Release History

Previous releases of neurodesktop

latest

  • in development: vesselvio 1.1.1 (vessel visualisation) contributed by Steffen

20220329

  • added bidscoin 3.7.0 (converting data to bids) contributed by Oren
  • added sigviewer 0.6.4 (viewing electrophysiological data) contributed by Tom
  • added niftyreg 1.4.0 (image registration tool) contributed by Steffen
  • added mne 1.0.0 (EEG processing pipeline) contributed by David

20220302

  • update of ROMEO (phase unwrapping) to latest version 3.2.8
  • update of QSMxT (automated end-to-end QSM procerssing) to latest version 1.1.10
  • added mritools 3.3.0 (includes clearswi 1.0.1, mcpc3ds 0.1.0, romeo 3.2.8 as compiled binaries)

20220222

  • update for PhysIO toolbox (physiological noise correction for fMRI) to r2021a including the latest SPM r8224
  • update of lcmodel to include basis sets for 1.5-9.4T
  • added a memory display plugin to illustrate how much memory is available to the container and how much is consumed
  • added a version checker to help with identifying if a new version is available
  • added file upload via guacamole (+ update of guacamole to 1.4) - users can now drag and drop their files onto guacamole and they get copied to the desktop

20220128

  • update of Spinalcordtoolbox to 5.5
  • update of CAT12 to r1933

20220121

  • MNE Python 0.23.4 container including VScode and extensions
  • VScode container including Python/Julia Extensions and singularity to test “Inception Mode” (Running singularity containers withtin singularity containers)
  • update of fsl to 6.0.5.1
  • added CAT12 (a software that allows estimation of tissue volumes (and additional surface parameters such as cortical thickness, gyrification or fractal dimension) for different volume and surface-based atlas maps)

20220111

  • a deep learning based vessel segmentation algorithm “vesselapp” was added in version 0.3.1
  • palm - Permutation Analysis of Linear Models - was added in version alpha119
  • niistat running in octave was added with version 1.0.20191216
  • MRIcroGL was updated to a version with included python support, so the scripting is now working
  • rabies - Rodent Automated Bold Improvement of EPI Sequences was added with version 0.3.5
  • oshyx was updated to 0.3

20211220

  • neurodesktop can now be accessed via native RDP client as well (e.g. for multi-monitor support): https://www.neurodesk.org/docs/neurodesktop/getting-started/windows/#using-an-rdp-client
  • there is a new Help button in the menu :)
  • updates of ants 2.3.4 (now includes Scripts as well, including antsCookTemplatePriors.sh) + newly added version 2.3.5
  • new version of QSMxT 1.1.9 20211219
  • new version of Spinal Cord Toolbox 5.4
  • new tools: MRIcroGL and surfice - fantastic viewers for neuroimaging data

20211207

  • Physio toolbox compiled and added to SPM + update of SPM
  • added brainstorm
  • new neurodesktop container management scripts for Linux, Mac and Windows: https://github.com/NeuroDesk/neurodesktop
  • added fieldtrip
  • Datalad is now in the main image, so datalad run should work
  • added Oshy-X segmentation tool
  • updated freesurfer 7.2.0

20211028

  • added EEGLAB

20211018

  • added Rstudio, R and multiple R packages (plotly, car, tidyverse, …)
  • added ClearSWI and ROMEO for MRI phase processing (including new Tutorials: https://www.neurodesk.org/tutorials/phase_processing/)
  • added more categories in applications menu (Body, Electrophysiology, Hippocampus, Phase Processing, Rodent Imaging, Shape Analysis, Spine, Statistics)
  • bugfix: improved startup time of the desktop container (miniconda in homedirectory was causing chmod slowdown)
  • bugfix: ssh, vnc and rdp servers are now restarted in case the container was stopped and started again (e.g. on Standby)

20210929

  • fixed naming of aidmri to aidamri and added new category “Rodent Imaging”
  • updated all tool icons and updated neurodesk icon including background image
  • VScode now stores settings in persistent storage /neurodesktop-storage and with this keeps extensions and settings across different neurodesktop versions
  • docker layers are now cached, so updating the desktop to the next version is very fast and consumes less disk space locally
  • default theme of terminal changed from Solarized to Tango as the old theme was hiding information in tools like htop (same font colour on same background…)

20210923

  • removed faulty mriqc 0.15.2 container
  • neurodesk.github.io is now starting page in firefox browser

20210918

  • added mriqc 0.16.1 and mrtrix 3.0.3

20210917

  • included more tools for connecting to cloud storage services (rclone, owncloud, nextcloud, davfs2, globus). For more info: Storage
  • styling of desktop interface, including background wallpaper and colour scheme in terminal window
  • new categories in menu system (visualization) and added more categories to tools

20210916

  • This is the first version of the newly renamed and rebuild neurodesktop (previously vnm and neuromachine)
  • containers are mounted by default from CVMFS, but this can be deactivated by adding -e CVMFS_DISABLE=true to the docker call
Last modified March 30, 2022: Switch to www domain (fc17a38d)