Compare commits
6 Commits
| Author | SHA1 | Date | |
|---|---|---|---|
| c612132763 | |||
| 19660f8cd0 | |||
| 7b07540a69 | |||
| 89c43e28f5 | |||
| b9b2e42ad2 | |||
| ca42fdff2f |
@@ -86,17 +86,11 @@ jobs:
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|||||||
build-macos-arm64:
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build-macos-arm64:
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needs: create-release
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needs: create-release
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runs-on: ubuntu-latest
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runs-on: ubuntu-latest
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container: joseluisq/rust-linux-darwin-builder:latest
|
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defaults:
|
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run:
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working-directory: src
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steps:
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steps:
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- uses: actions/checkout@v4
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- uses: actions/checkout@v4
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||||||
|
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- name: Add target and install jq
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- name: Login to registry
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run: |
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run: echo "${{ secrets.REGISTRYTOKEN }}" | docker login registry.metabarcoding.org -u ${{ github.actor }} --password-stdin
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rustup target add aarch64-apple-darwin
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apt-get update -qq && apt-get install -y -qq jq
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|
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- name: Cache cargo registry
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- name: Cache cargo registry
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uses: actions/cache@v4
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uses: actions/cache@v4
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@@ -109,11 +103,12 @@ jobs:
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restore-keys: macos-arm64-cargo-
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restore-keys: macos-arm64-cargo-
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|
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- name: Build macOS binary
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- name: Build macOS binary
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env:
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run: |
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CC: aarch64-apple-darwin22.4-clang
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docker run --rm \
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CXX: aarch64-apple-darwin22.4-clang++
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-v "${{ github.workspace }}:/src" \
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CARGO_TARGET_AARCH64_APPLE_DARWIN_LINKER: aarch64-apple-darwin22.4-clang
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-w /src/src \
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run: cargo build --release --target aarch64-apple-darwin
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registry.metabarcoding.org/cibuilder/rustcrossosx:latest \
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cargo build --release --target aarch64-apple-darwin --no-default-features
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|
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- name: Prepare and upload artifact
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- name: Prepare and upload artifact
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env:
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env:
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@@ -121,7 +116,7 @@ jobs:
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RELEASE_ID: ${{ needs.create-release.outputs.release_id }}
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RELEASE_ID: ${{ needs.create-release.outputs.release_id }}
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run: |
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run: |
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mkdir -p /tmp/dist
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mkdir -p /tmp/dist
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cp target/aarch64-apple-darwin/release/obikmer /tmp/dist/obikmer-macos-arm64
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cp src/target/aarch64-apple-darwin/release/obikmer /tmp/dist/obikmer-macos-arm64
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curl -s -X POST \
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curl -s -X POST \
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"${{ github.server_url }}/api/v1/repos/${{ github.repository }}/releases/$RELEASE_ID/assets" \
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"${{ github.server_url }}/api/v1/repos/${{ github.repository }}/releases/$RELEASE_ID/assets" \
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-H "Authorization: token $GITEA_TOKEN" \
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-H "Authorization: token $GITEA_TOKEN" \
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@@ -8,6 +8,7 @@ data-stress
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*.pb
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*.pb
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./**/*.json
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./**/*.json
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*.bin
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*.bin
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|
*.log
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Betula_exilis--IGA-24-33
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Betula_exilis--IGA-24-33
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benchmark/genomes
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benchmark/genomes
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benchmark/simulated_data
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benchmark/simulated_data
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Generated
+1
-1
@@ -1704,7 +1704,7 @@ dependencies = [
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|
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[[package]]
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[[package]]
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name = "obikmer"
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name = "obikmer"
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version = "1.1.25"
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version = "1.1.29"
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dependencies = [
|
dependencies = [
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"clap",
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"clap",
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"csv",
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"csv",
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+17
-46
@@ -217,13 +217,9 @@ impl PartitionRunner {
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return Ok(());
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return Ok(());
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}
|
}
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|
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const SPAWN_THRESHOLD: f64 = 0.95;
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const SPAWN_THRESHOLD: f64 = 0.2;
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const TIMER_SECS: u64 = 30;
|
const TIMER_SECS: u64 = 30;
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|
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let n_cores = std::thread::available_parallelism()
|
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.map(|n| n.get())
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.unwrap_or(1);
|
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|
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// ── Channels ──────────────────────────────────────────────────────────
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// ── Channels ──────────────────────────────────────────────────────────
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let (part_tx, part_rx) = unbounded::<usize>();
|
let (part_tx, part_rx) = unbounded::<usize>();
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let (activate_tx, activate_rx) = unbounded::<()>();
|
let (activate_tx, activate_rx) = unbounded::<()>();
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@@ -287,11 +283,11 @@ impl PartitionRunner {
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drop(event_tx);
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drop(event_tx);
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|
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// ── Controller ────────────────────────────────────────────────────
|
// ── Controller ────────────────────────────────────────────────────
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activate_tx.send(()).ok();
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let initial_workers = n_nodes.min(max_workers).min(n_total);
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let mut n_active = 1usize;
|
for _ in 0..initial_workers { activate_tx.send(()).ok(); }
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let mut cpu_sample = CpuSample::now();
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let mut n_active = initial_workers;
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let mut eff_at_last_spawn = 0.0f64; // 0 = no previous spawn to evaluate
|
let mut cpu_sample = CpuSample::now();
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let mut completed = 0usize;
|
let mut completed = 0usize;
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|
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while completed < n_total {
|
while completed < n_total {
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let Ok(event) = event_rx.recv() else { break };
|
let Ok(event) = event_rx.recv() else { break };
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@@ -307,15 +303,13 @@ impl PartitionRunner {
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// Inline check: same logic as a timer tick.
|
// Inline check: same logic as a timer tick.
