update ss3 repo names

README.Rmd

@@ -69,7 +69,7 @@ You can read the help files with
 ?SSMSE
 ```
 
-Note that when SSMSE is installed, [Stock Synthesis](https://github.com/nmfs-stock-synthesis/stock-synthesis) binaries are included in the `SSMSE/bin/` folder downloaded to the user's local R library. Currently, the Stock Synthesis 3.30.18 is included. Separate binaries are included for Windows, Mac and Linux. Users may swap out these binaries, but SSMSE is not tested with other versions of SS3.
+Note that when SSMSE is installed, [Stock Synthesis](https://github.com/nmfs-ost/ss3-source-code) binaries are included in the `SSMSE/bin/` folder downloaded to the user's local R library. Currently, the Stock Synthesis 3.30.18 is included. Separate binaries are included for Windows, Mac and Linux. Users may swap out these binaries, but SSMSE is not tested with other versions of SS3.
 
 # Troubleshooting Installation
 

tests/testthat/test-runSSMSE.R

@@ -248,7 +248,7 @@ test_that("cod works when treated as a custom model and run_EM_last_yr = TRUE wo
 test_that("run_SSMSE runs with mean size at age and mean body length", {
   skip_on_cran()
   # this test is skipped unless the model it needs to run is available.
-  # model from https://github.com/nmfs-stock-synthesis/ss-test-models/tree/main/models/Simple_with_Discard
+  # model from https://github.com/nmfs-ost/ss3-test-models/tree/main/models/Simple_with_Discard
   skip_if(!file.exists(file.path(extdat_path, "models", "Simple_with_Discard")))
   size_age_temp_path <- file.path(temp_path, "Simple_with_Discard")
   dir.create(size_age_temp_path)