Name of Tutorial (Heading 1)

Name​ ​of​ ​Tutorial​ ​(Heading​ ​1) Authors:​ ​Joe​ ​Bloggs​ ​(Normal​ ​Paragraph​ ​Text) Affiliation​ ​(Normal​ ​Paragraph​ ​Text)

Name​ ​of​ ​Tutorial Aim Background Exercise References

Aim​ ​(Heading​ ​2) To​ ​turn​ ​a​ ​Heading​ ​Style​ ​on​ ​for​ ​a​ ​piece​ ​of​ ​text,​ ​highlight​ ​the​ ​text​ ​you​ ​want​ ​to​ ​turn​ ​into​ ​a Heading​ ​and​ ​then​ ​click​ ​on​ ​'​Styles​'​ ​in​ ​the​ ​editor​ ​bar​ ​and​ ​choose​ ​the​ ​Heading​ ​you​ ​want. If​ ​you​ ​rename​ ​or​ ​add​ ​new​ ​headings,​ ​you​ ​can​ ​automatically​ ​update​ ​the​ ​Table​ ​of​ ​Contents​ ​by clicking​ ​anywhere​ ​on​ ​the​ ​Table​ ​of​ ​Contents,​ ​and​ ​then​ ​clicking​ ​'Update​ ​Now'.​ ​You​ ​do​ ​not need​ ​to​ ​retype​ ​the​ ​heading​ ​name​ ​in​ ​the​ ​Table​ ​of​ ​Contents. If​ ​this​ ​is​ ​a​ ​new​​ ​document,​ ​then​ ​you​ ​will​ ​need​ ​to​ ​publish​ ​it.​ ​Click​ ​the​ ​drop-down​ ​arrow​ ​to​ ​the right​ ​of​ ​the​ ​Share​​ ​button​ ​at​ ​the​ ​top-right​ ​of​ ​the​ ​page,​ ​and​ ​then​ ​click​ ​'Publish​ ​as​ ​web page...'.​ ​When​ ​the​ ​dialog​ ​box​ ​comes​ ​up​ ​make​ ​sure​ ​'​Automatically​ ​republish​ ​when changes​ ​are​ ​made​'​ ​is​ ​ticked​ ​ON.​ ​Once​ ​this​ ​is​ ​done,​ ​you​ ​can​ ​copy​ ​and​ ​paste​ ​the​ ​webpage URL.

Background​ ​(Heading​ ​2) There​ ​should​ ​be​ ​a​ ​warning​ ​about​ ​the​ ​inability​ ​to​ ​run​ ​this​ ​tutorial​ ​without​ ​the OpenGL​ ​functionality​ ​on​ ​the​ ​computer​ ​which​ ​essentially​ ​boils​ ​down​ ​to​ ​being unable​ ​to​ ​run​ ​this​ ​tutorial​ ​without​ ​a​ ​graphics​ ​card​ ​installed​ ​-​ ​it​ ​is​ ​possible​ ​to run​ ​OpenGL​ ​without​ ​a​ ​graphics​ ​card​ ​(it​ ​creates​ ​it’s​ ​own​ ​software​ ​emulation of​ ​what​ ​a​ ​graphics​ ​card​ ​would​ ​do​ ​or​ ​something​ ​like​ ​that)​ ​but​ ​this​ ​is apparently​ ​ridiculously​ ​slow​ ​and​ ​probably​ ​what​ ​should​ ​be​ ​considered​ ​to​ ​be beyond​ ​the​ ​scope​ ​of​ ​this​ ​tutorial Files​ ​Included​ ​in​ ​this​ ​Tutorial: Probably​ ​the​ ​ones​ o ​ riginating​ ​from​ S ​ abin’s​ ​work​ ​-​ ​need​ ​to​ ​check​ ​if​ ​that’s alright​ ​or​ ​whether​ i​ ​ ​should​ ​look​ ​for​ a ​ lternate​ ​data​ ​sets​ ​to​ ​use

