Nextflow Registry | nf-core/openms/fileconverter@0.0.0-0b45cc0

nf-core/openms/fileconverter @ 0.0.0-0b45cc0

Converts between different mass spectrometry file formats (e.g. mzML, mzXML, mgf, mzData, dta, dta2d, featureXML, consensusXML, idXML).

Latest version: 0.0.0-0b45cc0

Total downloads: 0

Source: nf-core/modules

Authors: @jonasscheid

Maintainers: @jonasscheid

Converts between different mass spectrometry file formats (e.g. mzML, mzXML, mgf, mzData, dta, dta2d, featureXML, consensusXML, idXML).

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

include { OPENMS_FILECONVERTER } from 'nf-core/openms/fileconverter'

MIT License

Process

`Name`	`OPENMS_FILECONVERTER`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`input_file` file	Mass spectrometry data file in any OpenMS-supported input format `*.{mzML,mzXML,mgf,mzData,dta,dta2d,edta,featureXML,consensusXML,idXML,traML,fid,raw}`
`out_type` string	Target output file extension/format (e.g. `mzML`, `mgf`, `featureXML`)

Output 2 channels

#1 converted tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`${prefix}.${out_type}` file	Converted mass spectrometry file in the format specified via `out_type` `*.{mzML,mzXML,mgf,mzData,dta,dta2d,edta,featureXML,consensusXML,idXML,traML}`

#2 versions_openms tuple

`${task.process}` string	The name of the process
`openms` string	The name of the tool
`FileInfo --help 2>&1 \| sed -nE 's/^Version: ([0-9.]+).*/\1/p'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
openms	OpenMS is an open-source software C++ library for LC-MS data management and analyses	https://openms.de

Version	0.0.0-0b45cc0
Commit ID	0b45cc097cafcd4768e2f79b504333fee85940bc
Release Date	29 Apr 2026 21:15:40 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fopenms%2Ffileconverter/0.0.0-0b45cc0/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/openms/fileconverter/blobs/sha256:1e578bdefe91a4b45ea780ec3cb1a29d733dd82e69118a22b418e1a878281760
Size	2.5 KB
Checksum	sha256:1e578bdefe91a4b45ea780ec3cb1a29d733dd82e69118a22b418e1a878281760
Downloads	0

Version	Date	Status	Downloads	Size	Diff
0.0.0-0b45cc0	29 Apr 2026 21:15:40 (UTC)		0	2.5 KB	-