diff test-data/test1_logs.txt @ 4:e64af72e1b8f draft default tip

planemo upload for repository https://github.com/Onnodg/Naturalis_NLOOR/tree/main/NLOOR_scripts/process_clusters_tool commit 4017d38cf327c48a6252e488ba792527dae97a70-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test1_logs.txt	Mon Dec 15 16:44:40 2025 +0000
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+=== CD-HIT cluster processing started ===
+cluster_file: provided
+annotation_file: provided
+=== PARAMETERS ===
+output_taxa_clusters: True
+output_taxa_processed: True
+simi_plot_y_min: 95.0
+simi_plot_y_max: 100.0
+uncertain_taxa_use_ratio: 0.5
+min_to_split: 0.45
+min_count_to_split: 10
+min_cluster_support: 1
+=== PARAMETERS END===
+Loaded 810 annotated headers
+Parsed 514 clusters
+Similarity text summary written succesfully
+Similarity mean = 99.70, std = 0.63
+Similarity plot written succesfully
+Count summary written succesfully
+TOTAL annotated=51245, unannotated=15395, total=66640
+Raw taxa per cluster written succesfully
+Processed taxa (split clusters) written succesfully
+=== SUMMARY ===
+Clusters parsed: 514
+Total reads: 66640
+Annotated reads: 51245
+Unannotated reads: 15395
+Clusters with annotations: 63
+Clusters fully unannotated: 451
+Minimum cluster support for processed taxa: 1
+=== TAXA SUMMARY (top 10) ===
+Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Cannabaceae / Humulus / Uncertain taxa: 47442 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa: 543 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Malvales / Malvaceae / Tilia / Uncertain taxa: 419 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Rosales / Rosaceae / Uncertain taxa / Uncertain taxa: 382 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Betulaceae / Alnus / Uncertain taxa: 301 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Malpighiales / Salicaceae / Uncertain taxa / Uncertain taxa: 240 reads
+Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa / Uncertain taxa: 227 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Malpighiales / Salicaceae / Populus / Uncertain taxa: 222 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Poales / Poaceae / Uncertain taxa / Uncertain taxa: 221 reads
+Viridiplantae / Streptophyta / Magnoliopsida / Fagales / Fagaceae / Castanea / Uncertain taxa: 204 reads
+Total unique taxa: 44
+=== SIMILARITY SUMMARY ===
+Mean similarity: 99.70
+Std similarity: 0.63
+=== CD-HIT cluster processing finished ===
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