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brettc / partitionfinder

PartitionFinder discovers optimal partitioning schemes for DNA sequences.
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PartitionFinderProtein error: Failed to run models ...; not sure why #132

Open dongzhang0725 opened 5 years ago

dongzhang0725 commented 5 years ago

Hi all,

INFO     | 2019-02-24 11:27:31,203 | ------------------------ BEGINNING NEW RUN -------------------------------
INFO     | 2019-02-24 11:27:31,203 | Looking for alignment file '.\concatenation.phy'...
INFO     | 2019-02-24 11:27:31,203 | Using 16 cpus
INFO     | 2019-02-24 11:27:31,203 | Beginning Analysis
INFO     | 2019-02-24 11:27:31,226 | Reading alignment file '.\concatenation.phy'
INFO     | 2019-02-24 11:27:31,233 | Starting tree will be estimated from the data.
INFO     | 2019-02-24 11:27:31,236 | Estimating Maximum Likelihood tree with RAxML fast experimental tree search for .\analysis\start_tree\filtered_source.phy
INFO     | 2019-02-24 11:27:31,237 | Using a separate LG+G model for each data block
INFO     | 2019-02-24 11:27:56,414 | Estimating LG+G branch lengths on ML tree using all partitions
INFO     | 2019-02-24 11:28:02,456 | ML topology estimation finished
INFO     | 2019-02-24 11:28:02,457 | Performing Greedy Analysis
INFO     | 2019-02-24 11:28:02,457 |    *** Analysing starting scheme ***
ERROR    | 2019-02-24 11:29:40,594 |       Failed to run models MTMAM+I, WAG+I+G, CPREV+I+G, MTMAM+G, RTREV, DAYHOFF+G, DAYHOFF+I, RTREV+I+G, MTMAM+I+G, CPREV+G, BLOSUM62+I, MTMAM, MTREV+I, DAYHOFF+I+G, VT+I+G, WAG, MTREV+G, BLOSUM62+I+G, WAG+I, CPREV+I, VT, CPREV, WAG+G, BLOSUM62+G, MTREV+I+G, DAYHOFF, RTREV+G, RTREV+I, VT+I, VT+G, BLOSUM62, MTREV; not sure why

I encountered a weird error when I run "PartitionFinderProtein", the stdout said "not sure why". I have attached the related files below for you to repeate the analysis. Any help would be greatly appreciated.

PF_run.zip