SacPAS: Central Valley Prediction & Assessment of Salmon

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SacPAS Fish Model Versions Release Notes

Version 2.8 (Dec 15, 2023)

Bug in dewater computations is corrected. (Several types of scenarios were over-stating the dewatering.)

Version 2.7.9a (Nov 28, 2023)

Changes to timeseries plot appearance.
Redds of different populations are identified with unique symbols (when necessary) in the heatmap plot.

Version 2.7.9 (Sep 27, 2023)

Temperature profile metrics for: 1) day of gradient flip and 2) day of drop below T-crit threshold.
Dewatering logic is improved.
Warnings to user are refined.

Version 2.7.8 (Sep 20, 2023)

Spring Run included. Order of aerial surveys is quasi-chronological.
ALL of a calendar year can be run. This includes: winter, spring, fall and late-fall aerial surveys combined.
Flows added to every graph if dewatering is on.

Version 2.7.7 (Sep 15, 2023)

Multi-year combinations of redds updated with California Water Board Flow-year designations.
These include all redds (within run type) for the following types of years: Critical, Dry, Below Normal, Above Normal, Wet, [various combinations of these], 10year 2013-2022, 10year 2003-2012, 5year 2018-2022
Individual redd year selection truncated at 2001.

Version 2.7.6 (Aug 30, 2023)

Improvements to server and display. Browser/OS-introduced problems (due to various methods of caching) are reduced.
Arbitrary multi-year selection is not available.
Multi-year combinations of redds now include all redds (within run type) for one of the following: Dry years / Wet years / Average years / 10year (2011-2020) / 5year (2016-2020)

Version 2.7.5 (July 30, 2023)

Option to model Fall and Late-Fall Chinook runs

Version 2.7.4.1 (Mar 25, 2023)

All Shiny Apps now at CBR. e.g. https://cbr.washington.edu/shiny/SURVDEMO/

Version 2.7.4 (Jan 07, 2022)

Bug repairs for 0 critical days
Higher precision on calculations to reduce rounding errors
If critical window is greater than the days-to-hatching, it is adjusted automatically and a warning is shown in the UI. Batch runs are silently corrected.

Version 2.7.3 (Nov 30, 2021)

Redd distributions can be generated from Aerial surveys (since 1990) or Carcass surveys (since 2000). Aerial Survey results were the previous default.

Version 2.7.2 (Oct 12, 2021)

Added server support and checkbox on GUI to generate query strings

Version 2.7.1 (Sep 13, 2021)

Enhanced control over dewatering mortality
PDF Documentation for dewatering mortality available from link
PDF Documentation for redd forecasting available from link

Version 2.7 (Aug 31, 2021)

A spawning model for forecasting redd distributions is now an option. Based on temperatures in April and May (historic, forecast, or user-provided) the FishModel will distribute redds according to methods of Dusek-Jennings and Hendrix (2020).
Small changes to layout of the FishModel page.
Small changes to the 'heatmap' graphics.

Version 2.6.1 (Aug 9, 2021)

Latest parameters from the calibration of Stage-Independent TDM model

Version 2.6 (Mar 1, 2021)

Increased flexibility of input formats for temperature and redd data
Padding of temperature values before and after data is done automatically
Option of providing dates instead of day-of-year. Assumes non-leap year without a provided value for year.
Accepted formats in month/day/(year) order. Examples: M/D MM/DD MM/DD/YY MM/DD/YYYY
Enhanced bulk processing-with and access-to cached files. Contact developers at web@cbr.washington.edu for more information.

Version 2.5 (Feb 17, 2021)

Minor rearrangement of user controls and wording
Survivals (mortality) outputs partioned to TDM, density/background, and dewatering
Capability of bulk temperature uploads. Contact developers at web@cbr.washington.edu for more information.
Enhanced bulk processing methods. Contact developers at web@cbr.washington.edu for more information.

Version 2.4 (Jan 11, 2021)

Capability of bulk processing for flow scenarios. Contact developers at web@cbr.washington.edu for more information.
Migration modeling pages changed
Detailed instructions for generating and using flow inputs available (PDF document).
Expanded variety of formats acceptable for flow inputs.
Use of day-of-year or dates (or mixed) allowed
Complete time-series NOT required. The model will attempt to fill in missing values.
Minor rearranging of user controls.
Changes to default pulse-migration equations.

Version 2.3.1 (Dec 8, 2020)

Hatching ATUs re-described better as 'end of critical window'
Moved SHINY apps home directory to cbr-cvpas.shinyapps.io

Version 2.3 (July 16 2020)

Adds option for selecting multiple years to create a redd distribution.
Critical: Carrying cap methods for stage-independent density method modified to correct an upward survival bias in multi-reach density-effects calculations using total redds.
Default RKM range widened to show all of the top 4 reaches by default. Still can be controlled by user.
Reach 4 (Below Airport road to Jellys ferry) database redds location moved 5 km upstream to RKM450.
Minor interface changes.
Input report includes other details: date, version, and the multiple years of redd combinations if chosen.

Version 2.2 (May 5 2020)

Input areas are grey to distinguish from outputs.
Temp and non-temp mortality are better paired.
Stage-dependent temp mortality can only use density-by-kilometer mortality.
Default parameters adjusted to new calibrations.
Result links are generated only after a model run.
Single-point temperature profile choice is removed.
An Input Report is generated for each run with user's parameter settings.
A brief introduction is presented on page opening.
SHINY temp profile builder (linked) is improved with choice of gradient or independent upstream/downstream profile generation.
Both show-max and show-mean temperature exposure reports are generated (instead of a choice).
Options for bulk processing exist. Contact developers for methods.

Version 2.1

Options for redd dewatering.
Options for NOAA temperature forecasts.

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POC: web@cbr.washington.edu

SacPAS: Central Valley Prediction & Assessment of Salmon, University of Washington, Columbia Basin Research, www.cbr.washington.edu/sacramento/

Wednesday, 20-Mar-2024 16:27:28 PDT