ddarriba
commented
3 years ago It is just a warning that your MSA has too few sites compared to the number of taxa, but nothing else. ModelTest will compute everything as usual.
Open liaochenlanruo opened 3 years ago
ddarriba
commented
3 years ago It is just a warning that your MSA has too few sites compared to the number of taxa, but nothing else. ModelTest will compute everything as usual.
Why the warning happened and how to fix it?
modeltest-ng -i ALL.core.protein.fasta.gb -t ml -o modeltest_aa -p 15 -d aa
Physical cores: 72 Logical cores: 144 Memory: 1.01e+03GB Extensions: AVX
WARNING: Partition DATA: Sequences 09_Feb and DSM_26881 are identical WARNING: Partition DATA: Sequences 19A_GOM_1509m and 23_GOM_1509m are identical WARNING: Partition DATA: Sequences 19A_GOM_1509m and Choline_3u_9 are identical WARNING: Partition DATA: Sequences 22501_18_FS and 22507_15_FS are identical WARNING: Partition DATA: Sequences ACAM_239 and ACAM_246 are identical WARNING: Partition DATA: Sequences ACAM_239 and ACAM_255 are identical WARNING: Partition DATA: Sequences BZ_SZ_XJ27 and BZ_SZ_XJ27T are identical WARNING: Partition DATA: Sequences CGMCC_1_6773 and JCM_14802 are identical WARNING: Partition DATA: Sequences DSM_16096 and FP35 are identical WARNING: Partition DATA: Sequences MA_ZP17_13 and YYYZ_3 are identical WARNING: Partition DATA: Sequences NRS2HaP1 and R57_5 are identical WARNING: Partition DATA: Sequences PA5 and TA22 are identical WARNING: Partition DATA: Sequences PA5 and TA6 are identical WARNING: Partition DATA: Sequences SYSU_XM8 and SYSU_ZJ2214 are identical WARNING: Partition DATA: Sequences Soap_Lake__6 and Soap_Lake__7 are identical WARNING: MSA has not enough sites to infer reliable results Creating new checkpoint file: modeltest_aa.ckp