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Changed sEEG contact radius from shaft radius to half of the contac…
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…t widths, increasing visibility
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dipterix committed Apr 29, 2024
1 parent 1397ead commit ff9997d
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Showing 20 changed files with 50 additions and 26 deletions.
5 changes: 3 additions & 2 deletions CHANGELOG.md
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## Changes since last CRAN release
* `eca54867 (HEAD -> master)` [_`dipterix`_]: Disabled user-selection event in `CSS` for zoom-tools (side canvas)
* `6993bab0 (origin/master, origin/HEAD)` [_`dipterix`_]: Supported drag and drop curvature files for `pial` with built-in color map
* `a0dc1686 (HEAD -> master)` [_`dipterix`_]: Changed `sEEG` contact radius from shaft radius to half of the contact widths, increasing visibility
* `1397eade (origin/master, origin/HEAD)` [_`dipterix`_]: Disabled user-selection event in `CSS` for zoom-tools (side canvas)
* `6993bab0` [_`dipterix`_]: Supported drag and drop curvature files for `pial` with built-in color map
* `31b7f388` [_`dipterix`_]: Skip smooth step when `lambda` is non-positive
* `8b814e08` [_`dipterix`_]: `plot_slices` allows overlay images
* `5ad19c55` [_`dipterix`_]: Fixed right-click not settings crosshairs correctly on template brain
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2 changes: 1 addition & 1 deletion DESCRIPTION
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@@ -1,7 +1,7 @@
Package: threeBrain
Type: Package
Title: Your Advanced 3D Brain Visualization
Version: 1.1.0.9007
Version: 1.1.0.9008
Authors@R: c(
person("Zhengjia", "Wang", email = "[email protected]", role = c("aut", "cre", "cph")),
person("John", "Magnotti", email = "[email protected]", role = c("aut", "res")),
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17 changes: 14 additions & 3 deletions R/prototype_seeg.R
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Expand Up @@ -15,6 +15,8 @@
#' @param overall_length probe length, default is \code{200}
#' @param description prototype description
#' @param dry_run whether not to save the prototype configurations
#' @param overwrite whether to overwrite existing configuration file; default
#' is false, which throws a warning when duplicated
#' @returns A electrode shaft geometry prototype; the configuration file is
#' saved to 'RAVE' 3rd-party repository.
#'
Expand Down Expand Up @@ -52,7 +54,7 @@ seeg_prototype <- function(
center_position, contact_widths, diameter = 1.0,
channel_order = seq_along(center_position),
fix_contact = 1, overall_length = 200,
description = NULL, dry_run = FALSE) {
description = NULL, dry_run = FALSE, overwrite = FALSE) {

# DIPSAUS DEBUG START
# center_position <- 0.75 + c(3.5 * 1:16)
Expand All @@ -79,6 +81,7 @@ seeg_prototype <- function(
stopifnot(npos == length(widths))
stopifnot(npos == length(segments))
stopifnot(npos == length(channel_order))
contact_widths0 <- widths / 2

if(!length(description)) {
if(length(center_position) > 1) {
Expand Down Expand Up @@ -204,7 +207,7 @@ seeg_prototype <- function(
channel_map = channel_map,

contact_center = rbind(0, 0, center_position),
contact_sizes = rep(radius0, npos),
contact_sizes = contact_widths0,

# row matrix
model_control_points = rbind(0, 0, center_position),
Expand All @@ -219,7 +222,15 @@ seeg_prototype <- function(
proto$validate()

if(!dry_run) {
proto$save_as_default( force = FALSE )
tryCatch({
proto$save_as_default( force = overwrite )
}, warning = function(e) {
if(!overwrite) {
warning("Electrode prototype already exists. Please use `overwrite = TRUE` to overwrite.")
} else {
warning(e)
}
})
}

proto
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2 changes: 1 addition & 1 deletion inst/prototypes/SEEG-ADTECH-RD06R-SP08X-000.json

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2 changes: 1 addition & 1 deletion inst/prototypes/SEEG-ADTECH-SD04R-AP58X-000.json
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