BayesEoR reporting workflows (ValSKA)

This page documents the valska-bayeseor-report post-processing workflow for completed (or partially completed) sweep directories.

It is designed to work retroactively on older sweeps, so you do not need to rerun BayesEoR to generate report artefacts.

Naming conventions used in this page:

  • run_id: identifier for a sweep campaign

  • sweep_dir: _sweeps/<run_id> directory containing sweep_manifest.json

  • run_dir: one per-point directory listed in the sweep manifest

What this command does

Given a sweep directory containing sweep_manifest.json, it can generate:

  • sweep summary tables:

    • sweep_report_summary.csv

    • sweep_report_summary.json

  • evidence comparison plots:

    • delta_log_evidence_vs_perturb_frac.png

    • log_evidence_by_model_vs_perturb_frac.png

  • optional extended outputs:

    • plot_analysis_results_signal_fit.png (from BeamAnalysisPlotter.plot_analysis_results)

    • complete_analysis_results.json and complete_analysis_successful.csv (from run_complete_bayeseor_analysis)

By default, output files are written under:

<sweep_dir>/report/

Plot styling conventions (for publication-quality readability):

  • math variables are rendered with LaTeX-style mathtext (for example $\ln Z$)

  • hypothesis labels use spaced names (signal fit, no signal) in legends

  • in delta_log_evidence_vs_perturb_frac.png, points with \Delta\ln Z > 0 are highlighted in red to indicate preference for a spurious detection

  • report plots are exported at 300 DPI by default

CLI usage

Basic run (tables + default evidence plots):

valska-bayeseor-report /path/to/_sweeps/<run_id>

Airy sweep helper can trigger this automatically after sweep preparation/submission:

bash_scripts/valska-bayeseor-sweep-airy_diam14m-GSM_plus_GLEAM.sh –submit all –report

Use --report-no-plots on the helper for table-only reporting.

JSON summary payload:

valska-bayeseor-report /path/to/_sweeps/<run_id> --json

Skip evidence plots (tables only):

valska-bayeseor-report /path/to/_sweeps/<run_id> --no-plots

Choose evidence estimator used for ΔlnZ/Bayes factor:

valska-bayeseor-report /path/to/_sweeps/<run_id> --evidence-source ns
valska-bayeseor-report /path/to/_sweeps/<run_id> --evidence-source ins

Enable extended outputs:

valska-bayeseor-report /path/to/_sweeps/<run_id> \
  --include-plot-analysis-results \
  --include-complete-analysis-table

Custom output directory:

valska-bayeseor-report /path/to/_sweeps/<run_id> \
  --out-dir /path/to/custom_report_dir

Wrapper script usage

ValSKA also provides a convenience wrapper:

bash_scripts/valska-bayeseor-report-sweep.sh --sweep-dir /path/to/_sweeps/<run_id>

To discover available sweep directories quickly, use:

valska-bayeseor-list-sweeps

JSON output mode (for scripting):

valska-bayeseor-list-sweeps –json

Filter examples:

valska-bayeseor-list-sweeps –beam airy –sky GSM_plus_GLEAM valska-bayeseor-list-sweeps –run-id sweep_airy_init –latest

Shell helper equivalent:

bash_scripts/valska-list-sweeps.sh

The shell helper is a thin wrapper around valska-bayeseor-list-sweeps.

JSON output mode (for scripting):

bash_scripts/valska-list-sweeps.sh –json

Sweep health helpers

For quick, command-local usage examples, run:

valska-bayeseor-list-sweeps –help valska-bayeseor-sweep-status –help valska-bayeseor-validate-sweep –help valska-bayeseor-sweep-audit –help

Check per-point output completeness for a sweep:

valska-bayeseor-sweep-status /path/to/_sweeps/<run_id>

Machine-readable status payload:

valska-bayeseor-sweep-status /path/to/_sweeps/<run_id> –json

Validate sweep integrity with exit-code semantics:

valska-bayeseor-validate-sweep /path/to/_sweeps/<run_id>

Allow partial sweeps (at least one complete point):

valska-bayeseor-validate-sweep /path/to/_sweeps/<run_id> –allow-partial

Require jobs.json for every point:

valska-bayeseor-validate-sweep /path/to/_sweeps/<run_id> –require-jobs-json

JSON validation payload (includes exit_code and failures):

valska-bayeseor-validate-sweep /path/to/_sweeps/<run_id> –json

Aggregate audit across discovered sweeps (list + status + validate):

valska-bayeseor-sweep-audit

Filter and machine-readable output:

valska-bayeseor-sweep-audit –beam airy –sky GSM_plus_GLEAM –json

Fail non-zero when any audited sweep is invalid:

valska-bayeseor-sweep-audit –fail-on-invalid

Wrapper defaults

The wrapper now enables by default:

  • standard evidence plots/tables

  • plot_analysis_results output

  • run_complete_bayeseor_analysis table/json output

Opt out of extended outputs if needed:

bash_scripts/valska-bayeseor-report-sweep.sh \
  --sweep-dir /path/to/_sweeps/<run_id> \
  --no-plot-analysis-results \
  --no-complete-analysis-table

Skip all plotting:

bash_scripts/valska-bayeseor-report-sweep.sh \
  --sweep-dir /path/to/_sweeps/<run_id> \
  --no-plots

Environment fallback behavior

The wrapper will:

  1. use valska-bayeseor-report directly if available on PATH, else

  2. fall back to conda run -n <env> valska-bayeseor-report ...

Set the conda env name with:

export VALSKA_CONDA_ENV=valska

Handling incomplete sweeps

Reporting is resilient to partial/incomplete points.

If required chain artefacts are missing (for example data-.txt), the command does not crash the full report. Instead, that point is marked:

  • status: "incomplete"

  • note: "...Missing chain file..."

Only complete points are used for computed evidence metrics and extended outputs.