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maybe_activate(
|
maybe_activate(
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&activate_tx, &mut n_active, max_workers,
|
&activate_tx, &mut n_active, max_workers,
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&mut cpu_sample, &mut eff_at_last_spawn,
|
&mut cpu_sample, SPAWN_THRESHOLD, completed, n_total,
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n_cores, SPAWN_THRESHOLD, completed, n_total,
|
|
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);
|
);
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}
|
}
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WorkerEvent::TimerTick => {
|
WorkerEvent::TimerTick => {
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maybe_activate(
|
maybe_activate(
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&activate_tx, &mut n_active, max_workers,
|
&activate_tx, &mut n_active, max_workers,
|
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&mut cpu_sample, &mut eff_at_last_spawn,
|
&mut cpu_sample, SPAWN_THRESHOLD, completed, n_total,
|
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n_cores, SPAWN_THRESHOLD, completed, n_total,
|
|
||||||
);
|
);
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}
|
}
|
||||||
}
|
}
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@@ -342,42 +336,19 @@ enum WorkerEvent<R, E> {
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}
|
}
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||||||
|
|
||||||
fn maybe_activate(
|
fn maybe_activate(
|
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activate_tx: &crossbeam_channel::Sender<()>,
|
activate_tx: &crossbeam_channel::Sender<()>,
|
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n_active: &mut usize,
|
n_active: &mut usize,
|
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max_workers: usize,
|
max_workers: usize,
|
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cpu_sample: &mut CpuSample,
|
cpu_sample: &mut CpuSample,
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eff_at_last_spawn: &mut f64,
|
threshold: f64,
|
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n_cores: usize,
|
completed: usize,
|
||||||
threshold: f64,
|
n_total: usize,
|
||||||
completed: usize,
|
|
||||||
n_total: usize,
|
|
||||||
) {
|
) {
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if *n_active >= max_workers || completed >= n_total { return; }
|
if *n_active >= max_workers || completed >= n_total { return; }
|
||||||
|
|
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let eff = cpu_sample.cpu_efficiency(n_cores);
|
if cpu_sample.do_i_activate(threshold) {
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if eff >= threshold { return; } // CPU already saturated
|
|
||||||
|
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||||||
// Check that the previous activation was beneficial enough.
|
|
||||||
// Going from k-1 → k workers, the minimum acceptable speedup is (k-1+0.2)/(k-1).
|
|
||||||
// For the very first extra worker (n_active == 1, no previous spawn), skip this
|
|
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// check: eff_at_last_spawn == 0 acts as the sentinel.
|
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let last_spawn_was_beneficial = if *eff_at_last_spawn < 1e-9 {
|
|
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true // first additional worker: no prior data to evaluate
|
|
||||||
} else {
|
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let k_before = (*n_active - 1) as f64;
|
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let min_speedup = (k_before + 0.2) / k_before;
|
|
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let actual_speedup = eff / *eff_at_last_spawn;
|
|
||||||
actual_speedup >= min_speedup
|
|
||||||
};
|
|
||||||
|
|
||||||
if last_spawn_was_beneficial {
|
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||||||
activate_tx.send(()).ok();
|
activate_tx.send(()).ok();
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*eff_at_last_spawn = eff;
|
|
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*n_active += 1;
|
*n_active += 1;
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*cpu_sample = CpuSample::now();
|
debug!("activated worker {}/{}", n_active, max_workers);
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debug!(
|
|
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"activated worker {}/{} — efficiency {:.0}%",
|
|
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n_active, max_workers, eff * 100.0,
|
|
||||||
);
|
|
||||||
}
|
}
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||||||
}
|
}
|
||||||
|
|||||||
@@ -1,6 +1,6 @@
|
|||||||
[package]
|
[package]
|
||||||
name = "obikmer"
|
name = "obikmer"
|
||||||
version = "1.1.25"
|
version = "1.1.29"
|
||||||
edition = "2024"
|
edition = "2024"
|
||||||
|
|
||||||
[[bin]]
|
[[bin]]
|
||||||
|
|||||||
+210
-100
@@ -4,7 +4,7 @@ use std::sync::{Condvar, Mutex};
|
|||||||
use std::time::{Duration, Instant};
|
use std::time::{Duration, Instant};
|
||||||
|
|
||||||
use indicatif::{ProgressBar, ProgressStyle};
|
use indicatif::{ProgressBar, ProgressStyle};
|
||||||
use tracing::{info, warn};
|
use tracing::{debug, info, warn};
|
||||||
|
|
||||||
const BRAILLE: &[&str] = &["⠋", "⠙", "⠹", "⠸", "⠼", "⠴", "⠦", "⠧", "⠇", "⠏"];
|
const BRAILLE: &[&str] = &["⠋", "⠙", "⠹", "⠸", "⠼", "⠴", "⠦", "⠧", "⠇", "⠏"];
|
||||||
|
|
||||||
@@ -14,24 +14,25 @@ const BRAILLE: &[&str] = &["⠋", "⠙", "⠹", "⠸", "⠼", "⠴", "⠦", "⠧
|
|||||||
/// a TTY (e.g. HPC job logs): every 10% for bounded bars, every ~10 s for
|
/// a TTY (e.g. HPC job logs): every 10% for bounded bars, every ~10 s for
|
||||||
/// spinners (throttled on `set_message`).
|
/// spinners (throttled on `set_message`).
