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fix manual includes
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@tjhei
tjhei committed Jul 25, 2022
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138 changes: 69 additions & 69 deletions doc/manual/manual.tex
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Expand Up @@ -11,7 +11,7 @@
\usepackage{siunitx}
\usepackage{cite}
\usepackage{svg}
\usepackage{newclude}
\usepackage{import}

% This adds space between the Appendix number (e.g., A.101) and the title.

Expand Down Expand Up @@ -4863,14 +4863,14 @@ \subsection{How to set up computations}
\subsection{Simple setups}
\label{sec:cookbooks-simple}
\include*{cookbooks/convection-box/doc/convection-box.tex}
\import{cookbooks/convection-box/doc/}{convection-box}
% cookbooks/convection_box_3d
\include*{cookbooks/convection_box_3d/doc/convection_box_3d.tex}
\import{cookbooks/convection_box_3d/doc/}{convection_box_3d}
% cookbooks/platelike-boundary
\include*{cookbooks/platelike-boundary/doc/platelike-boundary.tex}
\import{cookbooks/platelike-boundary/doc/}{platelike-boundary}
\subsubsection{Using passive and active compositional fields}
Expand Down Expand Up @@ -4900,16 +4900,16 @@ \subsubsection{Using passive and active compositional fields}
% cookbooks/composition_active/
\include*{cookbooks/composition_passive/doc/composition_passive.tex}
\import{cookbooks/composition_passive/doc/}{composition_passive}
% cookbooks/composition_active/
\include*{cookbooks/composition_active/doc/composition_active.tex}
\import{cookbooks/composition_active/doc/}{composition_active}
% cookbooks/composition-reaction
\include*{cookbooks/composition-reaction/doc/composition-reaction.tex}
\import{cookbooks/composition-reaction/doc/}{composition-reaction}
\subsubsection{Using particles}
Expand All @@ -4936,58 +4936,58 @@ \subsubsection{Using particles}
% cookbooks/composition_passive_particles/
\include*{cookbooks/composition_passive_particles/doc/composition_passive_particles.tex}
\import{cookbooks/composition_passive_particles/doc/}{composition_passive_particles}
% cookbooks/composition_active_particles/
\include*{cookbooks/composition_active_particles/doc/composition_active_particles.tex}
\import{cookbooks/composition_active_particles/doc/}{composition_active_particles}
% cookbooks/free_surface
\include*{cookbooks/free_surface/doc/free_surface.tex}
\import{cookbooks/free_surface/doc/}{free_surface}
% cookbooks/free_surface_with_crust
\include*{cookbooks/free_surface_with_crust/doc/free_surface_with_crust.tex}
\import{cookbooks/free_surface_with_crust/doc/}{free_surface_with_crust}
% cookbooks/sinker-with-averaging
\include*{cookbooks/sinker-with-averaging/doc/sinker-with-averaging.tex}
\import{cookbooks/sinker-with-averaging/doc/}{sinker-with-averaging}
% cookbooks/prescribed_velocity
\include*{cookbooks/prescribed_velocity/doc/prescribed_velocity.tex}
\import{cookbooks/prescribed_velocity/doc/}{prescribed_velocity}
% cookbooks/prescribed_velocity_ascii_data
\include*{cookbooks/prescribed_velocity_ascii_data/doc/prescribed_velocity_ascii_data.tex}
\import{cookbooks/prescribed_velocity_ascii_data/doc/}{prescribed_velocity_ascii_data}
% cookbooks/shell_simple_2d_smoothing
