revise growth code wrt season duration & implement growth code review changes#747

Merged

e-perl-NOAA merged 28 commits into

mainfrom

#735-fix-gompertz-growth

Jun 16, 2026

Commits on Jun 16, 2026

revise code and change VBK_seas usage

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
Update SS_biofxn.tpl spelling

Elizabeth Perl
and
Copilot
committed
Update SS_biofxn.tpl

authored and
e-perl-NOAA
committed
revisions to fix big skate

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
fix for growth_timevary

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
add new warning regarding growth in plusgroup

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
WIP stashing now

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
improve description of Linf_decay and add option -997

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
add table mean size by cohort; achieve oneseas-twoseas match

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
revise header format for new table

iantaylor-NOAA
authored and
e-perl-NOAA
committed
review and update seasdur usage

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
more clean-up of the growth code

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
add FATAL warning for AFIX2 > nages

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
fix problem with growth after lin_grow transition

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
more adjustments to season duration usage

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
update parameter names for Cessation

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
prevent mean length shrinkage in Richards, gompertz, and cessation

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
add shrinkage trap and cohort devs to all gorwth types

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
install libuv1-dev for {kableExtra} (which uses {fs})
e-perl-NOAA
committed
Update SS_prelim.tpl

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
add cohort devs and prevent shrink to Cessation

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
adjust plus group updating to use numbers from previous year

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
adjust plusgroup calc

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
refactor grtowth such that VBK value is positive and negative is explicit

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
tweak settings.json

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
all tests looking good; still need cleanup of extra echoes

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
change sign on VBK in Lorenzen M to match growth change

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed
remove extra echoinputs

Rick-Methot-NOAA
authored and
e-perl-NOAA
committed

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revise growth code wrt season duration & implement growth code review changes#747

revise growth code wrt season duration & implement growth code review changes#747
e-perl-NOAA merged 28 commits into
mainfrom
#735-fix-gompertz-growth

Commits on Jun 16, 2026

revise code and change VBK_seas usage

Update SS_biofxn.tpl spelling

Update SS_biofxn.tpl

revisions to fix big skate

fix for growth_timevary

add new warning regarding growth in plusgroup

WIP stashing now

improve description of Linf_decay and add option -997

add table mean size by cohort; achieve oneseas-twoseas match

revise header format for new table

review and update seasdur usage

more clean-up of the growth code

add FATAL warning for AFIX2 > nages

fix problem with growth after lin_grow transition

more adjustments to season duration usage

update parameter names for Cessation

prevent mean length shrinkage in Richards, gompertz, and cessation

add shrinkage trap and cohort devs to all gorwth types

install libuv1-dev for {kableExtra} (which uses {fs})

Update SS_prelim.tpl

add cohort devs and prevent shrink to Cessation

adjust plus group updating to use numbers from previous year

adjust plusgroup calc

refactor grtowth such that VBK value is positive and negative is explicit

tweak settings.json

all tests looking good; still need cleanup of extra echoes

change sign on VBK in Lorenzen M to match growth change

remove extra echoinputs