|
||||||
pub struct TracedBar {
|
pub struct TracedBar {
|
||||||
pb: ProgressBar,
|
pb: ProgressBar,
|
||||||
label: String,
|
label: String,
|
||||||
unit: String,
|
unit: String,
|
||||||
total: u64, // 0 for spinners
|
total: u64, // 0 for spinners
|
||||||
start: Instant, // creation time, for spinner throttling
|
start: Instant, // creation time, for spinner throttling
|
||||||
last_pct: AtomicU64, // last emitted 10%-bucket (1..=10), 0 = none yet
|
last_pct: AtomicU64, // last emitted 10%-bucket (1..=10), 0 = none yet
|
||||||
last_log_ms: AtomicU64, // ms since `start` at last spinner log
|
last_log_ms: AtomicU64, // ms since `start` at last spinner log
|
||||||
}
|
}
|
||||||
|
|
||||||
impl TracedBar {
|
impl TracedBar {
|
||||||
pub fn inc(&self, delta: u64) {
|
pub fn inc(&self, delta: u64) {
|
||||||
self.pb.inc(delta);
|
self.pb.inc(delta);
|
||||||
if self.pb.is_hidden() && self.total > 0 {
|
if self.pb.is_hidden() && self.total > 0 {
|
||||||
let pos = self.pb.position();
|
let pos = self.pb.position();
|
||||||
let pct10 = (pos * 10) / self.total; // 0..=10
|
let pct10 = (pos * 10) / self.total; // 0..=10
|
||||||
let last = self.last_pct.load(Ordering::Relaxed);
|
let last = self.last_pct.load(Ordering::Relaxed);
|
||||||
if pct10 > last
|
if pct10 > last
|
||||||
&& self.last_pct
|
&& self
|
||||||
|
.last_pct
|
||||||
.compare_exchange(last, pct10, Ordering::Relaxed, Ordering::Relaxed)
|
.compare_exchange(last, pct10, Ordering::Relaxed, Ordering::Relaxed)
|
||||||
.is_ok()
|
.is_ok()
|
||||||
{
|
{
|
||||||
@@ -49,14 +50,14 @@ impl TracedBar {
|
|||||||
let msg = msg.into();
|
let msg = msg.into();
|
||||||
if self.pb.is_hidden() {
|
if self.pb.is_hidden() {
|
||||||
if self.total > 0 {
|
if self.total > 0 {
|
||||||
// bounded bar: always log (already rate-limited by 10% threshold in inc)
|
debug!(stage = %self.label, "{msg}");
|
||||||
info!(stage = %self.label, "{msg}");
|
|
||||||
} else {
|
} else {
|
||||||
// spinner: throttle to ~10 s
|
// spinner: throttle to ~10 s
|
||||||
let now_ms = self.start.elapsed().as_millis() as u64;
|
let now_ms = self.start.elapsed().as_millis() as u64;
|
||||||
let last = self.last_log_ms.load(Ordering::Relaxed);
|
let last = self.last_log_ms.load(Ordering::Relaxed);
|
||||||
if now_ms >= last + 10_000
|
if now_ms >= last + 10_000
|
||||||
&& self.last_log_ms
|
&& self
|
||||||
|
.last_log_ms
|
||||||
.compare_exchange(last, now_ms, Ordering::Relaxed, Ordering::Relaxed)
|
.compare_exchange(last, now_ms, Ordering::Relaxed, Ordering::Relaxed)
|
||||||
.is_ok()
|
.is_ok()
|
||||||
{
|
{
|
||||||
@@ -83,8 +84,13 @@ pub fn spinner(label: &str) -> TracedBar {
|
|||||||
);
|
);
|
||||||
pb.enable_steady_tick(Duration::from_millis(100));
|
pb.enable_steady_tick(Duration::from_millis(100));
|
||||||
TracedBar {
|
TracedBar {
|
||||||
pb, label: label.to_string(), unit: String::new(), total: 0,
|
pb,
|
||||||
start: Instant::now(), last_pct: AtomicU64::new(0), last_log_ms: AtomicU64::new(0),
|
label: label.to_string(),
|
||||||
|
unit: String::new(),
|
||||||
|
total: 0,
|
||||||
|
start: Instant::now(),
|
||||||
|
last_pct: AtomicU64::new(0),
|
||||||
|
last_log_ms: AtomicU64::new(0),
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
@@ -101,8 +107,13 @@ pub fn progress_bar(label: &str, n: u64, unit: &str) -> TracedBar {
|
|||||||
);
|
);
|
||||||
pb.enable_steady_tick(Duration::from_millis(100));
|
pb.enable_steady_tick(Duration::from_millis(100));
|
||||||
TracedBar {
|
TracedBar {
|
||||||
pb, label: label.to_string(), unit: unit.to_string(), total: n,
|
pb,
|
||||||
start: Instant::now(), last_pct: AtomicU64::new(0), last_log_ms: AtomicU64::new(0),
|
label: label.to_string(),
|
||||||
|
unit: unit.to_string(),
|
||||||
|
total: n,
|
||||||
|
start: Instant::now(),
|
||||||
|
last_pct: AtomicU64::new(0),
|
||||||
|
last_log_ms: AtomicU64::new(0),
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
@@ -204,13 +215,19 @@ fn tv_to_secs(tv: timeval) -> f64 {
|
|||||||
}
|
}
|
||||||
|
|
||||||
#[cfg(target_os = "macos")]
|
#[cfg(target_os = "macos")]
|
||||||
fn rss_to_bytes(ru: &rusage) -> u64 { ru.ru_maxrss as u64 }
|
fn rss_to_bytes(ru: &rusage) -> u64 {
|
||||||
|
ru.ru_maxrss as u64
|
||||||
|
}
|
||||||
|
|
||||||
#[cfg(not(target_os = "macos"))]
|
#[cfg(not(target_os = "macos"))]
|
||||||
fn rss_to_bytes(ru: &rusage) -> u64 { ru.ru_maxrss as u64 * 1024 }
|
fn rss_to_bytes(ru: &rusage) -> u64 {
|
||||||
|
ru.ru_maxrss as u64 * 1024
|
||||||
|
}
|
||||||
|
|
||||||
// Monotonically increasing counters — negative delta would be a kernel bug.
