94 lines
1.8 KiB
Plaintext
94 lines
1.8 KiB
Plaintext
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<%@include file="includes/setup.md.rsp"%>
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<%@string fcnname="binCounts_subset"%>
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<%@string subname="binCounts"%>
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<%@meta title="${subname}() benchmarks on subsetted computation"%>
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<%@meta author="Dongcan Jiang"%>
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<%@meta date="2015-06-04"%>
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<%@include file="${header}"%>
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# <%@meta name="title"%>
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This report benchmark the performance of <%=subname%>() on subsetted computation.
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<% for (mode in c("integer", "double")) { %>
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## Data type "<%=mode%>"
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### Non-sorted simulated data
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```r
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<%=withCapture({
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set.seed(0xBEEF)
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nx <- 100e3 # Number of data points
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xmax <- 0.01*nx
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x <- runif(nx, min = 0, max = xmax)
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storage.mode(x) <- mode
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str(x)
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# Uniformely distributed bins
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nb <- 10e3 # Number of bins
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bx <- seq(from = 0, to = xmax, length.out = nb+1L)
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bx <- c(-1, bx, xmax+1)
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# indices for subsetting
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idxs <- sample.int(length(x), size = length(x)*0.7)
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})%>
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```
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### Results
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<% benchmark <- function() { %>
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<% dataLabel <- if (is.unsorted(x)) "unsorted" else "sorted" %>
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<% mprintf("%s: %s\n", mode, dataLabel) %>
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```r
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<%=withCapture({
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x_S <- x[idxs]
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gc()
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stats <- microbenchmark(
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"binCounts_x_S" = binCounts(x_S, bx = bx),
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"binCounts(x, idxs)" = binCounts(x, idxs = idxs, bx = bx),
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"binCounts(x[idxs])" = binCounts(x[idxs], bx = bx),
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unit = "ms"
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)
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})%>
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```
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<% benchmarkResults(stats, tags=c(mode, dataLabel)) %>
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<%
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# Sanity checks
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n1 <- binCounts(x, idxs = idxs, bx = bx)
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n1r <- rev(binCounts(-x, idxs = idxs, bx = rev(-bx), right = TRUE))
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stopifnot(identical(n1r, n1))
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%>
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<% } # benchmark() %>
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<% benchmark() %>
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### Sorted simulated data
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```r
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<%=withCapture({
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x <- sort(x)
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idxs <- sort(idxs)
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})%>
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```
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<% benchmark() %>
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<% } # for (mode ...) %>
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<%@include file="${footer}"%>
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<%---------------------------------------------------------------------------
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HISTORY:
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2014-06-04
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o Created.
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---------------------------------------------------------------------------%>
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