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First non-comment line in pluspf_20240904 inspect.txt is truncated #885

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yeemey opened this issue Nov 1, 2024 · 0 comments
Open

First non-comment line in pluspf_20240904 inspect.txt is truncated #885

yeemey opened this issue Nov 1, 2024 · 0 comments

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@yeemey
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yeemey commented Nov 1, 2024

Example:
In the inspect.txt file for pluspf_20240904 the first line after the comment appears to be missing information from the root down to the percentage of fragments of Pseudomonadaceae:

# Database options: nucleotide db, k = 35, l = 31
# Spaced mask = 11111111111111111111111111111111110011001100110011001100110011
# Toggle mask = 1110001101111110001010001100010000100111000110110101101000101101
# Total taxonomy nodes: 50593
# Table size: 16195339816
# Table capacity: 23122320457
# Min clear hash value = 0
3667153	4569112	F	135621	            Pseudomonadaceae
  4.03	652396501	160466546	G	286	              Pseudomonas

Just a quick check to see if this is just in pluspf shows that there's more truncated in the inspect.txt file for viral_20240904:

# Database options: nucleotide db, k = 35, l = 31
# Spaced mask = 11111111111111111111111111111111110011001100110011001100110011
# Toggle mask = 1110001101111110001010001100010000100111000110110101101000101101
# Total taxonomy nodes: 27090
# Table size: 113675830
# Table capacity: 162177828
# Min clear hash value = 0
lassified Caudoviricetes
  0.08	90030	90030	S	1161927	              Pseudomonas phage Lu11

Regenerating the file with kraken2-inspect resolves this.

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