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nbody: add "nodes or sockets" experiment

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This commit is contained in:
Antoni Navarro
2021-03-25 12:07:50 +01:00
committed by Rodrigo Arias Mallo
parent 48a61dc292
commit 58294d4467
4 changed files with 242 additions and 0 deletions
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1
garlic/fig/index.nix
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@@ -31,6 +31,7 @@ in
{
nbody = with exp.nbody; {
granularity = stdPlot ./nbody/granularity.R [ granularity ];
nodesorsockets = stdPlot ./nbody/nodes-or-sockets.R [ nodesorsockets ];
};
hpcg = with exp.hpcg; {

168
garlic/fig/nbody/nodes-or-sockets.R Normal file
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@@ -0,0 +1,168 @@
library(ggplot2)
library(dplyr, warn.conflicts = FALSE)
library(scales)
library(jsonlite)
library(viridis, warn.conflicts = FALSE)
# Load the arguments (argv)
args = commandArgs(trailingOnly=TRUE)
if (length(args)>0) { input_file = args[1] } else { input_file = "input" }
dfNuma = jsonlite::stream_in(file(input_file), verbose=FALSE) %>%
jsonlite::flatten() %>%
select(config.blocksize, config.gitBranch, config.socketAtt, config.useNumact, unit, time) %>%
rename(blocksize=config.blocksize, branch=config.gitBranch, attachment=config.socketAtt, usenuma=config.useNumact) %>%
mutate(blocksize = as.factor(blocksize)) %>%
mutate(branch = as.factor(branch)) %>%
mutate(attachment = as.factor(attachment)) %>%
mutate(usenuma = as.factor(usenuma)) %>%
mutate(unit = as.factor(unit)) %>%
group_by(unit) %>%
mutate(median.time = median(time)) %>%
mutate(normalized.time = time / median.time - 1) %>%
mutate(log.median.time = log(median.time)) %>%
filter(usenuma == TRUE) %>%
ungroup()
dfNonuma = jsonlite::stream_in(file(input_file), verbose=FALSE) %>%
jsonlite::flatten() %>%
select(config.blocksize, config.gitBranch, config.socketAtt, config.useNumact, unit, time) %>%
rename(blocksize=config.blocksize, branch=config.gitBranch, attachment=config.socketAtt, usenuma=config.useNumact) %>%
mutate(blocksize = as.factor(blocksize)) %>%
mutate(branch = as.factor(branch)) %>%
mutate(attachment = as.factor(attachment)) %>%
mutate(usenuma = as.factor(usenuma)) %>%
mutate(unit = as.factor(unit)) %>%
group_by(unit) %>%
mutate(median.time = median(time)) %>%
mutate(normalized.time = time / median.time - 1) %>%
mutate(log.median.time = log(median.time)) %>%
filter(usenuma == FALSE) %>%
ungroup()
dpi = 300
h = 5
w = 8
# ---------------------------------------------------------------------
p = ggplot(dfNuma, aes(x=blocksize, y=median.time, color=attachment)) +
geom_point() +
geom_line(aes(group=attachment)) +
theme_bw() +
labs(x="Blocksize", y="Median time (s)", title="NBody Granularity (tampi+send+oss+task | numactl ON | 4 Nodes): Median Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("median-numactl.time.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("median-numactl.time.pdf", plot=p, width=w, height=h, dpi=dpi)
p = ggplot(dfNonuma, aes(x=blocksize, y=median.time, color=attachment)) +
geom_point() +
geom_line(aes(group=attachment)) +
theme_bw() +
labs(x="Blocksize", y="Median time (s)", title="NBody Granularity (tampi+send+oss+task | numactl OFF | 4 Nodes): Median Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("median.time.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("median.time.pdf", plot=p, width=w, height=h, dpi=dpi)
# ---------------------------------------------------------------------
p = ggplot(dfNuma, aes(x=blocksize, y=normalized.time, color=attachment)) +
geom_boxplot() +
geom_hline(yintercept=c(-0.01, 0.01), linetype="dashed", color="red") +
facet_wrap(~ attachment) +
theme_bw() +
labs(x="Blocksize", y="Normalized Time", title="NBody Granularity (tampi+send+oss+task | numactl ON | 4 Nodes): Normalized Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("normalized-numactl.time.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("normalized-numactl.time.pdf", plot=p, width=w, height=h, dpi=dpi)
p = ggplot(dfNonuma, aes(x=blocksize, y=normalized.time, color=attachment)) +
geom_boxplot() +
geom_hline(yintercept=c(-0.01, 0.01), linetype="dashed", color="red") +
facet_wrap(~ attachment) +
theme_bw() +
labs(x="Blocksize", y="Normalized Time", title="NBody Granularity (tampi+send+oss+task | 4 Nodes): Normalized Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("normalized.time.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("normalized.time.pdf", plot=p, width=w, height=h, dpi=dpi)
# ---------------------------------------------------------------------
p = ggplot(dfNuma, aes(x=blocksize, y=time, color=attachment)) +
geom_point(shape=21, size=3) +
theme_bw() +
labs(x="Blocksize", y="Time (s)", title="NBody Granularity (tampi+send+oss+task | numactl ON | 4 Nodes): Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("time-numactl.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("time-numactl.pdf", plot=p, width=w, height=h, dpi=dpi)
p = ggplot(dfNonuma, aes(x=blocksize, y=time, color=attachment)) +
geom_point(shape=21, size=3) +
theme_bw() +
labs(x="Blocksize", y="Time (s)", title="NBody Granularity (tampi+send+oss+task | 4 Nodes): Time",
subtitle=input_file, color="Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("time.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("time.pdf", plot=p, width=w, height=h, dpi=dpi)
# ---------------------------------------------------------------------
p = ggplot(dfNuma, aes(x=blocksize, y=attachment, fill=median.time)) +
geom_raster() +
scale_fill_viridis(option="plasma") +
coord_fixed() +
theme_bw() +
labs(x="Blocksize", y="Attachment", title="NBody Granularity (tampi+send+oss+task | numactl ON | 4 Nodes): Time",
subtitle=input_file, color = "Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("time-numactl.heatmap.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("time-numactl.heatmap.pdf", plot=p, width=w, height=h, dpi=dpi)
p = ggplot(dfNonuma, aes(x=blocksize, y=attachment, fill=median.time)) +
geom_raster() +
scale_fill_viridis(option="plasma") +
coord_fixed() +
theme_bw() +
labs(x="Blocksize", y="Attachment", title="NBody Granularity (tampi+send+oss+task | 4 Nodes): Time",
subtitle=input_file, color = "Rank Attachment") +
theme(plot.subtitle=element_text(size=5)) +
theme(legend.position="bottom") +
scale_color_manual(labels = c("RanksPerNode", "RanksPerSocket"), values=c("blue", "red"))
ggsave("time.heatmap.png", plot=p, width=w, height=h, dpi=dpi)
ggsave("time.heatmap.pdf", plot=p, width=w, height=h, dpi=dpi)