|
// Monotonically increasing counters — negative delta would be a kernel bug.
|
||||||
fn delta(end: i64, start: i64) -> u64 { (end - start).max(0) as u64 }
|
fn delta(end: i64, start: i64) -> u64 {
|
||||||
|
(end - start).max(0) as u64
|
||||||
|
}
|
||||||
|
|
||||||
// ── CpuSample ─────────────────────────────────────────────────────────────────
|
// ── CpuSample ─────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
@@ -218,31 +235,60 @@ fn delta(end: i64, start: i64) -> u64 { (end - start).max(0) as u64 }
|
|||||||
/// Use [`cpu_efficiency`](Self::cpu_efficiency) to measure the fraction of
|
/// Use [`cpu_efficiency`](Self::cpu_efficiency) to measure the fraction of
|
||||||
/// available cores used since the snapshot was taken.
|
/// available cores used since the snapshot was taken.
|
||||||
pub struct CpuSample {
|
pub struct CpuSample {
|
||||||
wall: Instant,
|
wall: Instant,
|
||||||
user_secs: f64,
|
user_secs: f64,
|
||||||
sys_secs: f64,
|
sys_secs: f64,
|
||||||
|
previous: f64,
|
||||||
}
|
}
|
||||||
|
|
||||||
impl CpuSample {
|
impl CpuSample {
|
||||||
pub fn now() -> Self {
|
pub fn now() -> Self {
|
||||||
let ru = get_rusage();
|
let ru = get_rusage();
|
||||||
Self {
|
Self {
|
||||||
wall: Instant::now(),
|
wall: Instant::now(),
|
||||||
user_secs: tv_to_secs(ru.ru_utime),
|
user_secs: tv_to_secs(ru.ru_utime),
|
||||||
sys_secs: tv_to_secs(ru.ru_stime),
|
sys_secs: tv_to_secs(ru.ru_stime),
|
||||||
|
previous: 0.0,
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
/// (user_delta + sys_delta) / (wall_delta × n_cores) since this snapshot.
|
/// (user_delta + sys_delta) / (wall_delta × n_cores) since this snapshot.
|
||||||
/// Returns 0.0 if less than 100 ms have elapsed (too noisy).
|
/// Returns 0.0 if less than 100 ms have elapsed (too noisy).
|
||||||
pub fn cpu_efficiency(&self, n_cores: usize) -> f64 {
|
pub fn cpu_efficiency(&self, n_cores: usize) -> f64 {
|
||||||
let ru = get_rusage();
|
let ru = get_rusage();
|
||||||
let wall = self.wall.elapsed().as_secs_f64();
|
let wall = self.wall.elapsed().as_secs_f64();
|
||||||
if wall < 0.1 { return 0.0; }
|
if wall < 0.1 {
|
||||||
let cpu = (tv_to_secs(ru.ru_utime) - self.user_secs)
|
return 0.0;
|
||||||
+ (tv_to_secs(ru.ru_stime) - self.sys_secs);
|
}
|
||||||
|
let cpu =
|
||||||
|
(tv_to_secs(ru.ru_utime) - self.user_secs) + (tv_to_secs(ru.ru_stime) - self.sys_secs);
|
||||||
cpu / (wall * n_cores as f64)
|
cpu / (wall * n_cores as f64)
|
||||||
}
|
}
|
||||||
|
|
||||||
|
pub fn do_i_activate(&mut self, threshold: f64) -> bool {
|
||||||
|
let n = CpuSample::now();
|
||||||
|
let delta_ru = (n.user_secs - self.user_secs) + (n.sys_secs - self.sys_secs);
|
||||||
|
let delta_wall = self.wall.elapsed().as_secs_f64();
|
||||||
|
|
||||||
|
let efficiency = delta_ru / delta_wall;
|
||||||
|
let activate = 0f64.max(efficiency - self.previous) >= threshold;
|
||||||
|
|
||||||
|
if activate {
|
||||||
|
debug!(
|
||||||
|
"Do I activate : {} -> {} = {} Activate: {}",
|
||||||
|
self.previous,
|
||||||
|
efficiency,
|
||||||
|
0f64.max(efficiency - self.previous),
|
||||||
|
activate
|
||||||
|
);
|
||||||
|
self.previous = efficiency;
|
||||||
|
self.user_secs = n.user_secs;
|
||||||
|
self.sys_secs = n.sys_secs;
|
||||||
|
self.wall = n.wall;
|
||||||
|
}
|
||||||
|
|
||||||
|
activate
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
// ── public API ────────────────────────────────────────────────────────────────
|
// ── public API ────────────────────────────────────────────────────────────────
|
||||||
@@ -251,33 +297,37 @@ impl CpuSample {
|
|||||||
#[must_use = "call .stop() to record the stage"]
|
#[must_use = "call .stop() to record the stage"]
|
||||||
pub struct Stage {
|
pub struct Stage {
|
||||||
label: String,
|
label: String,
|
||||||
wall: Instant,
|
wall: Instant,
|
||||||
ru: rusage,
|
ru: rusage,
|
||||||
}
|
}
|
||||||
|
|
||||||
impl Stage {
|
impl Stage {
|
||||||
pub fn start(label: impl Into<String>) -> Self {