Exercise​ ​1​ ​-​ ​Opening​ ​GPlates​ ​in​ ​Beta​ ​Mode To​ ​be​ ​able​ ​to​ ​use​ ​the​ ​volume​ ​visualisation​ ​tools​ ​it​ ​is​ ​necessary​ ​to​ ​boot GPlates​ ​in​ ​very​ ​specific​ ​way.​ ​This​ ​will​ ​allow​ ​the​ ​normally​ ​hidden​ ​features​ ​of the​ ​beta​ ​volume​ ​visualisation​ ​to​ ​become​ ​visible. For​ ​WINDOWS​ ​Users: 1)​ ​Open​ ​the​ ​command​ ​prompt​ ​(type​ ​'command​ ​prompt'​ ​into​ ​the​ ​start​ ​menu on​ ​Windows​ ​7​ ​or​ ​the​ ​search​ ​function​ ​in​ ​Windows​ ​8)​ ​(Figure​ ​1).

Figure​ ​1.​ ​The​ ​command​ ​prompt​ ​should​ ​appear​ ​under​ ​programs​ ​when​ ​‘command​ ​prompt’​ ​is typed​ ​into​ ​the​ ​search​ ​on​ ​a​ ​windows​ ​computer

2)​ ​The​ ​current​ ​directory​ ​of​ ​the​ ​command​ ​prompt​ ​is​ ​currently​ ​shown​ ​(in​ ​most cases​ ​it​ ​will​ ​be​ ​something​ ​like​ ​'C:\Users\login​ ​name>​ ​(Figure​ ​2).​ ​This​ ​will need​ ​to​ ​be​ ​changed​ ​to​ ​the​ ​folder​ ​where​ ​GPlates​ ​has​ ​been​ ​installed​ ​-​ ​this​ ​is usually​ ​on​ ​C​ ​drive​ ​within​ ​the​ ​programs​ ​folder​ ​(Figure​ ​3).

Figure​ ​2.​ ​The​ ​default​ ​directory​ ​for​ ​the​ ​command​ ​prompt​ ​(circled)​ ​is​ ​normally​ ​the​ ​location shown​ ​in​ ​the​ ​image​ ​(note:​ ​‘Luke’​ ​in​ ​the​ ​image​ ​will​ ​be​ ​replaced​ ​with​ ​whatever​ ​the​ ​name​ ​of the​ ​login​ ​you​ ​are​ ​using​ ​on​ ​the​ ​computer​ ​is)​ ​and​ ​will​ ​have​ ​to​ ​be​ ​changed

Figure​ ​3.​​ ​The​ ​folder​ ​that​ ​needs​ ​to​ ​be​ ​located​ ​is​ ​the​ ​one​ ​that​ ​contains​ ​the​ ​gplates-1.4.0.exe (or​ ​gplates-1.3.0.exe)​ ​application​ ​(circled).​ ​ ​This​ ​is​ ​the​ ​location​ ​that​ ​will​ ​be​ ​copied​ ​into​ ​the command​ ​prompt

3)​ ​To​ ​change​ ​the​ ​directory​ ​in​ ​the​ ​command​ ​prompt​ ​‘cd’​ ​must​ ​be​ ​typed​ ​in with​ ​the​ ​new​ ​directory​ ​location​ ​following​ ​that,​ ​for​ ​example: cd​ ​C:\Program​ ​Files​ ​(x86)\GPlates\GPlates​ ​1.4.0 Press​ ​enter​ ​and​ ​the​ ​directory​ ​on​ ​the​ ​left​ ​of​ ​the​ ​‘>’​ ​should​ ​match​ ​what​ ​was typed​ ​in.​ ​ ​Make​ ​sure​ ​to​ ​match​ ​the​ ​case​ ​and​ ​spacing​ ​of​ ​the​ ​new​ ​directory​ ​as command​ ​prompt​ ​will​ ​not​ ​change​ ​the​ ​directory​ ​unless​ ​it​ ​matches​ ​exactly (Figure​ ​4)

