From badf9f8ee9012c6213f3824ec6f9ae3b750a169e Mon Sep 17 00:00:00 2001 From: Elizabeth Gugliotti Date: Wed, 14 Dec 2022 11:55:16 -0500 Subject: [PATCH 1/3] Update broken links in README.md Updated broken links - these links look like they used to be in a repository called "ss-documentation" which is now called "doc" --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index 4e04c8bb..3a16becf 100644 --- a/README.md +++ b/README.md @@ -28,9 +28,9 @@ Download the latest compiled versions from [Github Releases](https://github.com/ ## How can I learn how to use Stock Synthesis? -To learn more about how to use Stock Synthesis, see the [getting started guide with Stock Synthesis guide](https://nmfs-stock-synthesis.github.io/ss-documentation/Getting_Started_SS.html). To learn how to build your own models in Stock Synthesis, see the [Develop an Stock Synthesis model guide](https://nmfs-stock-synthesis.github.io/ss-documentation/ss_model_tips.html). +To learn more about how to use Stock Synthesis, see the [getting started guide with Stock Synthesis guide](https://nmfs-stock-synthesis.github.io/doc/Getting_Started_SS.html). To learn how to build your own models in Stock Synthesis, see the [Develop an Stock Synthesis model guide](https://nmfs-stock-synthesis.github.io/doc/ss_model_tips.html). -The [Stock Synthesis user manual](https://github.com/nmfs-stock-synthesis/ss-documentation/releases) provides the complete documentation of Stock Synthesis, while the [helper spreadsheets](https://github.com/nmfs-stock-synthesis/ss-documentation/tree/main/Helper_Spreadsheets) are useful cheatsheets that outline inputs necessary for options that are widely used within Stock Synthesis. +The [Stock Synthesis user manual](https://github.com/nmfs-stock-synthesis/doc/releases) provides the complete documentation of Stock Synthesis, while the [helper spreadsheets](https://github.com/nmfs-stock-synthesis/doc/tree/main/excel_output_viewer) are useful cheatsheets that outline inputs necessary for options that are widely used within Stock Synthesis. ## How do I ask questions about Stock Synthesis? From 17680a8b94bff2ecd408061d53900ac281ab8532 Mon Sep 17 00:00:00 2001 From: Elizabeth Gugliotti Date: Wed, 14 Dec 2022 13:54:50 -0500 Subject: [PATCH 2/3] Update README.md Changed the link to the helper spreadsheets so that it goes to the shiny app as the helper spreadsheets are deprecated (see issue 83 in the doc repository) and rephrased line 33 accordingly. --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 3a16becf..66b64693 100644 --- a/README.md +++ b/README.md @@ -30,7 +30,7 @@ Download the latest compiled versions from [Github Releases](https://github.com/ To learn more about how to use Stock Synthesis, see the [getting started guide with Stock Synthesis guide](https://nmfs-stock-synthesis.github.io/doc/Getting_Started_SS.html). To learn how to build your own models in Stock Synthesis, see the [Develop an Stock Synthesis model guide](https://nmfs-stock-synthesis.github.io/doc/ss_model_tips.html). -The [Stock Synthesis user manual](https://github.com/nmfs-stock-synthesis/doc/releases) provides the complete documentation of Stock Synthesis, while the [helper spreadsheets](https://github.com/nmfs-stock-synthesis/doc/tree/main/excel_output_viewer) are useful cheatsheets that outline inputs necessary for options that are widely used within Stock Synthesis. +The [Stock Synthesis user manual](https://github.com/nmfs-stock-synthesis/doc/releases) provides the complete documentation of Stock Synthesis, while the [SS3 Shiny helper app](https://connect.fisheries.noaa.gov/ss3-helper/) can help users visualize common selectivity pattern options available within Stock Synthesis. ## How do I ask questions about Stock Synthesis? From 090abf7beaf50305dad8e7350fdd586cca0fb782 Mon Sep 17 00:00:00 2001 From: Elizabeth Gugliotti Date: Wed, 14 Dec 2022 15:15:45 -0500 Subject: [PATCH 3/3] user manual and shiny app update to README.md --- README.md | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index 66b64693..f17a5e2b 100644 --- a/README.md +++ b/README.md @@ -30,7 +30,7 @@ Download the latest compiled versions from [Github Releases](https://github.com/ To learn more about how to use Stock Synthesis, see the [getting started guide with Stock Synthesis guide](https://nmfs-stock-synthesis.github.io/doc/Getting_Started_SS.html). To learn how to build your own models in Stock Synthesis, see the [Develop an Stock Synthesis model guide](https://nmfs-stock-synthesis.github.io/doc/ss_model_tips.html). -The [Stock Synthesis user manual](https://github.com/nmfs-stock-synthesis/doc/releases) provides the complete documentation of Stock Synthesis, while the [SS3 Shiny helper app](https://connect.fisheries.noaa.gov/ss3-helper/) can help users visualize common selectivity pattern options available within Stock Synthesis. +The [Stock Synthesis user manual](https://nmfs-stock-synthesis.github.io/doc/SS330_User_Manual.html) provides the complete documentation of Stock Synthesis. ## How do I ask questions about Stock Synthesis? @@ -50,6 +50,7 @@ As Stock Synthesis usage has grown, so has the number of tools to work with it. - [ss3diags](https://github.com/PIFSCstockassessments/ss3diags): Run advanced diagnostics for Stock Synthesis models. - [ss3sim](https://github.com/ss3sim/ss3sim): Conduct simulation studies using Stock Synthesis. - [SSI](https://vlab.noaa.gov/web/stock-synthesis/document-library/-/document_library/0LmuycloZeIt/view/5042951): Stock Synthesis Interface, a GUI for developing models and running Stock Synthesis. Links to r4ss. +- [SS3 Shiny helper app](https://connect.fisheries.noaa.gov/ss3-helper/): Visualize common selectivity pattern options available within Stock Synthesis. - [SSMSE](https://github.com/nmfs-fish-tools/SSMSE): Use Stock Synthesis operating models in Management Strategy Evaluation. - [sa4ss](https://github.com/nwfsc-assess/sa4ss): Create accessible R markdown stock assessment documents with results from Stock Synthesis models. Note this tool is intended for use by analysts within the Northwest and Southwest Fisheries Science Centers currently. - Data limited tools - Options included Simple Stock Synthesis ([SSS](https://github.com/shcaba/SSS)) and Extended Simple Stock Synthesis ([XSSS](https://github.com/chantelwetzel-noaa/XSSS)), as well as [SS-DL-tool](https://github.com/shcaba/SS-DL-tool), a shiny app that includes XSSS and SSS in its functionality.