|
pub fn start(label: impl Into<String>) -> Self {
|
||||||
let label = label.into();
|
let label = label.into();
|
||||||
info!(stage = %label, "started");
|
info!(stage = %label, "started");
|
||||||
Self { label, wall: Instant::now(), ru: get_rusage() }
|
Self {
|
||||||
|
label,
|
||||||
|
wall: Instant::now(),
|
||||||
|
ru: get_rusage(),
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
pub fn stop(self) -> StageStats {
|
pub fn stop(self) -> StageStats {
|
||||||
let wall_secs = self.wall.elapsed().as_secs_f64();
|
let wall_secs = self.wall.elapsed().as_secs_f64();
|
||||||
let end = get_rusage();
|
let end = get_rusage();
|
||||||
let stats = StageStats {
|
let stats = StageStats {
|
||||||
label: self.label,
|
label: self.label,
|
||||||
wall_secs,
|
wall_secs,
|
||||||
user_secs: tv_to_secs(end.ru_utime) - tv_to_secs(self.ru.ru_utime),
|
user_secs: tv_to_secs(end.ru_utime) - tv_to_secs(self.ru.ru_utime),
|
||||||
sys_secs: tv_to_secs(end.ru_stime) - tv_to_secs(self.ru.ru_stime),
|
sys_secs: tv_to_secs(end.ru_stime) - tv_to_secs(self.ru.ru_stime),
|
||||||
max_rss_bytes: rss_to_bytes(&end),
|
max_rss_bytes: rss_to_bytes(&end),
|
||||||
minor_faults: delta(end.ru_minflt as i64, self.ru.ru_minflt as i64),
|
minor_faults: delta(end.ru_minflt as i64, self.ru.ru_minflt as i64),
|
||||||
major_faults: delta(end.ru_majflt as i64, self.ru.ru_majflt as i64),
|
major_faults: delta(end.ru_majflt as i64, self.ru.ru_majflt as i64),
|
||||||
vol_ctx: delta(end.ru_nvcsw as i64, self.ru.ru_nvcsw as i64),
|
vol_ctx: delta(end.ru_nvcsw as i64, self.ru.ru_nvcsw as i64),
|
||||||
invol_ctx: delta(end.ru_nivcsw as i64, self.ru.ru_nivcsw as i64),
|
invol_ctx: delta(end.ru_nivcsw as i64, self.ru.ru_nivcsw as i64),
|
||||||
in_blocks: delta(end.ru_inblock as i64, self.ru.ru_inblock as i64),
|
in_blocks: delta(end.ru_inblock as i64, self.ru.ru_inblock as i64),
|
||||||
out_blocks: delta(end.ru_oublock as i64, self.ru.ru_oublock as i64),
|
out_blocks: delta(end.ru_oublock as i64, self.ru.ru_oublock as i64),
|
||||||
swaps: delta(end.ru_nswap as i64, self.ru.ru_nswap as i64),
|
swaps: delta(end.ru_nswap as i64, self.ru.ru_nswap as i64),
|
||||||
};
|
};
|
||||||
info!(
|
info!(
|
||||||
stage = %stats.label,
|
stage = %stats.label,
|
||||||
@@ -299,27 +349,30 @@ impl Stage {
|
|||||||
|
|
||||||
/// Per-stage efficiency metrics collected from `getrusage(RUSAGE_SELF)` deltas.
|
/// Per-stage efficiency metrics collected from `getrusage(RUSAGE_SELF)` deltas.
|
||||||
pub struct StageStats {
|
pub struct StageStats {
|
||||||
pub label: String,
|
pub label: String,
|
||||||
pub wall_secs: f64,
|
pub wall_secs: f64,
|
||||||
pub user_secs: f64,
|
pub user_secs: f64,
|
||||||
pub sys_secs: f64,
|
pub sys_secs: f64,
|
||||||
/// Peak RSS at end of stage (bytes). ru_maxrss is a process-lifetime maximum,
|
/// Peak RSS at end of stage (bytes). ru_maxrss is a process-lifetime maximum,
|
||||||
/// so this reflects the high-water mark up to and including this stage.
|
/// so this reflects the high-water mark up to and including this stage.
|
||||||
pub max_rss_bytes: u64,
|
pub max_rss_bytes: u64,
|
||||||
pub minor_faults: u64,
|
pub minor_faults: u64,
|
||||||
pub major_faults: u64,
|
pub major_faults: u64,
|
||||||
pub vol_ctx: u64, // voluntary context switches
|
pub vol_ctx: u64, // voluntary context switches
|
||||||
pub invol_ctx: u64, // involuntary context switches
|
pub invol_ctx: u64, // involuntary context switches
|
||||||
pub in_blocks: u64, // filesystem block reads (after page cache)
|
pub in_blocks: u64, // filesystem block reads (after page cache)
|
||||||
pub out_blocks: u64, // filesystem block writes
|
pub out_blocks: u64, // filesystem block writes
|
||||||
pub swaps: u64,
|
pub swaps: u64,
|
||||||
}
|
}
|
||||||
|
|
||||||
impl StageStats {
|
impl StageStats {
|
||||||
/// (user + sys) / wall — effective thread count utilisation.
|
/// (user + sys) / wall — effective thread count utilisation.
