JJM Assessment Documents

SPRFMO

South Pacific Regional Fisheries Management Organisation

Jack Mackerel Working Group

JJM Assessment Documents

Draft Benchmark report (PDF, DOCX). Please add proposed report text and edits in the shared Google Drive folder for incorporation into the draft.

SCW16 benchmark assessment report from the SPRFMO/jjm repository shows the current benchmark model sequence and diagnostic results (source QMD).

Overview

This page is the working index for Jack Mackerel Working Group benchmark preparation and MSE planning materials. It links the current workshop notices, benchmark terms of reference, draft SCW16 working papers, preparatory meeting reports, model diagnostics, and supporting assessment resources needed to prepare for the 2026 benchmark and subsequent management-strategy-evaluation work.

The SCW prefix follows the SPRFMO Commission convention for sequentially numbered Scientific Committee Workshops; for example, SCW16 refers to the 16th Scientific Committee Workshop.

Notices

• Benchmark workshop information posted: Benchmark Workshop Information (QMD)
• Visitor Information posted: SPRFMO Jack Mackerel MSE Workshop Visitor Information (QMD)

SCW16 preparations

• JMWG 2026 Plan (DOCX, QMD)

• SCW16/ToR (PDF, DOCX)

• JM SAM Model runs

• SCW16 benchmark assessment report (source QMD)

Draft SCW16 papers

• SCW16-Doc00: Preliminary agenda (PDF, DOCX, QMD)

• SCW16-Doc01 (PDF, DOCX)

• SCW16-Doc02: CPUE coordination priorities and working-paper plan (PDF, DOCX, QMD)

• SCW16-Doc03: Meta-Analysis of CPUE Papers on Jack Mackerel (2022-2025) (QMD)

• SCW16-Doc04: Operating Models for Jack Mackerel MSE (PDF)

• SCW16-Doc05/JM_Biology (PDF, DOCX, QMD)

• SCW16-Doc06: Toward a standardised abundance index for Chilean jack mackerel: spatio-temporal modelling of acoustic survey data in northern Chile (PDF)

• SCW16-Doc07: Implementation of an informed creep correction into the Chile Jack Mackerel CPUE index (PDF)

• SCW16-Doc08: Interannual variability in distribution, size structure, and biomass of Chilean jack mackerel estimated from fishery-dependent acoustics (PDF)

• SCW16-Doc09: Jack mackerel acoustic density index in the central-north acoustic surveys, estimated using spatiotemporal models with sdmTMB (PDF)

• SCW16-Doc10: Update of Chilean jack mackerel CPUE abundance index estimated by spatiotemporal SPDE-based models using sdmTMB (PDF)

• SCW16-Doc11: Catch/Fishery Data Quality Checks

• SCW16-Doc12: Standardization of Chilean jack mackerel CPUE fishery in central-southern Chile using Hierarchical Bayesian Models (INLA) (PDF)

• SCW16-Doc13: Length-weight relationship of jack mackerel (Trachurus murphyi) in Peru and its implications for biomass estimation (PDF)

• SCW16-Doc14: Technical report on the updated length-frequency data for the Peruvian jack mackerel stock (far-north stock) in Peruvian jurisdictional waters (PDF)

• SCW16-Doc15: Standardization of catch-per-unit-effort (CPUE) for jack mackerel (2015-2025) in Peruvian national jurisdictional waters (PDF)

• SCW16-Doc16: Considerations on the use of the jack mackerel acoustic index in Peruvian national jurisdictional waters (PDF)

Prep meeting reports

• JMWG Meeting report 01-2026 (PDF, DOCX)
• JMWG Meeting report 02-2026 (PDF, DOCX)
• JMWG Meeting report 03-2026 (PDF, DOCX)
• Report collaboration workflow

Other background reports

• SC13 Assessment Update
• mod0.14, mod1.1, mod1.2, and mod2.1 Comparison
• Helper Scripts Guide
• User Guide
• Tutorial Guide
• Archive

Document Guide

SCW16/ToR

These are the benchmark workshop terms of reference, tracked as JMWG_Benchmark_ToR.qmd, with published HTML, PDF, and DOCX outputs.

