Pre-built binaries

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Pre-built binaries#

You can also get pre-built binaries for Windows, MaxOSX and Linux in case you don’t want to install anything.

The binary is called mps (with a .exe extension if you are running on Windows) Note that the binaries ships with python, so to don’t even need to install python to run the binaries. Note, however that the size of the binaries are large. In order to run the binaries you just need to download the zip file, and extract the executable to a location that your operating system can find it. For example, if you are on windows you can copy this file to C:\Windows\System32 directory, and if on linux you could copy it to usr/bin. This will, however require admin access. If you don’t have admin access you can put it in a new folder and add that folder to your PATH environment variable. On unix you also need to make the file executable:

chmod +x mps

You can also run the file from its current location.

Usage#

If you execute the binary without any arguments, i.e

on Unix

./mps

or on Windows

.\mps.exe

you should get the following output

./mps --help
Usage: mps [OPTIONS] COMMAND [ARGS]...

Options:
  --version                       Show version
  --license                       Show license
  --install-completion [bash|zsh|fish|powershell|pwsh]
                                  Install completion for the specified shell.
  --show-completion [bash|zsh|fish|powershell|pwsh]
                                  Show completion for the specified shell, to
                                  copy it or customize the installation.
  --help                          Show this message and exit.

Commands:
  analyze       Analyze flourecense data
  motion        Estimate motion in stack of images
  mps2mp4       Create movie of data file
  phase-plot    Create movie of data file
  split-pacing  Run script on a folder with files and this will copy the...
  summary       Create a summary pdf of all files in the a directory.

This shows the available commands that you can use with the script. For example if yoo have an mps data file called file.nd2 then running

(Unix)

./mps analyze file.nd2

(Windows)

.\mps.exe analyze file.nd2

will analyze that file. You can also type

.\mps.exe analyze --help

to see all the available options.

Known issues#

  1. The prevalence script is not yet working

  2. To use the mps2mp4 script you also need to install ffmpeg separately

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