Tricks for documenting software

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Transferring Matlab files, zipping toolboxes and dependencies

• To include a Matlab .m file with the usual Matlab format colours - use

webify_interaction_function('mfilename.m')

It will output a new file ('mfilename.txt') in the current directory that contains all the Wiki tags. Paste it directly to this Wiki.

• Projects are usually made available from

/cmpdartsvr2/www/downloads/software

It is best to exactly copy an existing reference, e.g. Petals Sauret-Güeto et al 2013 (NOTE: cmpdartsvr1 links directly to cmpdartsvr3 which replaces it.)

• Toolboxes have lots of dependencies it is, therefore, essential to zip all the dependencies into the same zip file. To assist the Toolbag includes

function Dep_List=myDepFun(name,toolbox,all)
   % Dep_List=myDepFun(name,toolbox)
   % 
   % Tool for recursively finding what further functions a function depends on.
   % myDepFun then creates a subdirectory of the 'toolbox' directory and copies
   % all the 'external' functions that it finds into that directory.
   % It also puts a copy of the full results (.mat file) into that subdirectory.
   %
   % WARNING: if the function depends on classfiles (in a directory with a name beginning with @)
   % then please create a subdirectory within the directory 'toolbox' with the following form
   % 'NAME_Dependencies_outside_TOOLBOX' and copy the classfile directories and contents directly
   % into this new directory, e.g.
   % AAMToolbox_Dependencies_outside_ShapeModelToolbox
   %
   % (This is because 'depfun' does not recognise classfile types.)
   %   
   % name, name of function m file inside a toolbox (without the suffix)
   % toolbox, path and name of the toolbox in which the function resides and which would normally
   %          be expected to contain all the functions needed. Functions outside the toolbox
   %          are 'external' tools
   % all, default false and the final list excludes functions in the toolbox, 
   %           if true then all functions are listed and external files are not copied into a local directory
   % Dep_List, a list of all the external tools with their DArT_Toolshed paths
   %
   % Usage
   % list=myDepFun('AAMToolbox','C:\DArT_Toolshed\Toolboxes\ShapeModelToolbox')
   % 
   % WARNING
   % at present this does not check each filename to see whether there is an associated
   % compiled version, i.e. dll, mexx64 etc.
   % To add a check would be straightforward if there is always an associated .m file
   %
   % J. Andrew Bangham, 2012