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68 Open 158 Closed
68 Open 158 Closed
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Issues list

adding -mem to partitioned models like -S search
#346 opened Nov 8, 2024 by drelo
Show meaningful error when partition names include illegal characters
#342 opened Oct 31, 2024 by roblanf
ntmax not obeyed
#340 opened Oct 30, 2024 by digitalwright
7
Could an option be added to tell iqtree2 not to change sequence identifiers?
#335 opened Oct 23, 2024 by terrycojones
2
Gamma discretization in AliSim not consistent with tree estimation
#333 opened Oct 16, 2024 by lemmonquiche
3
-blfix flag does not prevent reoptimization of branch lengths
#329 opened Oct 12, 2024 by davidcerny
Matching Gene Trees in Treefile to Alignment File Names
#327 opened Oct 8, 2024 by simone-says
1
ERROR: phylotreepars.cpp:63: void PhyloTree::computePartialParsimonyFast(PhyloNeighbor*, PhyloNode*): Assertion `!aln->ordered_pattern.empty()' failed.
#320 opened Sep 18, 2024 by buiguesj
1
Model selection time is ~20x slower on the Windows binary vs the Linux binary
#318 opened Sep 13, 2024 by Thernn88
Concordance Analysis Bug - Large Number of Partitions?
#316 opened Sep 10, 2024 by jasongallant
6
ERROR: File not found AA
#314 opened Sep 2, 2024 by wenhaoli-wenhaoli
4
IQ-TREE multicore version 2.3.6 for Linux x86 64-bit issue with core usage when using -T AUTO and --threads-max combination
#312 opened Aug 29, 2024 by uee9
4
-MFP fails with parition option -q
#311 opened Aug 28, 2024 by roblanf
2
Feature Request: Add option to output nhx instead of iqtree specific newick
#310 opened Aug 27, 2024 by ammaraziz
EX2 model inconsistent lnl btwn .sitelh and .log files when -blfix specified
#309 opened Aug 27, 2024 by evolbeginner
Inconsistent results from AU-test
#308 opened Aug 26, 2024 by marybarker
2
Segmentation fault with large input matrix
#303 opened Aug 19, 2024 by AryehMiller
2
Error message could be more helpful when file not found
#302 opened Aug 17, 2024 by corneliusroemer
Why does cmaple cause two versions of iqtree to be available: iqtree and iqtree-aa?
#299 opened Aug 12, 2024 by corneliusroemer
ERROR: ratefree.cpp:199: virtual void RateFree::initFromCatMinusOne(Checkpoint&, double): Assertion `fabs(sum_prop + getPInvar() - 1.0) < 0.01' failed.
#291 opened Aug 1, 2024 by yeeus
@thomaskf
3
Web docs (and wiki) are different from cli help
#287 opened Jul 28, 2024 by ammaraziz
Manual out of date with respect to -t RANDOM
#286 opened Jul 27, 2024 by davidcerny
[Feature Request] Add support for the --link-exchange-rates option in the MAST model enhancement New feature or request
#285 opened Jul 26, 2024 by StefanFlaumberg
@thomaskf
2
Despite passing --output-multifurcating-tree, resulting tree is bifurcating, when run in cmaple mode
#283 opened Jul 25, 2024 by corneliusroemer
1
Cmaple CLI args not appearing in help string
#282 opened Jul 25, 2024 by corneliusroemer
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