Skip to content

Update user example model files for new ss3 release #60

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
e-perl-NOAA merged 1 commit into from
Jul 30, 2026
Merged

Update user example model files for new ss3 release #60

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
22 changes: 11 additions & 11 deletions model_files/empirical_wtatage_and_age_selex/control.ss
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
#V3.30.25.00;_safe;_compile_date:_Jun 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#V3.30.25.1;_safe;_compile_date:_Jul 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#_Stock_Synthesis_is_a_work_of_the_U.S._Government_and_is_not_subject_to_copyright_protection_in_the_United_States.
#_Foreign_copyrights_may_apply._See_copyright.txt_for_more_information.
#_User_support_available_at:_https://groups.google.com/g/ss3-forum_and_NMFS.Stock.Synthesis@noaa.gov
Expand Down Expand Up @@ -157,7 +157,7 @@
#
# all recruitment deviations
# 1971R 1972R 1973R 1974R 1975R 1976R 1977R 1978R 1979R 1980R 1981R 1982R 1983R 1984R 1985R 1986R 1987R 1988R 1989R 1990R 1991R 1992R 1993R 1994R 1995R 1996R 1997R 1998R 1999R 2000R 2001R 2002F 2003F 2004F 2005F 2006F 2007F 2008F 2009F 2010F 2011F
# 0.176698 -0.0973696 0.0412267 -0.306445 0.323773 0.166354 0.520409 -0.518174 0.589927 -0.218281 0.1607 -0.225269 -0.425356 -0.613601 0.581517 0.401875 0.0801096 0.184685 -0.355315 0.590307 -0.608506 -0.111496 -0.752271 0.371696 -0.641909 0.873917 0.894654 -0.414999 -0.679658 0.251122 -0.240317 0 0 0 0 0 0 0 0 0 0
# 0.176698 -0.0973694 0.0412267 -0.306445 0.323773 0.166354 0.520409 -0.518173 0.589927 -0.218281 0.160699 -0.225269 -0.425356 -0.613603 0.581518 0.401875 0.0801095 0.184685 -0.355315 0.590307 -0.608506 -0.111497 -0.752271 0.371696 -0.641909 0.873917 0.894654 -0.414999 -0.679658 0.251121 -0.240317 0 0 0 0 0 0 0 0 0 0
#
#Fishing Mortality info
0.3 # F ballpark value in units of annual_F
Expand All @@ -173,7 +173,7 @@
# F rates by fleet x season
#_year: 1971 1972 1973 1974 1975 1976 1977 1978 1979 1980 1981 1982 1983 1984 1985 1986 1987 1988 1989 1990 1991 1992 1993 1994 1995 1996 1997 1998 1999 2000 2001 2002 2003 2004 2005 2006 2007 2008 2009 2010 2011
# seas: 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1 1
# FISHERY1 0 0.00180743 0.00908379 0.00916525 0.0185756 0.0285502 0.0393459 0.051413 0.064905 0.0923268 0.126049 0.140174 0.15739 0.175532 0.200239 0.227826 0.275742 0.292529 0.310526 0.309006 0.300748 0.216125 0.231959 0.232711 0.243185 0.265999 0.215258 0.228959 0.230706 0.241815 0.238986 6.9302e-06 0.0130126 0.0236767 0.0307297 0.0355005 0.0389046 0.041662 0.0441234 0.046385 0.0485331
# FISHERY1 0 0.00180743 0.00908379 0.00916525 0.0185756 0.0285502 0.0393459 0.051413 0.064905 0.0923267 0.126049 0.140174 0.15739 0.175532 0.200239 0.227826 0.275742 0.292529 0.310526 0.309006 0.300748 0.216125 0.231959 0.232711 0.243185 0.265999 0.215258 0.228959 0.230706 0.241815 0.238986 6.9302e-06 0.0130126 0.0236767 0.0307297 0.0355005 0.0389046 0.0416619 0.0441234 0.046385 0.048533
#
#_Q_setup for fleets with cpue or survey or deviation data
#_1: fleet number
Expand All @@ -191,7 +191,7 @@
#
#_Q_parameters
#_ LO HI INIT PRIOR PR_SD PR_type PHASE env-var use_dev dev_mnyr dev_mxyr dev_PH Block Blk_Fxn # parm_name
-7 5 0.971014 0 1 0 1 0 0 0 0 0 0 0 # LnQ_base_SURVEY1(2)
-7 5 0.971015 0 1 0 1 0 0 0 0 0 0 0 # LnQ_base_SURVEY1(2)
0 0.5 0 0.05 1 0 -4 0 0 0 0 0 0 0 # Q_extraSD_SURVEY1(2)
-7 5 -6.59077 0 1 0 1 0 0 0 0 0 0 0 # LnQ_base_SURVEY2(3)
#_no timevary Q parameters
Expand Down Expand Up @@ -249,9 +249,9 @@
# 3 SURVEY2 LenSelex
# 1 FISHERY1 AgeSelex
-1000 10 0 -1000 3 0 -2 0 0 0 0 0 0 0 # AgeSel_P1_FISHERY1(1)
-10 10 8.12622 3 3 0 2 0 0 1948 2011 4 0 0 # AgeSel_P2_FISHERY1(1)