|
||||||
pub fn parallelism(&self) -> f64 {
|
pub fn parallelism(&self) -> f64 {
|
||||||
if self.wall_secs > 1e-9 { (self.user_secs + self.sys_secs) / self.wall_secs }
|
if self.wall_secs > 1e-9 {
|
||||||
else { 0.0 }
|
(self.user_secs + self.sys_secs) / self.wall_secs
|
||||||
|
} else {
|
||||||
|
0.0
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
/// parallelism / n_cores — fraction of available CPU power used (0..1+).
|
/// parallelism / n_cores — fraction of available CPU power used (0..1+).
|
||||||
@@ -335,25 +388,33 @@ pub struct Reporter {
|
|||||||
}
|
}
|
||||||
|
|
||||||
impl Reporter {
|
impl Reporter {
|
||||||
pub fn new() -> Self { Self::default() }
|
pub fn new() -> Self {
|
||||||
pub fn push(&mut self, stats: StageStats) { self.stages.push(stats); }
|
Self::default()
|
||||||
pub fn stages(&self) -> &[StageStats] { &self.stages }
|
}
|
||||||
|
pub fn push(&mut self, stats: StageStats) {
|
||||||
|
self.stages.push(stats);
|
||||||
|
}
|
||||||
|
pub fn stages(&self) -> &[StageStats] {
|
||||||
|
&self.stages
|
||||||
|
}
|
||||||
/// Print the summary to stderr.
|
/// Print the summary to stderr.
|
||||||
pub fn print(&self) { eprint!("{self}"); }
|
pub fn print(&self) {
|
||||||
|
eprint!("{self}");
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
// ── diagnosis ─────────────────────────────────────────────────────────────────
|
// ── diagnosis ─────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
struct Diagnosis {
|
struct Diagnosis {
|
||||||
tag: &'static str,
|
tag: &'static str,
|
||||||
detail: Option<String>,
|
detail: Option<String>,
|
||||||
}
|
}
|
||||||
|
|
||||||
// Thresholds are intentionally conservative to avoid false positives.
|
// Thresholds are intentionally conservative to avoid false positives.
|
||||||
fn diagnose(s: &StageStats, n_cores: usize) -> Diagnosis {
|
fn diagnose(s: &StageStats, n_cores: usize) -> Diagnosis {
|
||||||
let eff = s.efficiency(n_cores);
|
let eff = s.efficiency(n_cores);
|
||||||
let cpu_pct = eff * 100.0;
|
let cpu_pct = eff * 100.0;
|
||||||
let io_ops = s.in_blocks + s.out_blocks;
|
let io_ops = s.in_blocks + s.out_blocks;
|
||||||
|
|
||||||
// swaps > 0 is the only reliable cross-platform indicator of true RAM exhaustion.
|
// swaps > 0 is the only reliable cross-platform indicator of true RAM exhaustion.
|
||||||
// ru_majflt is intentionally excluded: on macOS it counts all file-backed mmap
|
// ru_majflt is intentionally excluded: on macOS it counts all file-backed mmap
|
||||||
@@ -387,26 +448,43 @@ fn diagnose(s: &StageStats, n_cores: usize) -> Diagnosis {
|
|||||||
)),
|
)),
|
||||||
};
|
};
|
||||||
}
|
}
|
||||||
Diagnosis { tag: "—", detail: None }
|
Diagnosis {
|
||||||
|
tag: "—",
|
||||||
|
detail: None,
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
// ── display helpers ───────────────────────────────────────────────────────────
|
// ── display helpers ───────────────────────────────────────────────────────────
|
||||||
|
|
||||||
fn fmt_secs(s: f64) -> String {
|
fn fmt_secs(s: f64) -> String {
|
||||||
if s >= 100.0 { format!("{:.0}s", s) }
|
if s >= 100.0 {
|
||||||
else if s >= 10.0 { format!("{:.1}s", s) }
|
format!("{:.0}s", s)
|
||||||
else if s >= 1.0 { format!("{:.2}s", s) }
|
} else if s >= 10.0 {
|
||||||
else { format!("{:.0}ms", s * 1000.0) }
|
format!("{:.1}s", s)
|
||||||
|
} else if s >= 1.0 {
|
||||||
|
format!("{:.2}s", s)
|
||||||
|
} else {
|
||||||
|
format!("{:.0}ms", s * 1000.0)
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
fn fmt_bytes(b: u64) -> String {
|
fn fmt_bytes(b: u64) -> String {
|
||||||
if b >= 1 << 30 { format!("{:.1} GB", b as f64 / (1u64 << 30) as f64) }
|
if b >= 1 << 30 {
|
||||||
else if b >= 1 << 20 { format!("{:.0} MB", b as f64 / (1u64 << 20) as f64) }
|
format!("{:.1} GB", b as f64 / (1u64 << 30) as f64)
|
||||||
else { format!("{:.0} KB", b as f64 / 1024.0) }
|
} else if b >= 1 << 20 {
|
||||||
|
format!("{:.0} MB", b as f64 / (1u64 << 20) as f64)
|
||||||
|
} else {
|
||||||
|
format!("{:.0} KB", b as f64 / 1024.0)
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
fn fmt_efficiency(par: f64, n_cores: usize) -> String {
|
fn fmt_efficiency(par: f64, n_cores: usize) -> String {
|
||||||
format!("{:.1}×/{} ({:.0}%)", par, n_cores, par / n_cores as f64 * 100.0)
|
format!(
|
||||||
|
"{:.1}×/{} ({:.0}%)",
|
||||||
|
par,
|
||||||
|
n_cores,
|
||||||
|
par / n_cores as f64 * 100.0
|
||||||
|
)
|
||||||
}
|
}
|
||||||
|
|
||||||
// ── Display ───────────────────────────────────────────────────────────────────
|
// ── Display ───────────────────────────────────────────────────────────────────
|
||||||
@@ -414,8 +492,8 @@ fn fmt_efficiency(par: f64, n_cores: usize) -> String {
|
|||||||
// ── MemoryBudget ──────────────────────────────────────────────────────────────
|
// ── MemoryBudget ──────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
struct BudgetInner {
|
struct BudgetInner {
|
||||||
remaining: u64,
|
remaining: u64,
|
||||||
active: usize,
|
active: usize,
|
||||||
peak_active: usize,
|
peak_active: usize,
|
||||||
}
|
}
|
||||||
|
|
||||||
@@ -425,8 +503,8 @@ struct BudgetInner {
|
|||||||
/// completion. Non-deadlock guarantee: when no worker is active the next
|
/// completion. Non-deadlock guarantee: when no worker is active the next
|
||||||
/// acquire always succeeds regardless of cost vs. remaining budget.