SCW16-Doc01

This is the main benchmark working paper, tracked as SCW16-Doc01.qmd, with published HTML, PDF, and DOCX outputs.

SCW16 benchmark assessment report

This source document is maintained in SPRFMO/jjm as doc/SCW16.qmd. It tracks the SCW16 benchmark model sequence and the current diagnostic results.

SCW16-Doc00

This is the preliminary agenda note for the IMARPE-IFOP online acoustic session, tracked as SCW16-Doc00.qmd, with HTML, PDF, and DOCX outputs.

JMWG Meeting report 01-2026

These meeting notes are currently published from JMWG-Meeting report-01-2026.qmd as HTML, PDF, and DOCX outputs.

JMWG Meeting report 02-2026

These meeting notes are currently published from JMWG-Meeting report-02-2026.qmd as HTML, PDF, and DOCX outputs.

JMWG Meeting report 03-2026

These meeting notes are currently published from JMWG-Meeting report-03-2026.qmd as HTML, PDF, and DOCX outputs.

JMWG Benchmark meeting report 2026

This starter benchmark report is currently published from JMWG-Benchmark-Meeting-report-2026.qmd as HTML, PDF, and DOCX outputs. It includes standard opening sections, appendices for the shortened agenda and participant list, and a topic-organized appendix summarizing SCW16-Doc01 through SCW16-Doc16.

Report collaboration workflow

This note describes how to use Google Docs as a collaborative drafting layer while keeping the Quarto source in this repository as the report source of record.

SCW16-Doc03: Meta-Analysis of CPUE Papers on Jack Mackerel (2022-2025)

This document compiles CPUE-related SPRFMO meeting papers from SC10 through SC13 into a single review document.

SCW16-Doc04: Operating Models for Jack Mackerel MSE

This external PDF working paper describes operating models for the jack mackerel MSE.

SCW16-Doc05/JM_Biology

This external working paper evaluates biological data used in model 1.14, including natural mortality, maturity, weight-at-age, and spawning biomass calculations. The source is maintained in the SPRFMO/JM_biol repository.

SCW16-Docs-06 through 10: Benchmark abundance-index working papers

These external PDF working papers cover Chilean jack mackerel acoustic and CPUE abundance-index updates prepared for SCW16 benchmark discussions. They are published directly in the docs/ folder as PDFs.

SCW16-Doc13

This external PDF working paper describes the length-weight relationship of jack mackerel in Peru and its implications for biomass estimation.

SCW16-Doc14

This external PDF working paper provides updated length-frequency data for the Peruvian jack mackerel far-north stock in Peruvian jurisdictional waters.

SCW16-Doc15

This external PDF working paper standardizes Peruvian jack mackerel CPUE for 2015-2025 in Peruvian national jurisdictional waters.

SCW16-Doc16

This external PDF working paper evaluates considerations for using the jack mackerel acoustic index in Peruvian national jurisdictional waters.

SC13 Assessment Update

This is the converted Quarto version of the incremental SC13 assessment update document originally maintained as assessment/R/SC13.rmd.

mod0.14, mod1.1, mod1.2, and mod2.1 Comparison

This report compares the standalone stock-2 mod0.14 run against mod1.1, the 12-age mod1.2 variant, and mod2.1 using the current JJM output files.

Helper Scripts Guide

This guide documents the reusable helper scripts added for:

• creating the reduced 2.00 data file
• creating the matching h1_2.00 control file
• running standard JJM fits
• running short adnuts MCMC benchmarks

User Guide

This is the Quarto version of the JJM user guide converted from doc/userguide/main.tex.

Tutorial Guide

This is the workshop tutorial book published from doc/tutorial/.

Archive

This section collects the legacy annual and validation RMarkdown assessment reports moved from assessment/R/ and published under archive/.

Notes

The website is rendered from the doc/ directory into the repository docs/ folder so it can be served by GitHub Pages in the standard way. The underlying model code, inputs, and results remain in assessment/.