Figure​ ​4.​​ ​The​ ​first​ ​underlined​ ​line​ ​shows​ ​the​ ​necessary​ ​command​ ​to​ ​change​ ​the​ ​directory, you​ ​will​ ​know​ ​if​ ​this​ ​step​ ​worked​ ​because​ ​it​ ​will​ ​appear​ ​as​ ​the​ ​directory​ ​to​ ​the​ ​left​ ​of​ ​the​ ​‘>’ as​ ​the​ ​second​ ​underlined​ ​line​ ​shows

4)​ ​Now​ ​that​ ​the​ ​directory​ ​has​ ​been​ ​changed​ ​to​ ​the​ ​folder​ ​with​ ​the​ ​.exe​ ​file for​ ​GPlates​ ​in​ ​it​ ​the​ ​next​ ​step​ ​is​ ​to​ ​load​ ​GPlates​ ​itself.​ ​ ​To​ ​do​ ​this​ ​the​ ​‘start’ command​ ​is​ ​used: start​ ​gplates-1.4.0.exe​ ​--enable-scalar-field-import GPlates​ ​1.3​ ​can​ ​also​ ​be​ ​opened​ ​in​ ​this​ ​way,​ ​merely​ ​change​ ​the​ ​name​ ​of​ ​the ‘.exe’​ ​file​ ​to​ ​match​ ​that​ ​of​ ​the​ ​GPlates​ ​1.3​ ​file.​ ​In​ ​both​ ​cases​ ​make​ ​sure​ ​the space​ ​and​ ​double​ ​dash​ ​are​ ​placed​ ​between​ ​the​ ​end​ ​of​ ​the​ ​‘.exe’​ ​and​ ​the ‘enable’​ ​(Figure​ ​5).​ ​ ​This​ ​will​ ​open​ ​GPlates,​ ​to​ ​check​ ​whether​ ​the​ ​beta functionality​ ​has​ ​be​ ​enabled​ ​go​ ​to​ ​File->Import​ ​and​ ​there​ ​should​ ​now​ ​be​ ​an option​ ​to​ ​‘Import​ ​3D​ ​Scalar​ ​Field...’​ ​(Figure​ ​6) Please​ ​see​ ​the​ ​appendix​ ​for​ ​alternate​ ​methods​ ​of​ ​opening​ ​GPlates​ ​into​ ​beta mode

Figure​ ​5.​ ​An​ ​example​ ​of​ ​the​ ​necessary​ ​change​ ​to​ ​the​ ​command​ ​prompt​ ​directory​ ​and​ ​the ‘start’​ ​command​ ​to​ ​open​ ​GPlates​ ​1.4.​ ​ ​The​ ​process​ ​would​ ​be​ ​similar​ ​for​ ​opening​ ​GPlates​ ​1.3 in​ ​this​ ​way,​ ​the​ ​only​ ​changes​ ​would​ ​be​ ​the​ ​folder​ ​locationand​ ​the​ ​.exe​ ​file​ ​would​ ​be​ ​GPlates 1.3​ ​not​ ​1.4

Figure​ ​6.​ ​ ​As​ ​can​ ​be​ ​seen​ ​the​ ​previously​ ​hidden​ ​‘Import​ ​3D​ ​Scalar​ ​Field...’​ ​option​ ​is​ ​now available​ ​in​ ​the​ ​import​ ​menu.​ ​ ​If​ ​this​ ​doesn’t​ ​appear​ ​make​ ​sure​ ​the​ ​previous​ ​steps​ ​were followed​ ​correctly​ ​or​ ​see​ ​the​ ​appendix​ ​for​ ​alternate​ ​ways​ ​of​ ​opening​ ​GPlates

