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library(data.table) | ||
kk = knitr::kable | ||
get_report_status_file = function() { | ||
"report-done" | ||
} | ||
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# load ---- | ||
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load_time = function() { | ||
fread("~/git/db-benchmark/time.csv")[ | ||
!is.na(batch) & | ||
in_rows %in% c(1e7, 1e8, 1e9) & | ||
solution %in% c("data.table", "dplyr", "pandas", "pydatatable", "spark", "dask", "juliadf") & | ||
question %in% c("sum v1 by id1", "sum v1 by id1:id2", "sum v1 mean v3 by id3", "mean v1:v3 by id4", "sum v1:v3 by id6") | ||
][order(timestamp)] | ||
} | ||
load_logs = function() { | ||
fread("~/git/db-benchmark/logs.csv")[ | ||
!is.na(batch) & | ||
nzchar(solution) & | ||
solution %in% c("data.table", "dplyr", "pandas", "pydatatable", "spark", "dask", "juliadf") & | ||
action %in% c("start","finish") | ||
][order(timestamp)] | ||
} | ||
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# clean ---- | ||
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clean_time = function(d) { | ||
d[!nzchar(git), git := NA_character_] | ||
} | ||
clean_logs = function(l) { | ||
l[!nzchar(git), git := NA_character_] | ||
} | ||
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# model ---- | ||
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model_time = function(d) { | ||
if (nrow(d[, .(unq_chk=uniqueN(chk)), .(task, solution, data, question)][unq_chk>1])) | ||
stop("Value of 'chk' varies for different runs for single solution+question") | ||
if (nrow(d[, .(unq_out_rows=uniqueN(out_rows)), .(task, solution, data, question)][unq_out_rows>1])) | ||
stop("Value of 'out_rows' varies for different runs for single solution+question") | ||
if (nrow(d[, .(unq_out_cols=uniqueN(out_cols)), .(task, solution, data, question)][unq_out_cols>1])) | ||
stop("Value of 'out_cols' varies for different runs for single solution+question") | ||
if (nrow(d[, .(unq_cache=uniqueN(cache))][unq_cache>1])) | ||
stop("Value of 'cache' should be constant for all solutions") | ||
d = dcast(d, ft(nodename)+batch+ft(in_rows)+ft(question)+ft(solution)+ft(fun)+ft(version)+ft(git)+ft(task)+ft(data) ~ run, value.var=c("timestamp","time_sec","mem_gb","chk_time_sec","chk","out_rows","out_cols")) | ||
d[, c("chk_2","out_rows_2","out_cols_2") := NULL] | ||
setnames(d, c("chk_1","out_rows_1","out_cols_1"), c("chk","out_rows","out_cols")) | ||
d | ||
} | ||
model_logs = function(l) { | ||
l = dcast(l, ft(nodename)+batch+ft(solution)+ft(version)+ft(git)+ft(task)+ft(data) ~ ft(action), value.var=c("timestamp","stderr")) | ||
l[, stderr_start := NULL] | ||
setnames(l, c("stderr_finish","timestamp_start","timestamp_finish"), c("script_stderr","script_start","script_finish")) | ||
} | ||
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# merge ---- | ||
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merge_time_logs = function(d, l) { | ||
ld = d[l, on=c("nodename","batch","solution","task","data"), nomatch=NA] | ||
if (nrow(ld[as.character(version)!=as.character(i.version)])) | ||
stop("Solution version in 'version' does not match between 'time' and 'logs'") | ||
if (nrow(ld[as.character(git)!=as.character(i.git)])) | ||
stop("Solution revision in 'git' does not match between 'time' and 'logs'") | ||
ld[, c("i.version","i.git") := NULL] | ||
ld | ||
} | ||
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# transform ---- | ||
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ft = function(x) { | ||
factor(x, levels=unique(x)) | ||
} | ||
ftdata = function(x, task="groupby") { | ||
labsorted = function(x) { | ||
ans = rep("unsorted", length(x)) | ||
ans[as.logical(as.integer(x))] = "sorted" | ||
ans | ||
} | ||
if (task=="groupby") { | ||
y = strsplit(as.character(x), "_", fixed = TRUE) | ||
in_rows=ft(sapply(y, `[`, 2L)) | ||
k=ft(sapply(y, `[`, 3L)) | ||
na=ft(sapply(y, `[`, 4L)) | ||
sorted=ft(labsorted(sapply(y, `[`, 5L))) | ||
nasorted=ft(sprintf("%s%% NAs, %s", as.character(na), as.character(sorted))) | ||
list(in_rows=in_rows, k=k, na=na, sorted=sorted, nasorted=nasorted) | ||
} else { | ||
stop("no other task defined for decompose_dataname") | ||
} | ||
} | ||
transform = function(ld) { | ||
ld[, max_batch:=max(batch), c("nodename","solution","task","data")] | ||
ld[, script_recent:=FALSE][batch==max_batch, script_recent:=TRUE][, max_batch:=NULL] | ||
ld[, c(list(nodename=nodename, batch=batch, ibatch=as.integer(ft(as.character(batch))), solution=solution, | ||
question=question, fun=fun, version=version, git=git, task=task, data=data), | ||
ftdata(data), .SD), | ||
.SDcols=c(paste(rep(c("timestamp","time_sec","mem_gb","chk_time_sec"), each=2), 1:2, sep="_"), | ||
paste("script", c("finish","start","stderr","recent"), sep="_"), | ||
"out_rows","out_cols") | ||
][, `:=`(iquestion=as.integer(question), script_time_sec=script_finish-script_start) | ||
][] -> lld | ||
lld | ||
} | ||
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# all ---- | ||
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time_logs = function() { | ||
d = load_time() | ||
d = clean_time(d) | ||
d = model_time(d) | ||
l = load_logs() | ||
l = clean_logs(l) | ||
l = model_logs(l) | ||
ld = merge_time_logs(d, l) | ||
transform(ld) | ||
} |
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