.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/source/
+!docs
-docs/source/autodoc
+docs/build

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/autodoc/bmlsa src/bmlsa --force'
+                sh 'sphinx-apidoc -o docs/source/ 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

@@ -0,0 +1,53 @@
+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/conf.py

@@ -3,7 +3,7 @@ import sys
 
 # Configure system path
 
-sys.path.insert(0, os.path.abspath("../../src/"))
+sys.path.insert(0, os.path.abspath("../src/"))
 
 # Configuration file for the Sphinx documentation builder.
 #

docs/source/index.rst

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

docs/source/modules.rst

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