-10 10 8.12578 3 3 0 2 0 0 1948 2011 4 0 0 # AgeSel_P2_FISHERY1(1)
-10 10 1.03306 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P3_FISHERY1(1)
-10 10 0.0878898 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P4_FISHERY1(1)
-10 10 0.0878897 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P4_FISHERY1(1)
-10 10 0.85457 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P5_FISHERY1(1)
-10 10 0.327464 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P6_FISHERY1(1)
-10 10 0.0965217 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P7_FISHERY1(1)
Expand All @@ -261,15 +261,15 @@
-10 10 0 0 3 0 -5 0 0 0 0 0.25 0 0 # AgeSel_P11_FISHERY1(1)
# 2 SURVEY1 AgeSelex
-1000 10 0 -1000 3 0 -2 0 0 0 0 0 0 0 # AgeSel_P1_SURVEY1(2)
-10 10 7.48983 3 3 0 2 0 0 1948 2011 4 0 0 # AgeSel_P2_SURVEY1(2)
-10 10 7.48899 3 3 0 2 0 0 1948 2011 4 0 0 # AgeSel_P2_SURVEY1(2)
-10 10 0.639428 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P3_SURVEY1(2)
-10 10 0.846605 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P4_SURVEY1(2)
-10 10 -0.418 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P5_SURVEY1(2)
-10 10 0.867063 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P6_SURVEY1(2)
-10 10 -0.418001 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P5_SURVEY1(2)
-10 10 0.867064 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P6_SURVEY1(2)
-10 10 -2.30094 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P7_SURVEY1(2)
-10 10 2.13313 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P8_SURVEY1(2)
-10 10 -0.124586 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P9_SURVEY1(2)
-10 10 -0.0880589 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P10_SURVEY1(2)
-10 10 -0.124585 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P9_SURVEY1(2)
-10 10 -0.0880592 0 3 6 2 0 0 1948 2011 4 0 0 # AgeSel_P10_SURVEY1(2)
-10 10 0 0 3 0 -5 0 0 0 0 0.25 0 0 # AgeSel_P11_SURVEY1(2)
# 3 SURVEY2 AgeSelex
0 40 0 5 99 0 -99 0 0 0 0 0 0 0 # minage@sel=1_SURVEY2(3)
Expand Down
6 changes: 3 additions & 3 deletions model_files/empirical_wtatage_and_age_selex/data.ss
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,14 +1,14 @@
#V3.30.25.00;_safe;_compile_date:_Jun 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#V3.30.25.1;_safe;_compile_date:_Jul 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#_Stock_Synthesis_is_a_work_of_the_U.S._Government_and_is_not_subject_to_copyright_protection_in_the_United_States.
#_Foreign_copyrights_may_apply._See_copyright.txt_for_more_information.
#_User_support_available_at:_https://groups.google.com/g/ss3-forum_and_NMFS.Stock.Synthesis@noaa.gov
#_User_info_available_at:_https://nmfs-ost.github.io/ss3-website/
#_Source_code_at:_https://github.com/nmfs-ost/ss3-source-code

#_Start_time: Tue Jun 30 17:01:29 2026
#_Start_time: Thu Jul 30 17:59:38 2026
#_echo_input_data
#C data file for simple example
#V3.30.25.00;_safe;_compile_date:_Jun 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#V3.30.25.1;_safe;_compile_date:_Jul 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
1971 #_StartYr
2001 #_EndYr
1 #_Nseas
Expand Down
2 changes: 1 addition & 1 deletion model_files/empirical_wtatage_and_age_selex/forecast.ss
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
#V3.30.25.00;_safe;_compile_date:_Jun 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#V3.30.25.1;_safe;_compile_date:_Jul 30 2026;_Stock_Synthesis_by_Richard_Methot_(NOAA)_using_ADMB_13.2
#C generic forecast file
# for all year entries except rebuilder; enter either: actual year, -999 for styr, 0 for endyr, neg number for rel. endyr
1 # Benchmarks: 0=skip; 1=calc F_spr,F_Btgt,F_msy; 2=calc F_spr,F0.1,F_msy; 3=add F_Blimit;
Expand Down
Loading
Loading