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System requirements

Installation

Installation of mzmine is described on the getting started page. mzmine is available as an installable package or a portable version. The portable version does not require administrator rights to be run, making it useful for users without elevated permissions.

Hardware requirements

Minimum (small datasets < 30 LC-MS files):

  • 64 bit CPU, 4 Cores (2.5 GHz, Intel Core i5 or AMD Ryzen 5), 16 GB RAM, secondary Sata SSD drive (512 GB), integrated graphics
  • Display 1920 x 1080 pixel (Full HD)
  • Internet connection for login and spectral library/machine learning model download
  • Keyboard and mouse

Recommended (medium to large data sets ≥ 100 LC-MS files, or IMS-MS in general):

  • 64 bit CPU, ≥ 16 Cores (≥3 GHz, Hyper threading), ≥ 64 GB RAM (scales with data files), secondary NVMe SSD drive (≥ 1 TB), integrated graphics
  • Display 2560 x 1440 pixel or higher
  • Internet connection for login and spectral library/machine learning model download
  • Keyboard and mouse
  • dedicated GPU (CUDA enabled) for accelerated machine learning models (not required)

Info

Internet connections open to https://auth.mzio.io for user login is recommended to automatically claim and release licenses, but mzmine can be used without an internet connection with an offline (airplane mode) license, see Offline use. An offline license has to be claimed once from a computer with internet access and is then bound to one computer until the chosen date.

Info

Processing speed scales with CPU cores/threads and speed of the SSD for temporary files. We recommend setting the temporary files directory to a fast, secondary SSD in the mzmine preferences (CTRL+P, Project → Preferences). (see )

Software requirements

  • Up-to-date operating system, e.g., Windows 10 or newer, recent Linux or MacOS (academic only) versions.
  • mzmine does not require a dedicated Java installation, as it is a self-contained Java software with its own Java Virtual Machine. All requirements are shipped with mzmine.
  • Microsoft Visual Studio C++ Redist for Bruker raw data import download page
  • MSConvert (on Windows) for native Agilent, Sciex, Waters, Shimadzu, and MOBILion data support download page

Internet connection

  • An internet connection is required for the regular user login, as mzmine claims its license from a shared license pool and keeps the claim up to date while you work
  • Offline user login is possible with an offline (airplane mode) license, see Offline use
  • Apart from the login, core processing does not require an internet connection
  • To allow mzmine to download spectral libraries and the recent versions of machine learing models for spectral networking using MS2Deepscore and DReaMS, an internet connection is required
  • A proxy may need to be set in the Preferences if your University/Company uses one (Project -> Preferences, CTRL+P)
  • Required URLS (in case University/Company blocks unknown):
    • https://auth.mzio.io/ must be accessible user login
    • https://zenodo.org/ machine learning models
    • https://djl.ai/ machine learning models
    • https://zenodo.org/ spectral libraries
    • https://external.gnps2.org/gnpslibrary spectral libraries

Operating system compatibility

An up-to-date list of supported data formats on each operating system is available here.