Merge branch 'master' into compute-hma-doc

doc/Makefile

@@ -168,7 +168,7 @@ anchor_check : $(ANCHORCHECK)
 
 # ------------------------------------------
 
-$(RSTDIR)/%.rst : src/%.txt $(TXT2RST)
+$(RSTDIR)/%.rst : $(TXTDIR)/%.txt $(TXT2RST)
 	@(\
 		mkdir -p $(RSTDIR) ; \
 		. $(VENV)/bin/activate ;\

doc/txt/computes.txt

@@ -1,137 +0,0 @@
-Computes :h1
-
-<!-- RST
-
-.. toctree::
-   :maxdepth: 1
-
-   compute_ackland_atom
-   compute_adf
-   compute_angle
-   compute_angle_local
-   compute_angmom_chunk
-   compute_basal_atom
-   compute_body_local
-   compute_bond
-   compute_bond_local
-   compute_centro_atom
-   compute_chunk_atom
-   compute_chunk_spread_atom
-   compute_cluster_atom
-   compute_cna_atom
-   compute_cnp_atom
-   compute_com
-   compute_com_chunk
-   compute_contact_atom
-   compute_coord_atom
-   compute_damage_atom
-   compute_dihedral
-   compute_dihedral_local
-   compute_dilatation_atom
-   compute_dipole_chunk
-   compute_displace_atom
-   compute_dpd
-   compute_dpd_atom
-   compute_edpd_temp_atom
-   compute_entropy_atom
-   compute_erotate_asphere
-   compute_erotate_rigid
-   compute_erotate_sphere
-   compute_erotate_sphere_atom
-   compute_event_displace
-   compute_fep
-   compute_global_atom
-   compute_group_group
-   compute_gyration
-   compute_gyration_chunk
-   compute_gyration_shape
-   compute_heat_flux
-   compute_hexorder_atom
-   compute_hma
-   compute_improper
-   compute_improper_local
-   compute_inertia_chunk
-   compute_ke
-   compute_ke_atom
-   compute_ke_atom_eff
-   compute_ke_eff
-   compute_ke_rigid
-   compute_meso_e_atom
-   compute_meso_rho_atom
-   compute_meso_t_atom
-   compute_momentum
-   compute_msd
-   compute_msd_chunk
-   compute_msd_nongauss
-   compute_omega_chunk
-   compute_orientorder_atom
-   compute_pair
-   compute_pair_local
-   compute_pe
-   compute_pe_atom
-   compute_plasticity_atom
-   compute_pressure
-   compute_pressure_cylinder
-   compute_pressure_uef
-   compute_property_atom
-   compute_property_chunk
-   compute_property_local
-   compute_ptm_atom
-   compute_rdf
-   compute_reduce
-   compute_reduce_chunk
-   compute_rigid_local
-   compute_saed
-   compute_slice
-   compute_smd_contact_radius
-   compute_smd_damage
-   compute_smd_hourglass_error
-   compute_smd_internal_energy
-   compute_smd_plastic_strain
-   compute_smd_plastic_strain_rate
-   compute_smd_rho
-   compute_smd_tlsph_defgrad
-   compute_smd_tlsph_dt
-   compute_smd_tlsph_num_neighs
-   compute_smd_tlsph_shape
-   compute_smd_tlsph_strain
-   compute_smd_tlsph_strain_rate
-   compute_smd_tlsph_stress
-   compute_smd_triangle_vertices
-   compute_smd_ulsph_num_neighs
-   compute_smd_ulsph_strain
-   compute_smd_ulsph_strain_rate
-   compute_smd_ulsph_stress
-   compute_smd_vol
-   compute_sna_atom
-   compute_spin
-   compute_stress_atom
-   compute_stress_mop
-   compute_tally
-   compute_tdpd_cc_atom
-   compute_temp
-   compute_temp_asphere
-   compute_temp_body
-   compute_temp_chunk
-   compute_temp_com
-   compute_temp_cs
-   compute_temp_deform
-   compute_temp_deform_eff
-   compute_temp_drude
-   compute_temp_eff
-   compute_temp_partial
-   compute_temp_profile
-   compute_temp_ramp
-   compute_temp_region
-   compute_temp_region_eff
-   compute_temp_rotate
-   compute_temp_sphere
-   compute_temp_uef
-   compute_ti
-   compute_torque_chunk
-   compute_vacf
-   compute_vcm_chunk
-   compute_voronoi_atom
-   compute_xrd
-
-END_RST -->

doc/txt/impropers.txt

@@ -1,23 +0,0 @@
-Improper Styles :h1
-
-<!-- RST
-
-.. toctree::
-   :maxdepth: 1
-
-   improper_class2
-   improper_cossq
-   improper_cvff
-   improper_distance
-   improper_distharm
-   improper_fourier
-   improper_harmonic
-   improper_hybrid
-   improper_inversion_harmonic
-   improper_none
-   improper_ring
-   improper_umbrella
-   improper_sqdistharm
-   improper_zero
-
-END_RST -->