Groups
Sign in
Groups
IQ-TREE
Conversations
Labels
-fconst
-p
-sup
ANT
ASR
AU_test
Announcement
Ans
Answered
BEST
BUG
Bootstrap
ELW
IQtreeErrors
Info
InvalidModel
LSD2
MERGE
MODEL
Mixed_data
ModelFinder
Noresponse
PLL
PMSF
Partition
PoMo
Possibly-resolved
Question
Redundant
Release
Request
Resolved
Resolved-v156
SELECT
SNP
THE
TO
TODO
Unrelated
WITH
acids
added-in-v156
amino
automatic
branch
calculation
check-v16
checkpoint
code
codon
comparison
consensus
crash
datatype
definition
detection
distance
distribution
documentation
error
exclude
feature-request
freerate
gCF
gamma
genome
heterotachy
homebrew_issue
iqtree
irreversible
likelihood
lost-terminal
low-priority
meta-partitions
missing
mldist
modeel
modeltest
morphological
morphology
mpi
network
node
option
pairwisedistance
parallel
performance
phylogenomics
polymorhism
polytomy
position
quartetmapping
rate
relative
rooted
selection
site
site-likelihood
slurm
speed
test
timing
too-add-to-manual
topology
total-evicence
tree
tree_tag
user_trees
v156
v160
v168
v16beta5
value
About
Send feedback
Help
IQ-TREE
1–21 of 1859
We've now moved to
https://github.com/iqtree/
iqtree2/discussions
. Please ask your question there. This Google group is now closed and for archival purpose only.
Mark all as read
Report group
0 selected
ffish
9/22/22
BUG: IQTree crashes when using -wpl
Hello, Thank you for developing and maintaining iqtree, it's really the best! Last month I posted
unread,
BUG
IQtreeErrors
crash
BUG: IQTree crashes when using -wpl
Hello, Thank you for developing and maintaining iqtree, it's really the best! Last month I posted
9/22/22
Flávia Pezzini
,
Heiko Schmidt
3
6/17/20
Q&A
ERROR: Tree taxa and alignment sequence do not match - LSD2
Hi Heiko, Thank you! All working fine now. With all best wishes, Flávia On Wed, 17 Jun 2020 at 18:34,
unread,
IQtreeErrors
LSD2
error
Q&A
ERROR: Tree taxa and alignment sequence do not match - LSD2
Hi Heiko, Thank you! All working fine now. With all best wishes, Flávia On Wed, 17 Jun 2020 at 18:34,
6/17/20
Gabriel DUPRE
, …
Minh Bui
8
7/3/20
Q&A
"IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT", ASR anlysis with codon model
Hi Gabriel, I suggest that you avoid doing codon models for tree reconstruction for your dataset:
unread,
ASR
IQtreeErrors
codon
error
Q&A
"IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT", ASR anlysis with codon model
Hi Gabriel, I suggest that you avoid doing codon models for tree reconstruction for your dataset:
7/3/20
Gabriel DUPRE
,
Minh Bui
2
6/12/20
Q&A
error message after tree construction and asr analysis with codon models ("ERROR: File not found MG")
Hi Gabriel, Simple answer: you forgot to set the sequence type as codon: -st CODON (for standard
unread,
IQtreeErrors
MODEL
codon
option
Q&A
error message after tree construction and asr analysis with codon models ("ERROR: File not found MG")
Hi Gabriel, Simple answer: you forgot to set the sequence type as codon: -st CODON (for standard
6/12/20
Kuselah Tayaban
, …
Minh Bui
7
6/9/20
Q&A
data input error
Hi Minh, I forgot to check file permission. It already worked! Thanks a lot, Kuselah On Tuesday, June
unread,
IQtreeErrors
Question
error
iqtree
Q&A
data input error
Hi Minh, I forgot to check file permission. It already worked! Thanks a lot, Kuselah On Tuesday, June
6/9/20
Emma Carroll
,
Minh Bui
2
5/10/20
Q&A
Bug: error when adding date file
Hi Emma, It seems like something wrong with your dates. Can you please check the format again, eg
unread,
BUG
IQtreeErrors
error
tree_tag
Q&A
Bug: error when adding date file
Hi Emma, It seems like something wrong with your dates. Can you please check the format again, eg
5/10/20
Sarah Lock
,
Minh Bui
2
4/27/20
Q&A
IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT? - version 1.6.6
Hi Sarah, There is something wrong in the PLL library used internally in IQ-TREE to compute a
unread,
BUG
IQtreeErrors
Partition
Question
Request
error
iqtree
Q&A
IQ-TREE CRASHES WITH SIGNAL SEGMENTATION FAULT? - version 1.6.6
Hi Sarah, There is something wrong in the PLL library used internally in IQ-TREE to compute a
4/27/20
David Diaz Escandon
2
3/4/20
BUG: Mixed models IQtree 2.0-rc1
She actually post a question https://groups.google.com/d/topic/iqtree/LYhF3oxafto/discussion, but so
unread,
BUG
IQtreeErrors
Partition
error
BUG: Mixed models IQtree 2.0-rc1
She actually post a question https://groups.google.com/d/topic/iqtree/LYhF3oxafto/discussion, but so
3/4/20
Bruno Donzelli
, …
Minh Bui
3
3/4/20
Q&A
iqtree 2.0 crushes at while computing bootstrap consensus tree..
Hi there, Pls add “--no-terrace” option, it was discussed in another recent thread. Thanks! Minh On 3
unread,
BUG
IQtreeErrors
Q&A
iqtree 2.0 crushes at while computing bootstrap consensus tree..
