Mercurial > repos > onnodg > cdhit_analysis

comparison test-data/test2_logs.txt @ 4:e64af72e1b8f draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/Onnodg/Naturalis_NLOOR/tree/main/NLOOR_scripts/process_clusters_tool commit 4017d38cf327c48a6252e488ba792527dae97a70-dirty
author onnodg
date Mon, 15 Dec 2025 16:44:40 +0000
parents
children
comparison
equal deleted inserted replaced
3:c6981ea453ae 4:e64af72e1b8f
1 === CD-HIT cluster processing started ===
2 cluster_file: provided
3 annotation_file: provided
4 === PARAMETERS ===
5 output_taxa_clusters: True
6 output_taxa_processed: True
7 simi_plot_y_min: 95.0
8 simi_plot_y_max: 100.0
9 uncertain_taxa_use_ratio: 0.5
10 min_to_split: 0.45
11 min_count_to_split: 10
12 min_cluster_support: 1
13 === PARAMETERS END===
14 Loaded 622 annotated headers
15 Parsed 268 clusters
16 Similarity text summary written succesfully
17 Similarity mean = 99.80, std = 0.50
18 Similarity plot written succesfully
19 Count summary written succesfully
20 TOTAL annotated=49571, unannotated=16561, total=66132
21 Raw taxa per cluster written succesfully
22 Processed taxa (split clusters) written succesfully
23 === SUMMARY ===
24 Clusters parsed: 268
25 Total reads: 66132
26 Annotated reads: 49571
27 Unannotated reads: 16561
28 Clusters with annotations: 29
29 Clusters fully unannotated: 239
30 Minimum cluster support for processed taxa: 1
31 === TAXA SUMMARY (top 10) ===
32 Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Cannabaceae / Humulus / Humulus lupulus: 47123 reads
33 Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Rosaceae / Uncertain taxa / Uncertain taxa: 383 reads
34 Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Betulaceae / Alnus / Alnus incana: 300 reads
35 Viridiplantae / Streptophyta / Magnoliopsida / Poales / Poaceae / Uncertain taxa / Uncertain taxa: 288 reads
36 Viridiplantae / Streptophyta / Magnoliopsida / Malpighiales / Salicaceae / Populus / Uncertain taxa: 224 reads
37 Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Fagaceae / Quercus / Quercus rubra: 202 reads
38 Viridiplantae / Streptophyta / Magnoliopsida / Solanales / Uncertain taxa / Uncertain taxa / Uncertain taxa: 180 reads
39 Viridiplantae / Streptophyta / Magnoliopsida / Gentianales / Rubiaceae / Uncertain taxa / Uncertain taxa: 156 reads
40 Viridiplantae / Streptophyta / Magnoliopsida / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa: 146 reads
41 Viridiplantae / Streptophyta / Magnoliopsida / Caryophyllales / Polygonaceae / Uncertain taxa / Uncertain taxa: 134 reads
42 Total unique taxa: 22
43 === SIMILARITY SUMMARY ===
44 Mean similarity: 99.80
45 Std similarity: 0.50
46 === CD-HIT cluster processing finished ===