For​ ​MAC​ ​Users: This​ ​is​ ​taken​ ​straight​ ​from​ ​Sabin’s​ ​work​ ​-​ ​I​ ​have​ ​had​ ​no​ ​chance​ ​to​ ​test​ ​this process​ ​(i​ ​do​ ​not​ ​own​ ​a​ ​mac)​ ​-​ ​will​ ​need​ ​to​ ​test​ ​and​ ​see​ ​if​ ​there​ ​are alternate​ ​ways​ ​of​ ​opening​ ​GPlates​ ​before​ ​finalising​ ​the​ ​tutorial Also​ ​since​ ​I’m​ ​not​ ​currently​ ​working​ ​on​ ​a​ ​Mac​ ​and​ ​do​ ​not​ ​own​ ​one​ ​there​ ​are currently​ ​no​ ​figures​ ​for​ ​this​ ​part​ ​of​ ​the​ ​tutorial 1)​ ​Open​ ​the​ ​terminal.​ ​ ​If​ ​Gplates​ ​is​ ​installed​ ​in​ ​the​ ​Applications​ ​folder​ ​then type​ ​in: /Applications/GPlates-1.4.0/gplates.app/Contents/MacOS/gplates --enable-scalar-field-import press​ ​enter​ ​and​ ​a​ ​Gplates​ ​window​ ​should​ ​appear​ ​while​ ​the​ ​terminal​ ​displays any​ ​errors​ ​GPlates​ ​may​ ​encounter Currently​ ​if​ ​GPlates​ ​is​ ​not​ ​installed​ ​to​ ​the​ ​Applications​ ​Folder​ ​then​ ​i​ ​have​ ​no

idea​ ​how​ ​to​ ​open​ ​it​ ​-​ ​will​ ​need​ ​to​ ​find​ ​out

Exercise​ ​2​ ​-​ ​Importing​ ​3D​ ​Scalar​ ​Field​ ​Data Now​ ​that​ ​GPlates​ ​has​ ​started​ ​in​ ​Beta​ ​mode​ ​it​ ​is​ ​now​ ​possible​ ​to​ ​import​ ​3D Scalar​ ​Field​ ​data 1)​ ​Go​ ​to​ ​File->Import->Import​ ​3D​ ​Scalar​ ​Field…​ ​select​ ​Add​ ​Directory​ ​and select​ ​the​ ​‘MITP_3D’​ ​folder​ ​from​ ​the​ ​tutorial​ ​folder.​ ​ ​Depending​ ​on​ ​the computer​ ​it​ ​may​ ​take​ ​some​ ​time​ ​to​ ​load​ ​in​ ​the​ ​data,​ ​once​ ​the​ ​data​ ​appears in​ ​the​ ​table​ ​click​ ​next

Figure​ ​7.​ ​The​ ​‘Add​ ​directory...’​ ​button​ ​(top​ ​left​ ​corner)​ ​allows​ ​for​ ​the​ ​entire​ ​folder​ ​of​ ​data to​ ​be​ ​loaded​ ​into​ ​GPlates​ ​in​ ​one​ ​go​ ​-​ ​this​ ​can​ ​take​ ​time​ ​depending​ ​on​ ​the​ ​computer.​ ​ ​When the​ ​data​ ​appears​ ​in​ ​the​ ​table​ ​then​ ​it​ ​has​ ​been​ ​successfully​ ​loaded.

The​ ​next​ ​window​ ​sets​ ​the​ ​global​ ​extent​ ​of​ ​the​ ​3D​ ​scalar​ ​field.​ ​ ​In​ ​this​ ​case leave​ ​the​ ​settings​ ​as​ ​the​ ​data​ ​has​ ​a​ ​global​ ​extent​ ​(if​ ​the​ ​extent​ ​shown​ ​in​ ​this window​ ​are​ ​not​ ​global​ ​press​ ​the​ ​‘Use​ ​Global​ ​Extents’​ ​button​ ​to​ ​fix​ ​it)​ ​and press​ ​next.​ ​ ​The​ ​final​ ​window​ ​is​ ​the​ ​Feature​ ​Collection​ ​Window.​ ​ ​As​ ​there​ ​are no​ ​features​ ​currently​ ​loaded​ ​into​ ​GPlates​ ​the​ ​only​ ​option​ ​there​ ​should​ ​be​ ​the ‘Create​ ​a​ ​new​ ​feature​ ​collection’​ ​option.​ ​ ​Click​ ​that​ ​and​ ​then​ ​click​ ​‘Finish’ 2)​ ​ ​GPlates​ ​will​ ​appear​ ​unresponsive​ ​for​ ​around​ ​10-30​ ​seconds,​ ​again​ ​it​ ​is very​ ​dependent​ ​on​ ​how​ ​powerful​ ​the​ ​computer​ ​being​ ​used​ ​is​ ​and​ ​if​ ​there​ ​are any​ ​other​ ​programs​ ​running.

