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I have 2 questions:
1、I will run 200+ samples,but it take too much time to load reference database into RAM when processing each sample,any method to keep database in RAM every time?
2、
krakenuniq --db /mnt/DATA3/DB_3/k2_database/02-fungi_ref --threads 20 --classified-out /mnt/06-ku --only-classified-output --preload-size 50GB --report-file /mnt/06-ku/fq1.krakenuniq.report.tsv > /mnt/DATA1/TCGA/06-ku/fq.READCLASSIFICATION.tsv --paired /mnt/05-bowtie2mr-chm/test/fq_chm_remove_R1.fastq.gz /mnt/DATA1/TCGA/05-bowtie2mr-chm/test/fq_chm_remove_R2.fastq.gz
/root/miniconda3/share/krakenuniq-1.0.4-2/libexec/classify -d /mnt/DATA3/DB_3/k2_database/02-fungi_ref/database.kdb -i /mnt/DATA3/DB_3/k2_database/02-fungi_ref/database.idx -t 20 -C /mnt/DATA1/TCGA/06-ku -c -x 50GB -r /mnt/06-ku/fq.krakenuniq.report.tsv -a /mnt/DATA3/DB_3/k2_database/02-fungi_ref/taxDB -p 12
Database /mnt/DATA3/DB_3/k2_database/02-fungi_ref/database.kdb
Loaded database with 15672402085 keys with k of 31 [val_len 4, key_len 8].
Reading taxonomy index from /mnt/DATA3/DB_3/k2_database/02-fungi_ref/taxDB. Done.
terminate called after throwing an instance of 'std::__ios_failure'
what(): basic_ios::clear: iostream error
how to solve this err?
Thank you!
The text was updated successfully, but these errors were encountered:
I have 2 questions:
1、I will run 200+ samples,but it take too much time to load reference database into RAM when processing each sample,any method to keep database in RAM every time?
2、
how to solve this err?
Thank you!
The text was updated successfully, but these errors were encountered: