You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
{{ message }}
This repository has been archived by the owner on Feb 6, 2024. It is now read-only.
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.
The text was updated successfully, but these errors were encountered:
Sign up for freeto subscribe to this conversation on GitHub.
Already have an account?
Sign in.
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.
The text was updated successfully, but these errors were encountered: