining<Precision, Operations>::Profile&, double, double*) [with Precision = float; Operations = veryfasttree::SSE128Operations]: Assertion `lkAB > 0' failed.
Aborted (core dumped)

Thanks

cesarpomar commented 4 years ago

Hi, sorry by the delay. I will look for the problem.

cesarpomar commented 3 years ago

Asset errors are legacy FastTree checks. Your dataset is too large for debugging tests (more than 2 hours and no errors), I need a smaller dataset.

cesarpomar commented 1 year ago

I've tested with VeryFastTree 4.0 and no errors were found. I'm closing the issue, but you can reopen it if needed.