\include*{cookbooks/shell_simple_2d_smoothing/doc/shell_simple_2d_smoothing.tex}
\import{cookbooks/shell_simple_2d_smoothing/doc/}{shell_simple_2d_smoothing}
% cookbooks/finite_strain/
\include*{cookbooks/finite_strain/doc/finite_strain.tex}
\import{cookbooks/finite_strain/doc/}{finite_strain}
% cookbooks/geomio
\include*{cookbooks/geomio/doc/geomio.tex}
\import{cookbooks/geomio/doc/}{geomio}
% cookbooks/muparser_temperature_example
\include*{cookbooks/muparser_temperature_example/doc/muparser_temperature_example.tex}
\import{cookbooks/muparser_temperature_example/doc/}{muparser_temperature_example}
\include*{cookbooks/christensen_yuen_phase_function/doc/christensen_yuen_phase_function.tex}
\import{cookbooks/christensen_yuen_phase_function/doc/}{christensen_yuen_phase_function}
% cookbooks/phase_diagram/
\include*{cookbooks/visualizing_phase_diagram/doc/visualizing_phase_diagram.tex}
\import{cookbooks/visualizing_phase_diagram/doc/}{visualizing_phase_diagram}
% cookbooks/plume_2D_chunk
\include*{cookbooks/plume_2D_chunk/doc/plume.tex}
\import{cookbooks/plume_2D_chunk/doc/}{plume}
\subsection{Geophysical setups}
Expand Down Expand Up @@ -5083,59 +5083,59 @@ \subsection{Geophysical setups}
% cookbooks/shell_simple_2d
\include*{cookbooks/shell_simple_2d/doc/shell_simple_2d.tex}
\import{cookbooks/shell_simple_2d/doc/}{shell_simple_2d}
% cookbooks/shell_simple_3d
\include*{cookbooks/shell_simple_3d/doc/shell_simple_3d.tex}
\import{cookbooks/shell_simple_3d/doc/}{shell_simple_3d}
% cookbooks/shell_3d_postprocess
\include*{cookbooks/shell_3d_postprocess/doc/shell_3d_postprocess.tex}
\import{cookbooks/shell_3d_postprocess/doc/}{shell_3d_postprocess}
% cookbooks/initial-condition-S20RTS
\include*{cookbooks/initial-condition-S20RTS/doc/initial-condition-S20RTS.tex}
\import{cookbooks/initial-condition-S20RTS/doc/}{initial-condition-S20RTS}
% cookbooks/gplates/
\include*{cookbooks/gplates/doc/gplates.tex}
\import{cookbooks/gplates/doc/}{gplates}
% cookbooks/burnman/
\include*{../../cookbooks/burnman/doc/burnman.tex}
\import{../../cookbooks/burnman/doc/}{burnman}
% cookbooks/steinberger/
\include*{../../cookbooks/steinberger/doc/steinberger.tex}
\import{../../cookbooks/steinberger/doc/}{steinberger}
% cookbooks/morency_doin_2004/
\include*{cookbooks/morency_doin_2004/doc/morency_doin_2004.tex}
\import{cookbooks/morency_doin_2004/doc/}{morency_doin_2004}
% cookbooks/crustal_deformation
\include*{cookbooks/crustal_deformation/doc/crustal_deformation.tex}
\import{cookbooks/crustal_deformation/doc/}{crustal_deformation}
% cookbooks/continental_extension
\include*{cookbooks/continental_extension/doc/continental_extension.tex}
\import{cookbooks/continental_extension/doc/}{continental_extension}
% cookbooks/inner_core_convection
\include*{cookbooks/inner_core_convection/doc/inner_core_convection.tex}
\import{cookbooks/inner_core_convection/doc/}{inner_core_convection}
% cookbooks/global_melt
\include*{cookbooks/global_melt/doc/global_melt.tex}
\import{cookbooks/global_melt/doc/}{global_melt}
% cookbooks/mid_ocean_ridge
\include*{cookbooks/mid_ocean_ridge/doc/mid_ocean_ridge.tex}
\import{cookbooks/mid_ocean_ridge/doc/}{mid_ocean_ridge}
