Update docs

.github/workflows/docs-dry.yml

@@ -28,6 +28,7 @@ jobs:
         for FILE in ./doc/*.md; do sed -i 's%(/doc/%(doc/%g' $FILE; done
         for FILE in ./doc/*.md; do sed -i 's%(/README%(README%g' $FILE; done
         for FILE in ./doc/*.md; do sed -i 's%(/src/%(https://github.com/benroberts999/ampsci/tree/main/src/%g' $FILE; done
+        for FILE in ./doc/*.md; do sed -i 's%::::%\brief%g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/\$\$~/\\f\[/g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/~\$\$/\\f\]/g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/\$/\\f\$/g' $FILE; done

.github/workflows/docs.yml

@@ -32,7 +32,7 @@ jobs:
         for FILE in ./doc/*.md; do sed -i 's%(/doc/%(doc/%g' $FILE; done
         for FILE in ./doc/*.md; do sed -i 's%(/README%(README%g' $FILE; done
         for FILE in ./doc/*.md; do sed -i 's%(/src/%(https://github.com/benroberts999/ampsci/tree/main/src/%g' $FILE; done
-        for FILE in ./doc/*.md; do sed -i 's%::%\brief%g' $FILE; done
+        for FILE in ./doc/*.md; do sed -i 's%::::%\brief%g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/\$\$~/\\f\[/g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/~\$\$/\\f\]/g' $FILE; done
         for FILE in ./doc/tutorial*.md; do sed -i -e 's/\$/\\f\$/g' $FILE; done

README.md

@@ -73,7 +73,6 @@ Divided into sections:
 
  1. Usage intructions, input options
     * Compilation instructions (for linux/mac/windows): [doc/compilation.md](doc/compilation.md)
-    * Detailed info on all input options: [doc/ampsci_input.md](doc/ampsci_input.md)
 
  2. Physics documentation: [ampsci.dev/ampsci.pdf](https://ampsci.dev/ampsci.pdf)
     * Description of physics/methods used in the code