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planemo upload for repository https://github.com/Onnodg/Naturalis_NLOOR/tree/main/NLOOR_scripts/process_annotations_tool commit 4017d38cf327c48a6252e488ba792527dae97a70-dirty
author onnodg
date Mon, 15 Dec 2025 16:43:36 +0000
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Starting processing for FASTA
=== PARAMETERS USED ===
uncertain_threshold: 0.9
eval_threshold: 1e-10
use_counts: False
ignore_rank: unknown
ignore_taxonomy: environmental
bitscore_perc_cutoff: 0.0
min_bitscore: 10
ignore_obiclean_type: singleton
ignore_illuminapairend_type: pairend
min_identity: 0
min_coverage: 0
ignore_seqids: 
min_support: 0
=== END PARAMETERS ===
Filtered FASTA written succesfully(1790 sequences)
FASTA: total headers: 2156
FASTA: headers kept after filters and min_support=0: 1790
FASTA: removed due to header filters (illumina/obiclean/etc.): 366
FASTA: removed due to low dereplicated count (<0): 0
FASTA: total invalid (header filter + low support): 366
Reading BLAST annotations
BLAST: total hits read: 21506
BLAST: hits kept after quality filters: 20339
BLAST: hits filtered (evalue/coverage/identity/bitscore): 1167
BLAST: hits removed due to invalid taxon: 1167
BLAST: hits removed due to ignored seqids: 0
Note: 71 BLAST q_ids not in FASTA (showing up to 10): ['M01687:460:000000000-LGY9G:1:1101:11918:3518_CONS(1)', 'M01687:460:000000000-LGY9G:1:1101:12996:3690_CONS(1)', 'M01687:460:000000000-LGY9G:1:1101:11564:11468_CONS(1)', 'M01687:460:000000000-LGY9G:1:1102:19358:5472_CONS(1)', 'M01687:460:000000000-LGY9G:1:1102:16411:17215_CONS(1)', 'M01687:460:000000000-LGY9G:1:2114:4805:4734_CONS(1)', 'M01687:460:000000000-LGY9G:1:2114:7472:19038_CONS(1)', 'M01687:460:000000000-LGY9G:1:2115:14232:10846_CONS(1)', 'M01687:460:000000000-LGY9G:1:2112:8197:5045_CONS(1)', 'M01687:460:000000000-LGY9G:1:2112:26865:11154_CONS(1)']
ANNOTATION: total FASTA headers considered: 1790
ANNOTATION: reads with BLAST hits: 810
ANNOTATION: reads without BLAST hits: 980
ANNOTATION: unique annotated count (from header counts): 51245
ANNOTATION: total unique count (from FASTA): 66132
Header annotations written succesfully
=== ANNOTATION STATISTICS ===
percentage_annotated: 37.569573283859
annotated_sequences: 810
total_sequences: 2156
percentage_unique_annotated: 77.4889614709974
unique_annotated: 51245
total_unique: 66132