|
/// acquire always succeeds regardless of cost vs. remaining budget.
|
||||||
pub struct MemoryBudget {
|
pub struct MemoryBudget {
|
||||||
total: u64,
|
total: u64,
|
||||||
inner: Mutex<BudgetInner>,
|
inner: Mutex<BudgetInner>,
|
||||||
condvar: Condvar,
|
condvar: Condvar,
|
||||||
}
|
}
|
||||||
|
|
||||||
@@ -434,7 +512,11 @@ impl MemoryBudget {
|
|||||||
pub fn new(total: u64) -> Self {
|
pub fn new(total: u64) -> Self {
|
||||||
Self {
|
Self {
|
||||||
total,
|
total,
|
||||||
inner: Mutex::new(BudgetInner { remaining: total, active: 0, peak_active: 0 }),
|
inner: Mutex::new(BudgetInner {
|
||||||
|
remaining: total,
|
||||||
|
active: 0,
|
||||||
|
peak_active: 0,
|
||||||
|
}),
|
||||||
condvar: Condvar::new(),
|
condvar: Condvar::new(),
|
||||||
}
|
}
|
||||||
}
|
}
|
||||||
@@ -443,9 +525,9 @@ impl MemoryBudget {
|
|||||||
let mut g = self.inner.lock().unwrap();
|
let mut g = self.inner.lock().unwrap();
|
||||||
loop {
|
loop {
|
||||||
if g.active == 0 || g.remaining >= cost {
|
if g.active == 0 || g.remaining >= cost {
|
||||||
g.remaining = g.remaining.saturating_sub(cost);
|
g.remaining = g.remaining.saturating_sub(cost);
|
||||||
g.active += 1;
|
g.active += 1;
|
||||||
g.peak_active = g.peak_active.max(g.active);
|
g.peak_active = g.peak_active.max(g.active);
|
||||||
return;
|
return;
|
||||||
}
|
}
|
||||||
g = self.condvar.wait(g).unwrap();
|
g = self.condvar.wait(g).unwrap();
|
||||||
@@ -455,47 +537,66 @@ impl MemoryBudget {
|
|||||||
pub fn release(&self, cost: u64) {
|
pub fn release(&self, cost: u64) {
|
||||||
let mut g = self.inner.lock().unwrap();
|
let mut g = self.inner.lock().unwrap();
|
||||||
g.remaining = (g.remaining + cost).min(self.total);
|
g.remaining = (g.remaining + cost).min(self.total);
|
||||||
g.active -= 1;
|
g.active -= 1;
|
||||||
self.condvar.notify_all();
|
self.condvar.notify_all();
|
||||||
}
|
}
|
||||||
|
|
||||||
pub fn total(&self) -> u64 { self.total }
|
pub fn total(&self) -> u64 {
|
||||||
pub fn active(&self) -> usize { self.inner.lock().unwrap().active }
|
self.total
|
||||||
pub fn remaining(&self) -> u64 { self.inner.lock().unwrap().remaining }
|
}
|
||||||
pub fn peak_active(&self) -> usize { self.inner.lock().unwrap().peak_active }
|
pub fn active(&self) -> usize {
|
||||||
|
self.inner.lock().unwrap().active
|
||||||
|
}
|
||||||
|
pub fn remaining(&self) -> u64 {
|
||||||
|
self.inner.lock().unwrap().remaining
|
||||||
|
}
|
||||||
|
pub fn peak_active(&self) -> usize {
|
||||||
|
self.inner.lock().unwrap().peak_active
|
||||||
|
}
|
||||||
}
|
}
|
||||||
|
|
||||||
// ── Display ───────────────────────────────────────────────────────────────────
|
// ── Display ───────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
impl fmt::Display for Reporter {
|
impl fmt::Display for Reporter {
|
||||||
fn fmt(&self, f: &mut fmt::Formatter<'_>) -> fmt::Result {
|
fn fmt(&self, f: &mut fmt::Formatter<'_>) -> fmt::Result {
|
||||||
if self.stages.is_empty() { return Ok(()); }
|
if self.stages.is_empty() {
|
||||||
|
return Ok(());
|
||||||
|
}
|
||||||
|
|
||||||
let n_cores = std::thread::available_parallelism()
|
let n_cores = std::thread::available_parallelism()
|
||||||
.map(|n| n.get())
|
.map(|n| n.get())
|
||||||
.unwrap_or(1);
|
.unwrap_or(1);
|
||||||
|
|
||||||
// column widths
|
// column widths
|
||||||
let nw = self.stages.iter().map(|s| s.label.len()).max().unwrap_or(5).max(5);
|
let nw = self
|
||||||
|
.stages
|
||||||
|
.iter()
|
||||||
|
.map(|s| s.label.len())
|
||||||
|
.max()
|
||||||
|
.unwrap_or(5)
|
||||||
|
.max(5);
|
||||||
