Segmentation fault when setting large minimum branch length

[corneliusroemer]

Running with current master self-compiled causes segfault. I think the min-blength is too large (larger than 1 mutation) - this should not cause segfault though :)

/build/cmaple -aln ../mpox/phylogenetic/results/clade-i/masked.fasta --search exhaustive --out-mul-tree --min-blength 0.0001  -nt AUTO --overwrite
CMAPLE version 1.1.0 for Mac OS X 64-bit built Mar 20 2025
Developed by Nhan Ly-Trong, Chris Bielow, Nicola De Maio, Bui Quang Minh.

Command: ./build/cmaple -aln ../mpox/phylogenetic/results/clade-i/masked.fasta --search exhaustive --out-mul-tree --min-blength 0.0001 -nt AUTO --overwrite
Seed:    621520

Reading an alignment
Auto select GTR model for DNA data
Performing placement
ERROR:
ERROR: *** CMAPLE CRASHES WITH SIGNAL SEGMENTATION FAULT
ERROR: *** For bug report please send to developers:
ERROR: ***    Log file: ../mpox/phylogenetic/results/clade-i/masked.fasta.log
ERROR: ***    Alignment files (if possible)
zsh: segmentation fault  ./build/cmaple -aln ../mpox/phylogenetic/results/clade-i/masked.fasta --searc

The file for reproduction is here: masked.fasta.zst.txt

[trongnhanuit]

Hi @corneliusroemer,
Thank you for checking and reporting the bug. I've checked it and will let you know once it's done. Thanks.

Best,
Nhan

[trongnhanuit]

Hi @corneliusroemer,
Sorry for the late response. This bug has been fixed in the commit 0a6b2fc. That bug fix will be included in the next release. In the meantime, please use this unofficial release v1.1.0.fix2.

Thank you very much for using CMAPLE and reporting the bug.

Cheers,
Nhan