Changes required for BASE version 3.5

[Nicklas Nordborg]

BASE 3.5 will not be binary compatible with earlier BASE 3.x versions due to replacement of biomaterial lists with item lists. Changes in Reggie will most likely be limited to replacing instances of BioMaterialList with instances of ItemList and making some minor code adjustments.

For more information see ​http://base.thep.lu.se/ticket/1325

Also make sure that <max-base-version> in META-INF/extensions.xml is removed (see #751).

[Nicklas Nordborg]

(In [3217]) References #750: Changes required for BASE version 3.5

Updated build.xml and extensions.xml to require BASE 3.5. Eclipse report 93 compilation errors, but most can probably be fixed by replacing BioMaterialList with ItemList

[Nicklas Nordborg]

(In [3218]) References #750: Changes required for BASE version 3.5

Fixes all compilation errors. Most could be fixed by replacing BioMaterialList with ItemList, Item.BIOMATERIALLIST with Item.ITEMLIST and replacing call to getMemberBioMaterials() with getMembers().

[Nicklas Nordborg]

(In [3219]) References #750: Changes required for BASE version 3.5

Fix use of deprecated methods.

[Nicklas Nordborg]

(In [3247]) References #750: Changes required for BASE version 3.5

Merge changes from branches/ticket-750 to the trunk.

[Nicklas Nordborg]

(In [3248]) References #750: Changes required for BASE version 3.5

Removing branches/ticket-750 since it has been merged to the trunk (see [3247])