// efficiency col: worst-case width for this run's n_cores value
|
// efficiency col: worst-case width for this run's n_cores value
|
||||||
let ew = format!("{:.1}×/{} (100%)", 99.9f64, n_cores).len();
|
let ew = format!("{:.1}×/{} (100%)", 99.9f64, n_cores).len();
|
||||||
|
|
||||||
let sep_w = nw + 2 + 7 + 2 + ew + 2 + 8 + 2 + 12;
|
let sep_w = nw + 2 + 7 + 2 + ew + 2 + 8 + 2 + 12;
|
||||||
let sep = "─".repeat(sep_w);
|
let sep = "─".repeat(sep_w);
|
||||||
|
|
||||||
// header
|
// header
|
||||||
writeln!(f, "{:<nw$} {:>7} {:>ew$} {:>8} status",
|
writeln!(
|
||||||
"stage", "wall", "efficiency", "peak RSS")?;
|
f,
|
||||||
|
"{:<nw$} {:>7} {:>ew$} {:>8} status",
|
||||||
|
"stage", "wall", "efficiency", "peak RSS"
|
||||||
|
)?;
|
||||||
writeln!(f, "{sep}")?;
|
writeln!(f, "{sep}")?;
|
||||||
|
|
||||||
// compute all diagnoses up front (needed for both table and footnotes)
|
// compute all diagnoses up front (needed for both table and footnotes)
|
||||||
let diagnoses: Vec<Diagnosis> = self.stages.iter()
|
let diagnoses: Vec<Diagnosis> = self.stages.iter().map(|s| diagnose(s, n_cores)).collect();
|
||||||
.map(|s| diagnose(s, n_cores))
|
|
||||||
.collect();
|
|
||||||
|
|
||||||
// per-stage rows
|
// per-stage rows
|
||||||
for (s, d) in self.stages.iter().zip(diagnoses.iter()) {
|
for (s, d) in self.stages.iter().zip(diagnoses.iter()) {
|
||||||
writeln!(f, "{:<nw$} {:>7} {:>ew$} {:>8} {}",
|
writeln!(
|
||||||
|
f,
|
||||||
|
"{:<nw$} {:>7} {:>ew$} {:>8} {}",
|
||||||
s.label,
|
s.label,
|
||||||
fmt_secs(s.wall_secs),
|
fmt_secs(s.wall_secs),
|
||||||
fmt_efficiency(s.parallelism(), n_cores),
|
fmt_efficiency(s.parallelism(), n_cores),
|
||||||
@@ -505,14 +606,21 @@ impl fmt::Display for Reporter {
|
|||||||
}
|
}
|
||||||
|
|
||||||
// totals
|
// totals
|
||||||
let tw = self.stages.iter().map(|s| s.wall_secs).sum::<f64>();
|
let tw = self.stages.iter().map(|s| s.wall_secs).sum::<f64>();
|
||||||
let tu = self.stages.iter().map(|s| s.user_secs).sum::<f64>();
|
let tu = self.stages.iter().map(|s| s.user_secs).sum::<f64>();
|
||||||
let ts = self.stages.iter().map(|s| s.sys_secs).sum::<f64>();
|
let ts = self.stages.iter().map(|s| s.sys_secs).sum::<f64>();
|
||||||
let trss = self.stages.iter().map(|s| s.max_rss_bytes).max().unwrap_or(0);
|
let trss = self
|
||||||
|
.stages
|
||||||
|
.iter()
|
||||||
|
.map(|s| s.max_rss_bytes)
|
||||||
|
.max()
|
||||||
|
.unwrap_or(0);
|
||||||
let tpar = if tw > 1e-9 { (tu + ts) / tw } else { 0.0 };
|
let tpar = if tw > 1e-9 { (tu + ts) / tw } else { 0.0 };
|
||||||
|
|
||||||
writeln!(f, "{sep}")?;
|
writeln!(f, "{sep}")?;
|
||||||
writeln!(f, "{:<nw$} {:>7} {:>ew$} {:>8}",
|
writeln!(
|
||||||
|
f,
|
||||||
|
"{:<nw$} {:>7} {:>ew$} {:>8}",
|
||||||
"TOTAL",
|
"TOTAL",
|
||||||
fmt_secs(tw),
|
fmt_secs(tw),
|
||||||
fmt_efficiency(tpar, n_cores),
|
fmt_efficiency(tpar, n_cores),
|
||||||
@@ -520,7 +628,9 @@ impl fmt::Display for Reporter {
|
|||||||
)?;
|
)?;
|
||||||
|
|
||||||
// bottleneck footnotes (only if at least one anomaly detected)
|
// bottleneck footnotes (only if at least one anomaly detected)
|
||||||
let bottlenecks: Vec<(&str, &str)> = self.stages.iter()
|
let bottlenecks: Vec<(&str, &str)> = self
|
||||||
|
.stages
|
||||||
|
.iter()
|
||||||
.zip(diagnoses.iter())
|
.zip(diagnoses.iter())
|
||||||
.filter_map(|(s, d)| d.detail.as_deref().map(|det| (s.label.as_str(), det)))
|
.filter_map(|(s, d)| d.detail.as_deref().map(|det| (s.label.as_str(), det)))
|
||||||
.collect();
|
.collect();
|
||||||
|
|||||||
Reference in New Issue
Block a user