Convert README files in docs/ and scripts/ to .md

docs/readme.txt → docs/README.md

+## Notes
+
 LineLabels.in produces a report of the species and lines predicted
 by the code.  The input file contains its own documentation.
 
@@ -22,16 +24,23 @@ The LaTeX source needed to build the documentation is included in folders
 below docs/latex.  The Perl script latex/CompileAll.pl will compile all
 four parts of the documentation, leaving PDF files in the appropriate
 folders.  To only compile one volume do 
+```
 CompileAll.pl hazy1
+```
 
 To check on compile-time errors do
+```
 grep underfined */*.log in the latex directory.
+```
 
 To erase all intermediate files produced by latex and bibtex
 (but not the PDFs), do
+```
 cleanAll.pl
+```
 in the latex directory.  This may be needed if major changes to the document
 structure are made so that pdflatex becomes confused.  To only clean one
 volume do
+```
 cleanAll.pl hazy1
-
+```

scripts/readme.txt → scripts/README.md

+## Notes
+
 This is a collection of scripts that are useful to the Cloudy project.
 The scripts themselves have documentation.
 
 adf042stout - convert an ADF04 file to Stout format
 
 --------------
+
 The following scripts derive a publication quality table from the information embedded
 in the Stout data files (first two) and a table describing individual species models: