Reconstruction for full length sequences about pyjar

[tauqeer9]

I am also getting a very similar error-

Reading alignment file: coreGeneAlnFinal.fasta
Guessing file is in fasta format
Trying to open file coreGeneAlnFinal.fasta as fasta
Alignment read successfully
Alignment size: 371 taxa and 977782 sites
Reading tree file: coreGenomeRooted.tree
Using default JC rates and frequencies
Frequencies: 0.25, 0.25, 0.25, 0.25
Rates: 1.0, 1.0, 1.0, 1.0, 1.0, 1.0
Finding unique base patterns
Time taken to find unique base patterns: 224.69788200000002 seconds
Unique base patterns: 21924
Reconstructing sites on tree
Traceback (most recent call last):
File "./pyjar.py", line 428, in
main()
File "./pyjar.py", line 424, in main
jar(args.alignment, args.tree, args.info, args.prefix, args.verbose)
File "./pyjar.py", line 354, in jar
node.r=node.C[i]
KeyError: None