Perhaps Jenn has some text about scenes you can read. The scene saves the exact state of workbench. You can then export pictures using the command I mentioned below. The development version allows you to iterate through multiple maps.
Peace, Matt. From: Garren Gaut <gbiu...@gmail.com<mailto:gbiu...@gmail.com>> Date: Monday, January 29, 2018 at 5:16 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] Workbench: save images using the command line Is there a way to save a scene without using the workbench GUI? On Mon, Jan 29, 2018 at 5:14 PM, Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote: You have save a scene in workbench after you set everything up how you want it. Peace, Matt. From: Garren Gaut <gbiu...@gmail.com<mailto:gbiu...@gmail.com>> Date: Monday, January 29, 2018 at 5:11 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] Workbench: save images using the command line Thanks Matt, I’m trying out the -show-scene function, but am getting an error. Does the parameter <scene-file> have to point to a scene-file? And if so, is there a way to create a scene-file using wb_command? The results files I’m trying to visualize are in .dscalar.nii format. I’m running the command: wb_command -show-scene files/0bck_minus_baseline_mean_contrast_cohensd_whs26_whmodel1.dscalar.nii 1 test.png 10 10 -use-window-size and am getting the error: While running: /Applications/workbench/bin_macosx64/../macosx64_apps/wb_command.app/Contents/MacOS/wb_command -show-scene files/0bck_minus_baseline_mean_contrast_cohensd_whs26_whmodel1.dscalar.nii 1 test.png 10 10 -use-window-size ERROR: Parse Error while reading:: error occurred while parsing element, line number: 1 column number: 1 File: 0bck_minus_baseline_mean_contrast_cohensd_whs26_whmodel1.dscalar.nii Path: /Users/Garren/Dropbox/FMRI/Projects/varianceGLM/ROI2NIfTI/files Thanks, -Garren On Mon, Jan 29, 2018 at 4:47 PM, Glasser, Matthew <glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote: wb_command -show-scene is used for this purpose. The development version allows you to increment by map index. Peace, Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Garren Gaut <gbiu...@gmail.com<mailto:gbiu...@gmail.com>> Date: Monday, January 29, 2018 at 4:45 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] Workbench: save images using the command line Hi HCP support, I am trying to automate the generation of brain images using workbench. I have several cifti files containing effect size maps and I would like to save the maps to images without ever using the workbench GUI. I've written a script that loads of all my files and sets up the viewing options using `wb_command`, but I haven't been able to figure out a way to save workbench images from the command line. Is there a way to use `wb_command` (or some other tool) to do this? Let me know if there is anything I can clarify or provide that you need. I appreciate the help. Thank you! -Garren -- Garren Gaut Department of Cognitive Sciences University of California, Irvine 2279 Social & Behavioral Sciences Gateway Building Irvine, CA 92697-5100 (949)533-4612<tel:(949)%20533-4612>gbiu...@gmail.com<mailto:gbiu...@gmail.com> _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users -- Garren Gaut Department of Cognitive Sciences University of California, Irvine 2279 Social & Behavioral Sciences Gateway Building Irvine, CA 92697-5100 (949)533-4612<tel:(949)%20533-4612>gbiu...@gmail.com<mailto:gbiu...@gmail.com> -- Garren Gaut Department of Cognitive Sciences University of California, Irvine 2279 Social & Behavioral Sciences Gateway Building Irvine, CA 92697-5100 (949)533-4612 gbiu...@gmail.com<mailto:gbiu...@gmail.com> _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
