doc: clarify full module path

modules/mol/alg/doc/chain_mapping.rst

-:mod:`chain_mapping <ost.mol.alg.chain_mapping>` -- Chain Mapping
+:mod:`mol.alg.chain_mapping <ost.mol.alg.chain_mapping>` -- Chain Mapping
 --------------------------------------------------------------------------------
 
 .. automodule:: ost.mol.alg.chain_mapping

modules/mol/alg/doc/contact_score.rst

-:mod:`contact_score <ost.mol.alg.contact_score>` -- Contact based scores
---------------------------------------------------------------------------------
+:mod:`mol.alg.contact_score <ost.mol.alg.contact_score>` -- Contact based scores
+------------------------------------------------------------------------------------
 
 .. automodule:: ost.mol.alg.contact_score
    :members:

modules/mol/alg/doc/dockq.rst

-:mod:`dockq <ost.mol.alg.dockq>` -- DockQ implementation
+:mod:`mol.alg.dockq <ost.mol.alg.dockq>` -- DockQ implementation
 --------------------------------------------------------------------------------
 
 .. module:: ost.mol.alg.dockq

modules/mol/alg/doc/helix_kinks.rst

-:mod:`helix_kinks <ost.mol.alg.helix_kinks>` -- Algorithms to calculate Helix Kinks
+:mod:`mol.alg.helix_kinks <ost.mol.alg.helix_kinks>` -- Algorithms to calculate Helix Kinks
 ---------------------------------------------------------------------------------------------------------------
 
 .. automodule:: ost.mol.alg.helix_kinks

modules/mol/alg/doc/ligand_scoring.rst

-:mod:`ligand_scoring <ost.mol.alg.ligand_scoring>` -- Ligand scoring functions
------------------------------------------------------------------------------------
+:mod:`mol.alg.ligand_scoring <ost.mol.alg.ligand_scoring>` -- Ligand scoring functions
+------------------------------------------------------------------------------------------
 
 .. module:: ost.mol.alg.ligand_scoring
    :synopsis: Ligand scoring functions

modules/mol/alg/doc/molalg.rst

@@ -7,17 +7,16 @@
 Submodules
 --------------------------------------------------------------------------------
 
-* :doc:`chain_mapping`
-* :doc:`contact_score`
-* :doc:`dockq`
-* :doc:`helix_kinks`
-* :doc:`ligand_scoring`
-* :doc:`qsscore`
-* :doc:`scoring`
-* :doc:`stereochemistry`
-* :doc:`structure_analysis`
-* :doc:`trajectory_analysis`
-
+* :doc:`chain_mapping – Chain Mapping <chain_mapping>`
+* :doc:`contact_score – Contact based scores<contact_score>`
+* :doc:`dockq – DockQ implementation<dockq>`
+* :doc:`helix_kinks – Algorithms to calculate Helix Kinks<helix_kinks>`
+* :doc:`ligand_scoring – Ligand scoring functions<ligand_scoring>`
+* :doc:`qsscore – New QS score implementation<qsscore>`
+* :doc:`scoring – Specialized scoring functions<scoring>`
+* :doc:`stereochemistry – Stereochemistry Checks<stereochemistry>`
+* :doc:`structure_analysis – Functions to analyze structures<structure_analysis>`
+* :doc:`trajectory_analysis – DRMSD, pairwise distances and more<trajectory_analysis>`
 
 Local Distance Test scores (lDDT, DRMSD)
 --------------------------------------------------------------------------------

modules/mol/alg/doc/qsscore.rst

-:mod:`qsscore <ost.mol.alg.qsscore>` -- New QS score implementation
+:mod:`mol.alg.qsscore <ost.mol.alg.qsscore>` -- New QS score implementation
 --------------------------------------------------------------------------------
 
 .. note::

modules/mol/alg/doc/scoring.rst

-:mod:`scoring <ost.mol.alg.scoring>` -- Specialized scoring functions
---------------------------------------------------------------------------------
+:mod:`mol.alg.scoring <ost.mol.alg.scoring>` -- Specialized scoring functions
+---------------------------------------------------------------------------------
 
 .. module:: ost.mol.alg.scoring
    :synopsis: Specialized scoring functions

modules/mol/alg/doc/stereochemistry.rst

-:mod:`stereochemistry <ost.mol.alg.stereochemistry>` -- Stereochemistry Checks
+:mod:`mol.alg.stereochemistry <ost.mol.alg.stereochemistry>` -- Stereochemistry Checks
 --------------------------------------------------------------------------------
 
 .. warning::

modules/mol/alg/doc/structure_analysis.rst

-:mod:`structure_analysis <ost.mol.alg.structure_analysis>` -- Functions to analyze structures
+:mod:`mol.alg.structure_analysis <ost.mol.alg.structure_analysis>` -- Functions to analyze structures
 ---------------------------------------------------------------------------------------------------------------
 
 .. automodule:: ost.mol.alg.structure_analysis

modules/mol/alg/doc/trajectory_analysis.rst

-:mod:`trajectory_analysis <ost.mol.alg.trajectory_analysis>` -- DRMSD, pairwise distances and more
+:mod:`mol.alg.trajectory_analysis <ost.mol.alg.trajectory_analysis>` -- DRMSD, pairwise distances and more
 ---------------------------------------------------------------------------------------------------------------
 
 .. automodule:: ost.mol.alg.trajectory_analysis