Changing documentation generation structure

.gitignore

@@ -213,5 +213,5 @@ pyrightconfig.json
 # Custom rules (everything added below won't be overriden by 'Generate .gitignore File' if you use 'Update' option)
 
 output
-!docs
+!docs/source/
-docs/build
+docs/source/autodoc

Jenkinsfile

@@ -18,7 +18,7 @@ pipeline {
                 sh 'rm -rf ./dist/*'
                 sh 'rm -rf ./docs/build/*'
                 sh "python -m build"
-                sh 'sphinx-apidoc -o docs/source/ src/bmlsa --force'
+                sh 'sphinx-apidoc -o docs/source/autodoc/bmlsa src/bmlsa --force'
                 sh 'make -C docs html'
                 publishHTML([allowMissing: false, alwaysLinkToLastBuild: false, keepAll: false, reportDir: 'docs/build/html', reportFiles: 'index.html', reportName: 'Documentation', reportTitles: ''])
             }

docs/source/bmlsa.rst

@@ -1,53 +0,0 @@
-bmlsa package
-=============
-
-Submodules
-----------
-
-bmlsa.aligner module
---------------------
-
-.. automodule:: bmlsa.aligner
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-bmlsa.cli module
-----------------
-
-.. automodule:: bmlsa.cli
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-bmlsa.datatypes module
-----------------------
-
-.. automodule:: bmlsa.datatypes
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-bmlsa.exceptions module
------------------------
-
-.. automodule:: bmlsa.exceptions
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-bmlsa.io module
----------------
-
-.. automodule:: bmlsa.io
-   :members:
-   :undoc-members:
-   :show-inheritance:
-
-Module contents
----------------
-
-.. automodule:: bmlsa
-   :members:
-   :undoc-members:
-   :show-inheritance:

docs/source/index.rst

@@ -7,10 +7,11 @@ Welcome to BMLSA's documentation!
 =================================
 
 .. toctree::
+   :glob:
    :maxdepth: 2
    :caption: Contents:
    
-   modules
+   autodoc/**/modules
 
 
 Indices and tables

docs/source/modules.rst

@@ -1,7 +0,0 @@
-bmlsa
-=====
-
-.. toctree::
-   :maxdepth: 4
-
-   bmlsa