News from the Human Connectome Project (HCP) May 8, 2018 Connectome Workbench v1.3.0 Released The WU-Minn HCP Consortium is pleased to announce that version 1.3.0 of Connectome Workbench<https://www.humanconnectome.org/software/get-connectome-workbench> (WB) brain visualization and analysis software is now available for 64-bit Mac OSX, Windows, and Linux. The Workbench distribution includes wb_view, a GUI-based visualization platform, and wb_command, a command-line program for performing a variety of algorithmic tasks using volume, surface, and grayordinate data.
Notable changes in WB v1.3.0 include: wb_view: Best Practices Guide for creating Annotations and Scenes added to Help Charting * Chart View fully revised to include a layer-like system and support for histograms and for charts from many more file types. * Improved and expanded options for control of axes. * Old version of charting remains for compatibility with older scenes. Annotations * Improved aspect locking with notifications * Warn if annotation text is too small * Added new coordinate space for adding annotations in the new version of charting * Line thickness maximum removed and line thickness scales with tab height BALSA compatibility (BALSA = <https://balsa.wustl.edu/> Brain Analysis Library of Spatial Maps and Atlases<https://balsa.wustl.edu/><http://www.ncbi.nlm.nih.gov/pubmed/27074495><http://www.ncbi.nlm.nih.gov/pubmed/27074495> database for sharing analyzed data as WB scenes) * Improved dialog for uploading scene file to BALSA with ability to create and edit BALSA study names * Scene Identifiers are requested from BALSA and added to the scene file after successful upload of a scene file to BALSA * Added automatic detection of the base path (for recreating directory structure of shared datasets) Scenes * Scenes window revised, including ability to save scene files directly without using Save/Manage Files * Added List Files... button to show all data files referenced by a scene file * Scenes reload a file if the version on disk has been modified since loaded into memory * Warn if there are modified files prior to loading a scene * Volume attributes (crosshairs, labels, etc.) are saved to scenes Volumes * Volume surface outline scales with tab height * Improved sform support of non LPI oriented files * Warn if a NIFTI volume file contains invalid qform and sform * Added masking option for oblique slice drawing so that edge effects from cubic interpolation can be hidden Miscellaneous * Reading of GIFTI RGBA files is now supported * Upgraded to Qt 5.7 and compilers that support C++11. Using Qt 5.7 may help with some "XCB errors" encountered on Linux. Overlay Settings * Added thresholding of Overlay Layers using data from another data file and map * Added inversion of Palettes for brainordinate coloring wb_command: Changes to existing behavior: * corrected qform calculation in oblique or unusual orientation volume files * built against QT5, on newer OSes for mac and linux * surface to volume mapping defaults have changed for less overshoot and sharper results (volume to surface defaults are unchanged, but has option available for sharper results) * Window->Identify... cifti index now uses 1-based indexing * volume to surface myelin mapping method has been fixed to use the cylindrical cutoff described in the paper, with a new option to restore the old unintended behavior * -*-stats commands now use multi-map roi files to output multiple columns of stats New notable features: * override map index for yoking group in -show-scene, give error message on command failure * tab completion for wb_command (extensive) and wb_shortcuts (basic) in bash * acceleration of correlation by use of SIMD instructions - thanks to Kristian Loewe * ability to write smaller low-precision cifti using integer datatypes and scaling * new -*-label-probability commands * new strain-based surface and volume distortion measures * generates warnings when writing files with incorrect extensions Bugfixes: * wb_shortcuts concatenate functions don't fail with "unbound variable" * -cifti-merge-dense fixed for volume label data * -cifti-parcel-mapping-to-label help corrected * -cifti-create-dense-from-template handling of -cifti with voxel data * GEO_GAUSS and GEO_GAUSS_EQUAL smoothing methods now use the corrected vertex areas in their distance computation (GEO_GAUSS_AREA, the default, recommended method, already used them) <http://www.ncbi.nlm.nih.gov/pubmed/27074495> WB v1.3.0 is compatible with the WB v1.0 tutorial and the processed 1200 Subjects Group Average Data available to download at http://humanconnectome.org/connectome/get-connectome-workbench.html and on the <https://db.humanconnectome.org/data/projects/HCP_900> ConnectomeDB HCP project page<https://db.humanconnectome.org/data/projects/HCP_1200>. Access to both datasets require ConnectomeDB login and signature of the HCP Open Access Data Use Terms. To download the <https://github.com/Washington-University/workbench> WB v1.3.0 source code from GitHub<https://github.com/Washington-University/workbench>: follow the link, click Releases (near the top center of the page), then under v1.3.0, click the “Source code (zip)” or “Source code (tar.gz)” button. Discussion of Connectome Workbench usage, bugs, and features can be posted to the hcp-users discussion list (sign up here<https://www.humanconnectome.org/contact-us>). Best, The WU-Minn HCP Consortium Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387<tel:314-362-9387> [email protected]<mailto:[email protected]> www.humanconnectome.org<http://www.humanconnectome.org/> _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
