I have been trying to run IQ-tree for a while now with 3 data sets of alignments. I work on windows.
But I keep getting the following error message:
WARNING: 298 sequences contain more than 50% gaps/ambiguity
** TOTAL 65.17% 352 sequences failed composition chi2 test (p-value<5%; df=19)
NOTE: minimal branch length is reduced to 0.000000014689 for long alignment
Checking for duplicate sequences: done in 11.0597 secs using 384.3% CPU
ERROR:
ERROR: ** IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT
ERROR: For bug report please send to developers:
ERROR: Log file: alignment_predec1fixed.fasta.log
ERROR: Alignment files (if possible)
The example files work and I tried using iqtree version 2.2.0 and also the newest version iqtree 2.2.0.5
Using the "-t PARS" command works and creats a parsimony tree. But I need a maximum likelihood tree.
The alignment files are rather large (> 2GB), there are 352 protein sequences.
The command I used:
Command: iqtree2.exe -s alignment_predec1fixed.fasta -nt AUTO
Seed: 202760 (Using SPRNG - Scalable Parallel Random Number Generator)
for -nt I also used a fixed number of cores (16), but that didn't work either.
I have been trying to run IQ-tree for a while now with 3 data sets of alignments. I work on windows.
But I keep getting the following error message:
WARNING: 298 sequences contain more than 50% gaps/ambiguity ** TOTAL 65.17% 352 sequences failed composition chi2 test (p-value<5%; df=19) NOTE: minimal branch length is reduced to 0.000000014689 for long alignment Checking for duplicate sequences: done in 11.0597 secs using 384.3% CPU ERROR: ERROR: ** IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT ERROR: For bug report please send to developers: ERROR: Log file: alignment_predec1fixed.fasta.log ERROR: Alignment files (if possible)
The example files work and I tried using iqtree version 2.2.0 and also the newest version iqtree 2.2.0.5
Using the "-t PARS" command works and creats a parsimony tree. But I need a maximum likelihood tree. The alignment files are rather large (> 2GB), there are 352 protein sequences.
The command I used:
Command: iqtree2.exe -s alignment_predec1fixed.fasta -nt AUTO
Seed: 202760 (Using SPRNG - Scalable Parallel Random Number Generator)
for -nt I also used a fixed number of cores (16), but that didn't work either.