ERROR [diamond_search()]

[hysong0921]

hi， INFO: The PfamA profile DB was not found and will now be created.

PfamA profile DB creation and indexing

INFO: It might take a few minutes, and will be done only at the first run after the installation. INFO: Indexing the profile database, be patient...

Run START: Mon Aug 19 10:10:22 2024 SonicParanoid 2.0.8 will be executed with the following parameters: Run ID: roject Input directory: /dt1/hysong/02.genome/wheat/test Main output directory: /dt1/hysong/result-sonic Run directory: /dt1/hysong/result-sonic/runs/roject Input proteomes: 19 Alignment tool: diamond Run mode: default (Diamond [--very-sensitive]) Threads: 5 Minimum bitscore: 40 Max length difference for in-paralogs: 0.75 Ortholog merging threshold: 0.75 MCL inflation: 1.50 Alignments directory: /dt1/hysong/result-sonic/alignments/ Pairwise tables directory: /dt1/hysong/result-sonic/runs/roject/species_to_species_orthologs/ Directory with ortholog groups: /dt1/hysong/result-sonic/runs/roject/ortholog_groups/ Pairwise tables database directory: /dt1/hysong/result-sonic/orthologs_db Perform only graph-based orthology: False Update run: False Create query database indexes: False Complete overwrite: False Re-create ortholog tables: False Memory per thread (Gigabytes): 403.10 Minimum memory per thread (Gigabytes): 1.00 Compress alignments: True Compression level: 5 SonicParanoid installation directory: /dt1/hysong/miniconda3/envs/sonicparanoid/lib/python3.11/site-packages/sonicparanoid Installation type: miniconda3 Python version: 3.11.0 | packaged by conda-forge | (main, Jan 14 2023, 12:27:40) [GCC 11.3.0] Python executables: /dt1/hysong/miniconda3/envs/sonicparanoid/bin/python3.11 runID: roject

For the 19 input species 171 combinations are possible.

361 Diamond alignments will be performed... Creating 19 Diamond databases...

Diamond databases creation elapsed time (seconds): 32.323

ERROR [diamond_search()]: the Diamond DB /dt1/hysong/result-sonic/seqs_dbs/19.dmnd is missing. Generate the DB before searching. ERROR [diamond_search()]: the Diamond DB /dt1/hysong/result-sonic/seqs_dbs/1.dmnd is missing. Generate the DB before searching.

all-vs-all alignments: 13% how can i solve this problem? only 2 in 19,thanks

[bbuchfink]

This does not look like a diamond error. Please ask the downstream provider (SonicParanoid) for support.