Hi there, Pls add “--no-terrace” option, it was discussed in another recent thread. Thanks! Minh On 3
3/4/20
Jacopo Martelossi
,
Minh Bui
2
11/25/19
Q&A
IQ-TREE CRASHES WITH SIGNAL ABORTED while computing likelihood mappin
Hi Jacopo, Someone else also reported this (perhaps same) issue with the likelihood mapping. I could
unread,
IQtreeErrors
crash
error
quartetmapping
Q&A
IQ-TREE CRASHES WITH SIGNAL ABORTED while computing likelihood mappin
Hi Jacopo, Someone else also reported this (perhaps same) issue with the likelihood mapping. I could
11/25/19
John jiang
,
Minh Bui
2
6/26/19
Q&A
For your convenience alignment with variable sites printed to file.phy
Hi John, Please first have a look at this FAQ: http://www.iqtree.org/doc/Frequently-Asked-Questions#
unread,
IQtreeErrors
Question
SNP
Q&A
For your convenience alignment with variable sites printed to file.phy
Hi John, Please first have a look at this FAQ: http://www.iqtree.org/doc/Frequently-Asked-Questions#
6/26/19
gusta10
,
Minh Bui
2
1/12/19
Q&A
ERROR too large ID using DNA and CODON5
Hi there, On 9 Jan 2019, at 3:49 pm, gusta10 <gus.san...@gmail.com> wrote: Hi all, I have
unread,
Answered
IQtreeErrors
Partition
Q&A
ERROR too large ID using DNA and CODON5
Hi there, On 9 Jan 2019, at 3:49 pm, gusta10 <gus.san...@gmail.com> wrote: Hi all, I have
1/12/19
Chloe Ambroset
, …
Minh Bui
5
8/21/18
Q&A
Crash with Tree topology test using webserver
Hi David and Chloe, Here is the thread explaining it: https://groups.google.com/forum/#!topic/iqtree/
unread,
Answered
BUG
IQtreeErrors
Q&A
Crash with Tree topology test using webserver
Hi David and Chloe, Here is the thread explaining it: https://groups.google.com/forum/#!topic/iqtree/
8/21/18
Karen Siu Ting
,
Minh Bui
4
3/18/18
Q&A
BUG: IQtree crashes during bootstrap running with predefined codon model
Hi Karen, While fixing this bug, I notice some obvious error in your alignments: That means, the
unread,
BUG
IQtreeErrors
Resolved
Q&A
BUG: IQtree crashes during bootstrap running with predefined codon model
Hi Karen, While fixing this bug, I notice some obvious error in your alignments: That means, the
3/18/18
adtw...@gmail.com
,
Dominik Schrempf
4
4/7/18
Q&A
PoMo errors: ascertainment bias, polymorphism, and scaffold numbering
Hi Alex, I am glad that it worked! You are right. You can compare the "PoMo branch lengths"
unread,
Answered
IQtreeErrors
PoMo
polymorhism
Q&A
PoMo errors: ascertainment bias, polymorphism, and scaffold numbering
Hi Alex, I am glad that it worked! You are right. You can compare the "PoMo branch lengths"
4/7/18
Michal Motyka
,
Bui Quang Minh
2
11/1/17
Q&A
Constrained topology
Hi Michal, The command line looks OK. However, it's hard to help here without looking at the
unread,
IQtreeErrors
Noresponse
topology
user_trees
Q&A
Constrained topology
Hi Michal, The command line looks OK. However, it's hard to help here without looking at the
11/1/17
Gavin Martin
,
Heiko Schmidt
5
9/15/17
Q&A
Problem with constrain File
Thank you, it looks like the problem was that I had single entities within their own brackets. All
unread,
IQtreeErrors
Question
Q&A
Problem with constrain File
Thank you, it looks like the problem was that I had single entities within their own brackets. All
9/15/17
Umberto Perron
,
Bui Quang Minh
2
8/29/17
Q&A
“ERROR: Rate entries could not be read” when using custom codon exchange rates and frequencies
Dear Umberto, The documentation (http://www.iqtree.org/doc/Substitution-Models#codon-models) about
unread,
IQtreeErrors
Resolved
v156
Q&A
“ERROR: Rate entries could not be read” when using custom codon exchange rates and frequencies
Dear Umberto, The documentation (http://www.iqtree.org/doc/Substitution-Models#codon-models) about
8/29/17
Max Schön
, …
Minh Bui
6
7/9/18
Q&A
iqtree crashes when using ultrafast bootstraps and tree topology contraint
Dear Swati, I believe such “old" problem has been resolved. So before we can provide further
unread,
BUG
IQtreeErrors
Resolved
topology
Q&A
iqtree crashes when using ultrafast bootstraps and tree topology contraint
Dear Swati, I believe such “old" problem has been resolved. So before we can provide further
7/9/18
Steven Mussmann
,
Bui Quang Minh
3
5/2/17
Q&A
Partition finding error
Great, thank you. I will give this a try and report back. -Steve
unread,
IQtreeErrors
Partition
Q&A
Partition finding error
Great, thank you. I will give this a try and report back. -Steve
5/2/17
Tarun JaiRaj Narwani
, …
Tung Nguyen
4
5/19/16
Q&A
IQTree_Crashes: Two_DATASETS_TWO_ERRORS
Dear Tarun, The MPI version of IQ-TREE is not quite ready yet because we still need to test it
unread,
IQtreeErrors
InvalidModel
Q&A
IQTree_Crashes: Two_DATASETS_TWO_ERRORS
Dear Tarun, The MPI version of IQ-TREE is not quite ready yet because we still need to test it
5/19/16