Ref: add missing modules to various parts of the manual

sagemath · Apr 11, 2015 · 2ceb598 · 2ceb598
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Showing 22 changed files with 85 additions and 4 deletions.
diff --git a/src/doc/en/reference/arithgroup/index.rst b/src/doc/en/reference/arithgroup/index.rst
@@ -17,6 +17,6 @@ the modular group `{\rm SL}_2(\ZZ)`.
    sage/modular/arithgroup/congroup_gamma
    sage/modular/arithgroup/congroup_sl2z
    sage/modular/arithgroup/farey_symbol
-   sage/modular/arithgroup/congroup_pyx
+   sage/modular/arithgroup/congroup
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/categories/index.rst b/src/doc/en/reference/categories/index.rst
@@ -198,6 +198,7 @@ Miscellaneous
    :maxdepth: 2
 
    sage/categories/action
+   sage/categories/category_cy_helper
    sage/categories/poor_man_map
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/cryptography/index.rst b/src/doc/en/reference/cryptography/index.rst
@@ -23,6 +23,7 @@ Cryptography
    sage/crypto/util
    sage/crypto/boolean_function
 
+   sage/crypto/mq/mpolynomialsystemgenerator
    sage/crypto/mq/sr
    sage/crypto/mq/sbox
 

diff --git a/src/doc/en/reference/databases/index.rst b/src/doc/en/reference/databases/index.rst
@@ -58,5 +58,8 @@ database engine.
    sage/databases/conway
    sage/databases/odlyzko
    sage/databases/symbolic_data
+   sage/databases/cunningham_tables
+   sage/databases/db_class_polynomials
+   sage/databases/db_modular_polynomials
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/dynamics/index.rst b/src/doc/en/reference/dynamics/index.rst
@@ -8,9 +8,10 @@ Discrete dynamics
 
    interval_exchanges
    flat_surfaces
+   sage/sandpiles/sandpile
 
 .. SEEALSO::
 
-    - :ref:`sage.combinat.e_one_star`
+    - :mod:`sage.combinat.e_one_star`
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/finance/index.rst b/src/doc/en/reference/finance/index.rst
@@ -9,6 +9,7 @@ Quantitative Finance
    sage/finance/option
    sage/finance/fractal
    sage/finance/markov_multifractal
+   sage/finance/markov_multifractal_cython
 
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/finite_rings/index.rst b/src/doc/en/reference/finite_rings/index.rst
@@ -14,7 +14,11 @@ Finite Rings
    sage/rings/finite_rings/finite_field_ntl_gf2e
    sage/rings/finite_rings/finite_field_pari_ffelt
    sage/rings/finite_rings/finite_field_prime_modn
+   sage/rings/finite_rings/hom_finite_field
    sage/rings/finite_rings/homset
+   sage/rings/finite_rings/hom_finite_field
+   sage/rings/finite_rings/hom_finite_field_givaro
+   sage/rings/finite_rings/hom_prime_finite_field
    sage/rings/finite_rings/integer_mod_ring
    sage/rings/finite_rings/residue_field
    sage/rings/algebraic_closure_finite_field

diff --git a/src/doc/en/reference/games/index.rst b/src/doc/en/reference/games/index.rst
@@ -10,5 +10,14 @@ Rubik's cube solver (see
 
    sage/games/sudoku
    sage/games/quantumino
+   sage/games/hexad
+
+Internals
+---------
+
+.. toctree::
+   :maxdepth: 1
+
+   sage/games/sudoku_backtrack
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/groups/index.rst b/src/doc/en/reference/groups/index.rst
@@ -6,7 +6,11 @@ Groups
 
    sage/groups/groups_catalog
    sage/groups/group
+   sage/groups/group_homset
    sage/groups/libgap_wrapper
+   sage/groups/libgap_group
+   sage/groups/libgap_mixin
+   sage/groups/pari_group
    sage/groups/generic
    sage/groups/free_group
    sage/groups/finitely_presented
@@ -47,7 +51,18 @@ Groups
    sage/groups/misc_gps/misc_groups
    sage/groups/semimonomial_transformations/semimonomial_transformation_group
    sage/groups/semimonomial_transformations/semimonomial_transformation
-
+   sage/groups/class_function
    sage/groups/conjugacy_classes
+   sage/groups/perm_gps/partn_ref
+   sage/groups/perm_gps/partn_ref2
+
+
+Internals
+---------
+
+.. toctree::
+   :maxdepth: 2
+
+   sage/groups/matrix_gps/named_group
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/libs/index.rst b/src/doc/en/reference/libs/index.rst
@@ -51,6 +51,7 @@ to be aware of the modules described in this chapter.
    sage/libs/pari/gen_py
    sage/libs/pari/gen
    sage/libs/pari/pari_instance
+   sage/rings/pari_ring
    sage/libs/fplll/fplll
    sage/libs/readline
    sage/libs/gap/context_managers

diff --git a/src/doc/en/reference/matroids/index.rst b/src/doc/en/reference/matroids/index.rst
@@ -50,4 +50,15 @@ Advanced functionality
    sage/matroids/utilities
    sage/matroids/extension
 