% cookbooks/kinematically_driven_subduction_2d
\include*{cookbooks/kinematically_driven_subduction_2d/doc/kinematically_driven_subduction_2d.tex}
\import{cookbooks/kinematically_driven_subduction_2d/doc/}{kinematically_driven_subduction_2d}
\subsection{Benchmarks}
Expand Down Expand Up @@ -5226,122 +5226,122 @@ \subsubsection{Running benchmarks that require code}
% benchmarks/onset-of-convection
\include*{cookbooks/benchmarks/onset-of-convection/doc/onset-of-convection.tex}
\import{cookbooks/benchmarks/onset-of-convection/doc/}{onset-of-convection}
% cookbooks/benchamrks/van-keken
\include*{cookbooks/benchmarks/van-keken/doc/van-keken.tex}
\import{cookbooks/benchmarks/van-keken/doc/}{van-keken}
% cookbooks/van-keken-vof
\include*{cookbooks/van-keken-vof/doc/van-keken-vof.tex}
\import{cookbooks/van-keken-vof/doc/}{van-keken-vof}
% cookbooks/bunge_et_al_mantle_convection/
\include*{cookbooks/bunge_et_al_mantle_convection/doc/bunge_et_al_mantle_convection.tex}
\import{cookbooks/bunge_et_al_mantle_convection/doc/}{bunge_et_al_mantle_convection}
% cookbooks/benchmarks/rayleigh_taylor_instablility
\include*{cookbooks/benchmarks/rayleigh_taylor_instability/doc/rayleigh_taylor_instability.tex}
\import{cookbooks/benchmarks/rayleigh_taylor_instability/doc/}{rayleigh_taylor_instability}
% cookbooks/benchmarks/polydiapirs
\include*{cookbooks/benchmarks/polydiapirs/doc/polydiapirs.tex}
\import{cookbooks/benchmarks/polydiapirs/doc/}{polydiapirs}
% cookbooks/benchmarks/sinking_block
\include*{cookbooks/benchmarks/sinking_block/doc/sinking_block.tex}
\import{cookbooks/benchmarks/sinking_block/doc/}{sinking_block}
% cookbooks/benchmarks/solcx
\include*{cookbooks/benchmarks/solcx/doc/solcx.tex}
\import{cookbooks/benchmarks/solcx/doc/}{solcx}
% cookbooks/benchmarks/solkz
\include*{cookbooks/benchmarks/solkz/doc/solkz.tex}
\import{cookbooks/benchmarks/solkz/doc/}{solkz}
% cookbooks/benchmarks/inclusion
\include*{cookbooks/benchmarks/inclusion/doc/inclusion.tex}
\import{cookbooks/benchmarks/inclusion/doc/}{inclusion}
% cookbooks/benchmarks/burstedde
\include*{cookbooks/benchmarks/burstedde/doc/burstedde.tex}
\import{cookbooks/benchmarks/burstedde/doc/}{burstedde}
% cookbooks/benchmarks/slab_detachment
\include*{cookbooks/benchmarks/slab_detachment/doc/slab_detachment.tex}
\import{cookbooks/benchmarks/slab_detachment/doc/}{slab_detachment}
% cookbooks/benchmarks/hollow_sphere
\include*{cookbooks/benchmarks/hollow_sphere/doc/hollow_sphere.tex}
\import{cookbooks/benchmarks/hollow_sphere/doc/}{hollow_sphere}
% cookbooks/benchmarks/annulus
\include*{cookbooks/benchmarks/annulus/doc/annulus.tex}
\import{cookbooks/benchmarks/annulus/doc/}{annulus}
% cookbooks/benchmarks/stokes
\include*{cookbooks/benchmarks/stokes/doc/stokes.tex}
\import{cookbooks/benchmarks/stokes/doc/}{stokes}
% cookbooks/benchmarks/viscosity_grooves
\include*{cookbooks/benchmarks/viscosity_grooves/doc/viscosity_grooves.tex}
\import{cookbooks/benchmarks/viscosity_grooves/doc/}{viscosity_grooves}
% cookbooks/benchmarks/latent-heat
\include*{cookbooks/benchmarks/latent-heat/doc/latent-heat.tex}
\import{cookbooks/benchmarks/latent-heat/doc/}{latent-heat}
% cookbooks/benchmarks/davies_et_al
\include*{cookbooks/benchmarks/davies_et_al/doc/davies_et_al.tex}
