Nothing
check_wb <- function() {
if (is.null(ciftiTools.getOption("wb_path"))) {
skip("Connectome Workbench is not available.")
}
}
test_that("plot_xifti `together` argument is working", {
check_wb()
fnames <- ciftiTools.files()
# CORTEX ---------------------------------------------------------------------
x <- read_cifti(fnames$cifti["dscalar"], brainstructures=c("left", "right"))
y <- transform_xifti(x, function(q){rnorm(length(q))})
x <- merge_xifti(x, y, x+y)
x$meta$cifti$names <- c("dat", "datB", "rand", "randB", "sum", "sumB")
# Plots with saving
tdir <- tempdir()
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=file.path(tdir, "abc"))
view_comp(q)
view_comp(c(q, q), nrow=1, title_height=.05, title="Hello")
view_comp(c(q, q, q), title="Goodbye", ncol=1, fname=paste0(tempfile(), ".png"))
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=file.path(tdir, "abc.png"))
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", together_ncol=1, fname=file.path(tdir, "abc.pdf"))
q <- plot(x, idx=c(3,1), together="idx", legend_embed=FALSE, colors="Spectral", fname=file.path(tdir, "abc"))
q <- plot(x, idx=c(3,1), together="leg", color_mode="seq", fname=file.path(tdir, "abc"))
q <- plot(x, idx=c(3,1), together="leg", color_mode="seq", fname=file.path(tdir, "abc.pdf"))
q <- plot(x, idx=seq(4), together="leg", view="lateral", together_title="hello", fname=file.path(tdir, "abc.png"))
q <- plot(x, idx=seq(3,6), together="leg", view="lateral", together_title="hello", fname=file.path(tdir, "abc.png"), fname_suffix="idx", bg="black", text_color="white")
q <- plot(x, idx=5, together=c("idx", "leg"), view="medial", hemisphere="left", together_title="hey", fname=file.path(tdir, "qrs"))
testthat::expect_warning(
q <- plot(x, idx=c(6,5,1), together=c("idx", "leg"), slider_title="zzz", fname=file.path(tdir, c("a", "b", "c")))
)
q <- plot(x, idx=c(6,5,1), together=c("leg"), slider_title="zzz", fname=file.path(tdir, c("a", "b", "c")))
# SUBCORTEX ------------------------------------------------------------------
x <- read_cifti(fnames$cifti["dscalar_ones"], brainstructures="subc")
x <- select_xifti(x, idx=c(1,1,1))
x$meta$cifti$names <- c("ones", "rand", "sum")
x$data$subcort[,2] <- rnorm(nrow(x$data$subcort))
x$data$subcort[,3] <- rowSums(x$data$subcort[,seq(2)])
# Plots in RStudio window
plot(x, idx=c(1,1,1), together="idx", what="vol")
plot(x, idx=seq(3), together="idx", what="vol")
plot(x, color_mode="sequential", zlim=c(-5, 5), together=c("idx", "leg"))
plot(x, idx=c(2,3), color_mode="sequential", zlim=c(-2, 2), together=c("idx", "leg"))
plot(x, idx=c(2,3), color_mode="sequential", zlim=c(-2, 2), together=c("leg"))
plot(x*100, idx=c(2,3,3,2), together_title="hello", digits=1, together=c("idx"))
plot(x, idx=c(2,1,3,1), together=c("idx", "leg"), text_color="black", bg="white", together_title="abc")
# Plots with saving
tdir <- tempdir()
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=file.path(tdir, "abc"))
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=file.path(tdir, "abc.png"))
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=file.path(tdir, "abc.pdf"))
q <- plot(x, idx=c(3,1), together="idx", legend_embed=FALSE, colors="Spectral", fname=file.path(tdir, "abc"))
q <- plot(x, idx=c(3,1), together="leg", color_mode="seq", plane="cor", fname=file.path(tdir, "abc"))
q <- plot(x, idx=c(3,1), together="leg", color_mode="seq", plane="cor", fname=file.path(tdir, "abc.pdf"))
# fname=TRUE
olddir <- getwd()
setwd(tdir)
q <- plot(x, idx=c(3,2,2,1), together="idx", together_title="hi", fname=TRUE)
q <- plot(x, idx=2, together="idx", fname=TRUE)
q <- plot(x, idx=c(3,1), together="idx", legend_embed=FALSE, colors="Spectral", fname=TRUE)
q <- plot(x, idx=c(3,1), together="leg", color_mode="seq", plane="cor", fname=TRUE)
setwd(olddir)
# QUALITATIVE
# Plots in RStudio window
plot(x > 1, color_mode="qual", idx=c(2,1,3,1), together=c("idx", "leg"), text_color="black", bg="white", together_title="abc")
plot(x > 1, color_mode="qual", idx=c(2,1,3,1), together="idx", text_color="black", bg="white", together_title="abc")
plot(x > 0, idx=c(3,2,1), together="idx", n_slices=4, plane="sag", color_mode="qual", colors=c("red", "blue"))
plot(x > 0, idx=c(3,2,1), together=c("idx", "leg"), n_slices=4, plane="sag", color_mode="qual", colors=c("red", "blue"))
plot(x > 0, together="idx", color_mode="qual")
# Plots with saving
setwd(tdir)
q <- plot(x > 2, idx=c(2,1), together="idx", fname=TRUE, color_mode="qual")
q <- plot(x > 2, idx=c(3,2,2,1), together="idx", fname=TRUE, color_mode="qual")
q <- plot(x > 2, idx=c(3,2,2,1), together=c("idx", "leg"), fname=TRUE, color_mode="qual")
q <- plot(x > 2, idx=c(3,2,1), together="leg", fname=TRUE, color_mode="qual")
q <- plot(x > 2, idx=c(3,2,1), together="leg", fname="abc.pdf", color_mode="qual")
# DLABEL XIFTI WITH MULTIPLE LEVELS
setwd(olddir)
x <- round(round(x/3)*2)
y <- x; y$data$subcort[] <- as.numeric(y$meta$subcort$labels)
y <- transform_xifti(y, function(q){c(rep(1, 5), rep(3, 5), rep(10, 20))[q+1]})
x <- convert_xifti(x, "dlabel")
y <- convert_xifti(y, "dlabel")
plot(y, idx=c(1,1,1), together="idx", what="vol")
plot(x, idx=seq(3), together="idx", what="vol")
testthat::expect_warning(
plot(x, idx=seq(3), together="idx", what="vol", colors="Spectral")
)
plot(x, together=c("idx", "leg"))
plot(x, together=c("idx", "leg"), legend_alllevels=TRUE)
plot(x, idx=c(2,3), together=c("idx", "leg"), colors=c(rep("white", 5), rep("black", 7)))
plot(x, idx=c(2,3), together=c("leg"))
plot(transform_xifti(x, function(q){ifelse(q %in% seq(4,8), 2, q)}), idx=c(2,3,3,2), together_title="hello", together=c("idx"))
plot(x, idx=c(2,1,3,1), together=c("idx", "leg"), text_color="black", bg="white", together_title="abc")
})
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