+Internals
+---------
+
+.. toctree::
+   :maxdepth: 1
+
+   sage/matroids/lean_matrix
+   sage/matroids/matroids_plot_helpers
+   sage/matroids/set_system
+   sage/matroids/unpickling
+
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/modfrm/index.rst b/src/doc/en/reference/modfrm/index.rst
@@ -23,6 +23,8 @@ Modular Forms
    sage/modular/modform/ambient
    sage/modular/modform/half_integral
    sage/modular/modform/find_generators
-
+   sage/modular/modform/j_invariant
+   sage/modular/modform/notes
+   sage/modular/modform/theta
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/modsym/index.rst b/src/doc/en/reference/modsym/index.rst
@@ -27,5 +27,8 @@ Modular Symbols
 
    sage/modular/modsym/p1list_nf
 
+   sage/modular/modsym/apply
+   sage/modular/modsym/hecke_operator
+   sage/modular/modsym/relation_matrix_pyx
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/monoids/index.rst b/src/doc/en/reference/monoids/index.rst
@@ -16,4 +16,6 @@ finite number of indeterminates.
    sage/monoids/string_monoid_element
    sage/monoids/string_monoid
 
+   sage/monoids/string_ops
+
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/number_fields/index.rst b/src/doc/en/reference/number_fields/index.rst
@@ -20,8 +20,13 @@ Algebraic Number Fields
    sage/rings/number_field/unit_group
    sage/rings/number_field/small_primes_of_degree_one
    sage/rings/number_field/splitting_field
+   sage/rings/number_field/bdd_height
+   sage/rings/number_field/structure
    sage/rings/number_field/totallyreal
    sage/rings/number_field/totallyreal_rel
+   sage/rings/number_field/totallyreal_data
+   sage/rings/number_field/totallyreal_phc
+
    sage/rings/qqbar
 
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/numerical/index.rst b/src/doc/en/reference/numerical/index.rst
@@ -25,6 +25,11 @@ LP Solver backends
    sage/numerical/backends/ppl_backend
    sage/numerical/backends/cvxopt_backend
 
+.. backends depending on optional packages
+..   sage/numerical/backends/coin_backend
+..   sage/numerical/backends/cplex_backend
+..   sage/numerical/backends/gurobi_backend
+
 Sage also supports, via optional packages, CBC (COIN-OR), CPLEX (ILOG), and Gurobi. In order to find out
 how to use them in Sage, please refer to the `Thematic Tutorial on Linear
 Programming

diff --git a/src/doc/en/reference/padics/index.rst b/src/doc/en/reference/padics/index.rst
@@ -43,4 +43,8 @@ p-Adics
    sage/rings/padics/precision_error
    sage/rings/padics/misc
 
+   sage/rings/padics/common_conversion
+   sage/rings/padics/discrete_value_group
+   sage/rings/padics/morphism
+
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/parallel/index.rst b/src/doc/en/reference/parallel/index.rst
@@ -10,4 +10,8 @@ Parallel Computing
    sage/parallel/multiprocessing_sage
    sage/parallel/ncpus
 
+.. SEEALSO::
+
+    - :ref:`sage.interfaces.psage`
+
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/quivers/index.rst b/src/doc/en/reference/quivers/index.rst
@@ -8,6 +8,7 @@ Quivers
    sage/quivers/homspace
    sage/quivers/morphism
    sage/quivers/path_semigroup
+   sage/quivers/paths
    sage/quivers/representation
 
 .. include:: ../footer.txt

diff --git a/src/doc/en/reference/sat/index.rst b/src/doc/en/reference/sat/index.rst
@@ -91,7 +91,11 @@ Details on Specific Solvers
 .. toctree::
    :maxdepth: 1
 
+   sage/sat/solvers/satsolver
    sage/sat/solvers/dimacs
+.. optional - cryptominisat
+.. sage/sat/solvers/cryptominisat/cryptominisat
+.. sage/sat/solvers/cryptominisat/solverconf
 
 Converters
 ----------

diff --git a/src/doc/en/reference/stats/index.rst b/src/doc/en/reference/stats/index.rst
@@ -15,4 +15,6 @@ Statistics
    sage/stats/distributions/discrete_gaussian_polynomial
    sage/stats/distributions/discrete_gaussian_lattice
 
+   sage/stats/r
+
 .. include:: ../footer.txt
diff --git a/src/doc/en/reference/tensor_free_modules/index.rst b/src/doc/en/reference/tensor_free_modules/index.rst
@@ -23,4 +23,6 @@ a self-consistent subset that can be used independently of SageManifolds.
 
    sage/tensor/modules/comp
 
+   sage/tensor/modules/format_utilities
+
 .. include:: ../footer.txt