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All sequences failed composition #243

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abcdefghijklmn97 opened this issue Feb 23, 2023 · 0 comments
Open

All sequences failed composition #243

abcdefghijklmn97 opened this issue Feb 23, 2023 · 0 comments

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@abcdefghijklmn97
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Hi,
I encountered the following error when running iqtree, all samples show failed, I am not sure the reason, can you help this?

IQ-TREE multicore version 2.2.0.3 COVID-edition for Linux 64-bit built Aug 2 2022
Developed by Bui Quang Minh, James Barbetti, Nguyen Lam Tung,
Olga Chernomor, Heiko Schmidt, Dominik Schrempf, Michael Woodhams, Ly Trong Nhan.

Host: loaclhost (AVX2, FMA3, 724 GB RAM)
Command: iqtree -s Align.fasta -T 32 -m TESTONLY
Seed: 635346 (Using SPRNG - Scalable Parallel Random Number Generator)
Time: Thu Feb 23 08:59:20 2023
Kernel: AVX FMA - 32 threads (128 CPU cores detected)

Reading alignment file Align.fasta ... Fasta format detected
Reading fasta file: done in 0.553305 secs using 91.02% CPU
Alignment most likely contains protein sequences
Constructing alignment: done in 0.778656 secs using 695.4% CPU
Alignment has 108 sequences with 170723 columns, 123242 distinct patterns
107678 parsimony-informative, 15691 singleton sites, 47354 constant sites
Gap/Ambiguity Composition p-value
Analyzing sequences: done in 0.057044 secs using 3160% CPU
1 4_22 41.24% failed 0.00%
2 5_9 41.24% failed 0.00%
3 ERR3686573 41.24% failed 0.00%
4 2 39.58% failed 0.00%
5 2-1 39.58% failed 0.00%
6 2-10 39.58% failed 0.00%
7 2-14 39.58% failed 0.00%
8 2-22 39.58% failed 0.00%
9 2-23 39.58% failed 0.00%
10 2-3 39.58% failed 0.00%
11 2-4 39.58% failed 0.00%
12 2-6 39.58% failed 0.00%
13 2-7 39.58% failed 0.00%
**** TOTAL 39.63% 108 sequences failed composition chi2 test (p-value<5%; df=19)

Thank you!

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