---
name: "idconvert"
section: "1"
platform: "linux"
package: "libpwiz-tools"
version: "3.0.18342-4+b1"
release: "Debian 12 (Bookworm)"
platforms: ["linux"]
url: "https://new.carta.tech/idconvert"
---

# idconvert(1)

Convert mass spectrometry identification file formats.

## NAME

**idconvert**      —       Convert mass spectrometry identification file formats.

## SYNOPSIS

**idconvert** \[*options\]  \[filemasks\]*

## DESCRIPTION

*This manual page documents briefly*  *the* **idconvert** software shipped within the  **libpwiz-tools** package. This program allows  one to convert mass spectrometry protein identification data  files from one format to another.

## OPTIONS

- \-v \| --verbose

  Display detailed processing progress information.

- \-f \| --filelist *filename*

  Uses the contents of *filename* which lists filenames.

- \-o \| --outdir *dir*

  Set the output directory ('-' for stdout) to *dir*. By default, the output directory is '.' (that is, the current working directory).

- \-c \| --config *filename*

  Set the configuration file to *filename*.

- \-e \| --ext *ext*

  Set the extension of the output files  to *ext*. Can  be mzid or pepXML or txt.

- \--mzIdentML

  Write **mzIdentML** format (default).

- \--pepXML

  Write **pepXML** format.

- \--text

  Write hierarchical **text** format.

## EXAMPLES

Convert sequest.pepXML to sequest.mzid

**idconvert sequest.pepXML**

Convert mascot.mzid to mascot.pepXML

**idconvert mascot.mzid --pepXML**

Use a configuration file

**idconvert xtandem.pep.xml -c config.txt**

## RETURN VALUE

The number of failed files.

## AUTHOR

Filippo Rusconi \<lopippo@debian.org\>

This manual page was written by Filippo Rusconi  \<lopippo@debian.org\> (initial writing 05 december  2013). Permission is granted to copy, distribute and/or  modify this document under the terms of the GNU General  Public License, Version 3, published by the Free Software  Foundation.

On a Debian system the complete text of the GNU General  Public License version 3 can be found in the file  \`**/usr/share/common-licenses/GPL-3**'.