\import{cookbooks/benchmarks/davies_et_al/doc/}{davies_et_al}
% cookbooks/benchmarks/crameri_et_al
\include*{cookbooks/benchmarks/crameri_et_al/doc/crameri_et_al.tex}
\import{cookbooks/benchmarks/crameri_et_al/doc/}{crameri_et_al}
% cookbooks/benchmarks/solitary_wave
\include*{cookbooks/benchmarks/solitary_wave/doc/solitary_wave.tex}
\import{cookbooks/benchmarks/solitary_wave/doc/}{solitary_wave}
% cookbooks/benchmarks/operator_splitting
\include*{cookbooks/benchmarks/operator_splitting/doc/operator_splitting.tex}
\import{cookbooks/benchmarks/operator_splitting/doc/}{operator_splitting}
% cookbooks/benchmarks/tosi_et_al_2015_gcubed
\include*{cookbooks/benchmarks/tosi_et_al_2015_gcubed/doc/tosi_et_al_2015_gcubed.tex}
\import{cookbooks/benchmarks/tosi_et_al_2015_gcubed/doc/}{tosi_et_al_2015_gcubed}
% cookbooks/benchmarks/layeredflow
\include*{cookbooks/benchmarks/layeredflow/doc/layeredflow.tex}
\import{cookbooks/benchmarks/layeredflow/doc/}{layeredflow}
% cookbooks/benchmarks/doneahuerta
\include*{cookbooks/benchmarks/doneahuerta/doc/doneahuerta.tex}
\import{cookbooks/benchmarks/doneahuerta/doc/}{doneahuerta}
% cookbooks/benchmarks/advection
\include*{cookbooks/benchmarks/advection/doc/advection.tex}
\import{cookbooks/benchmarks/advection/doc/}{advection}
% cookbooks/benchmarks/yamauchi_takei_2016_anelasticity
\include*{cookbooks/benchmarks/yamauchi_takei_2016_anelasticity/doc/yamauchi_takei_2016_anelasticity.tex}
\import{cookbooks/benchmarks/yamauchi_takei_2016_anelasticity/doc/}{yamauchi_takei_2016_anelasticity}
% cookbooks/benchmarks/gravity_thin_shell
\include*{cookbooks/benchmarks/gravity_thin_shell/doc/gravity_thin_shell.tex}
\import{cookbooks/benchmarks/gravity_thin_shell/doc/}{gravity_thin_shell}
% cookbooks/benchmarks/gravity_thick_shell
\include*{cookbooks/benchmarks/gravity_thick_shell/doc/gravity_thick_shell.tex}
\import{cookbooks/benchmarks/gravity_thick_shell/doc/}{gravity_thick_shell}
% cookbooks/benchmarks/gravity_mantle
\include*{cookbooks/benchmarks/gravity_mantle/doc/gravity_mantle.tex}
\import{cookbooks/benchmarks/gravity_mantle/doc/}{gravity_mantle}
% cookbooks/benchmarks/buiter_et_al_2016_jsg
\include*{cookbooks/benchmarks/buiter_et_al_2016_jsg/doc/buiter_et_al_2016_jsg.tex}
\import{cookbooks/benchmarks/buiter_et_al_2016_jsg/doc/}{buiter_et_al_2016_jsg}
\subsection{Setups for teaching}
Expand All @@ -5366,13 +5366,13 @@ \subsection{Setups for teaching}
\item \nameref{sec:cookbooks-magnetic-stripes} (using the files in \url{cookbooks/magnetic_stripes/})
\end{enumerate}
\include*{cookbooks/convection-box-particles/doc/convection-box-particles.tex}
\import{cookbooks/convection-box-particles/doc/}{convection-box-particles}
\include*{cookbooks/heat_flow/doc/heat-flow.tex}
\import{cookbooks/heat_flow/doc/}{heat-flow}
\include*{cookbooks/onset_of_convection/doc/onset_of_convection.tex}
\import{cookbooks/onset_of_convection/doc/}{onset_of_convection}
\include*{cookbooks/magnetic_stripes/doc/magnetic_stripes.tex}
\import{cookbooks/magnetic_stripes/doc/}{magnetic_stripes}
\section{Extending and contributing to \aspect}
\label{sec:extending}
Expand Down

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