Currently​ ​the​ ​visualisation’s​ ​render​ ​mode​ ​is​ ​isosurface​ ​with​ ​the​ ​colours​ ​set​ ​to depth.​ ​ ​To​ ​move​ ​down​ ​through​ ​the​ ​layers​ ​of​ ​the​ ​model​ ​go​ ​to​ ​the​ ​layers window​ ​(found​ ​in​ ​Window->Show​ ​Layers​ ​or​ ​Ctrl+L)​ ​there​ ​should​ ​be​ ​one layer​ ​called​ ​‘out’.​ ​ ​Click​ ​on​ ​the​ ​arrow​ ​to​ ​the​ ​left​ ​of​ ​the​ ​eye​ ​symbol​ ​to​ ​show the​ ​options​ ​within​ ​the​ ​layer​ ​and​ ​scroll​ ​down​ ​to​ ​‘Depth​ ​Restriction​ ​(Radius)’

At​ ​any​ ​point​ ​the​ ​depth​ ​can​ ​be​ ​reset​ ​by​ ​clicking​ ​the​ ​‘Restore​ ​actual​ ​depth range’​ ​button​ ​below​ ​the​ ​‘Depth​ ​Restrcition​ ​(Radius)’

Appendix​ ​-​ ​Alternate​ ​Ways​ ​to​ ​Open​ ​GPlates If​ ​the​ ​steps​ o ​ utlined​ ​in​ ​Exercise​ ​1​ ​did​ ​not​ ​successfully​ ​open​ ​GPlates​ ​into​ ​beta mode​ ​there​ a ​ re​ ​alternative​ ​ways​ ​to​ ​opening​ ​the​ ​program. For​ ​WINDOWS​ ​Users: In​ ​some​ ​cases​ ​the​ ​change​ ​directory​ ​command​ ​(cd)​ ​will​ ​not​ ​work.​ ​ ​This​ ​can occur​ ​for​ ​a​ ​number​ ​of​ ​reasons​ ​such​ ​as​ ​if​ ​GPlates​ ​is​ ​not​ ​installed​ ​to​ ​the​ ​C drive​ ​of​ ​the​ ​computer​ ​or​ ​GPlates​ ​is​ ​being​ ​run​ ​from​ ​an​ ​external​ ​hard​ ​drive. The​ ​alternative​ ​in​ ​those​ ​cases​ ​is​ ​to​ ​go​ ​straight​ ​to​ ​the​ ​start​ ​command​ ​of​ ​part 4​ ​in​ ​Exercise​ ​1​ ​and​ ​include​ ​the​ ​entire​ ​directory​ ​location: start​ ​C:\Program​ ​Files​ ​(x86)\GPlates\GPlates​ ​1.4.0\gplates-1.4.0.exe --enable-scalar-field-import

Figure​ ​1x.​ ​ ​An​ ​alternate​ ​method​ ​for​ ​opening​ ​GPlates​ ​when​ ​the​ ​‘cd’​ ​command​ ​does​ ​not​ ​work

This​ ​should​ ​open​ ​GPlates​ ​with​ ​the​ ​‘Import​ ​3D​ ​scalar​ ​field’​ ​option​ ​enabled. This​ ​technique​ ​for​ ​opening​ ​GPlates​ ​does​ ​not​ ​work​ ​if​ ​the​ ​‘.exe’​ ​is​ ​saved​ ​to​ ​the C​ ​drive.

References​ ​(Heading​ ​2)