bbuchfink
commented
5 months ago -b 0.001 is not a good setting for this parameter, why are you using it? How much memory does your machine have?
Open kmanoharan01 opened 6 months ago
bbuchfink
commented
5 months ago -b 0.001 is not a good setting for this parameter, why are you using it? How much memory does your machine have?
Hi
I am getting following error while running dimond for eggnog-mapper.
/g/data/pq84/mano/programs/miniconda3/envs/eggnog-mapper/bin/diamond blastp -d '/g/data/pq84/mano/programs/miniconda3/envs/eggnog-mapper/lib/python3.9/site-packages/data/eggnog_proteins.dmnd' -q '/g/data/pq84/mano/metagenome/Diabetes_shotgun/prokka_out/ALM023/ALM023_v2/ALM023_v2_aa.fasta' --threads 6 -o '/g/data/pq84/mano/metagenome/Diabetes_shotgun/prokka_out/ALM023/ALM023_v2/eggnog_mapper/test.emapper.hits' --tmpdir '/g/data/pq84/mano/metagenome/Diabetes_shotgun/prokka_out/ALM023/ALM023_v2/' --sensitive --iterate -e 0.001 --min-score 60.0 --id 40.0 --query-cover 20.0 -b 0.001 --subject-cover 20.0 --top 3 --outfmt 6 qseqid sseqid pident length mismatch gapopen qstart qend sstart send evalue bitscore qcovhsp scovhsp
Processing query block 1, query iteration 1, reference block 983/8414, shape 1/1, index chunk 2/4. Building reference seed array... [0.028s] Building query seed array... [0.028s] Computing hash join... [0s] Masking low complexity seeds... [0s] Searching alignments... [0s] Deallocating memory... [0s] Processing query block 1, query iteration 1, reference block 983/8414, shape 1/1, index chunk 3/4. Building reference seed array... Killed
Could you please help?