[BUG?] Error: progressiveMauve_call error: output of progressiveMauve empty

[minu7]

When i run this script: python ./gengraphTool.py make_genome_graph --seq_file TestGraphs/sequences.txt --out_file_name test sequences.txt:

seq_name    aln_name    seq_path    annotation_path
H37Rv   seq0    /Users/filippo/Desktop/workspace/GenGraph/TestGraphs/H37Rv.fa   NA
H37Rv1  seq1    /Users/filippo/Desktop/workspace/GenGraph/TestGraphs/H37Rv1.fa  Na
H37Rv2  seq2    /Users/filippo/Desktop/workspace/GenGraph/TestGraphs/H37Rv2.fa  N

I got the error: progressiveMauve_call error: output of progressiveMauve empty

I fixed the error changing the line 2775 in gengraph.py: old line: number_of_lines = 3 ----- new line: number_of_lines = 2

But i'm not sure about the fix

Thank you!

[jambler24]

Thanks @minu7 , I'll have a look at the fix and see what is going on there

[jambler24]

Changed value to 2, the value of 3 was too strict and assumed that there would always be at least 2 blocks.

[minu7]

@jambler24 Great, thank you!