Nextflow Registry | nf-core/blast/blastdbcmd@0.0.0-0c7146d

nf-core/blast/blastdbcmd @ 0.0.0-0c7146d

Retrieve entries from a BLAST database

fasta blast database retrieval identifier

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @toniher

Maintainers: @toniher

Retrieve entries from a BLAST database

Add the following snippet to your workflow script to include this module.

include { BLAST_BLASTDBCMD } from 'nf-core/blast/blastdbcmd'

MIT License

Process

`Name`	`BLAST_BLASTDBCMD`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`entry` string	Entry identifier of sequence in database. It cannot be used along with entry_batch
`entry_batch` file	File with a list of entry identifiers of sequences in database (one identifier per line). It cannot be used along with entry

#2 tuple

`meta2` map	Groovy Map containing db information e.g. [ id:'test2', single_end:false ]
`db` file	Input BLAST-indexed database `.{fa.,fasta.*}`

Output 3 channels

#1 text tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.txt` file	Output text file (generic format if fasta not used, i.e. `--outfmt` is supplied to `ext.args`) `*.{txt}`

#2 fasta tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.fasta` file	Output fasta file (default format) `*.{fasta}`

#3 versions_blastdbcmd tuple

`${task.process}` string	The name of the process
`blastdbcmd` string	The name of the tool
`blastdbcmd -version 2>&1 \| head -n1 \| sed 's/^.blastdbcmd: //; s/ .\$//'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
blast	BLAST finds regions of similarity between biological sequences.	https://blast.ncbi.nlm.nih.gov/Blast.cgi

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:28:02 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fblast%2Fblastdbcmd/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/blast/blastdbcmd/blobs/sha256:2e78cbdf6e0b47b0629a20cbfa997c229a3037d27141e6558ef4108ab8053d49
Size	3.2 KB
Checksum	sha256:2e78cbdf6e0b47b0629a20cbfa997c229a3037d27141e6558ef4108ab8053d49
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:28:02 (UTC)		1	3.2 KB	-