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bag-cnag · Jul 22, 2024 · c42a944 · c42a944
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diff --git a/.buildinfo b/.buildinfo
@@ -0,0 +1,4 @@
+# Sphinx build info version 1
+# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: f69303c343f6bed186eef00b58820a33
+tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/.doctrees/advanced_use.doctree b/.doctrees/advanced_use.doctree
diff --git a/.doctrees/biodm/biodm.api.doctree b/.doctrees/biodm/biodm.api.doctree
diff --git a/.doctrees/biodm/biodm.basics.doctree b/.doctrees/biodm/biodm.basics.doctree
diff --git a/.doctrees/biodm/biodm.basics.k8scontroller.doctree b/.doctrees/biodm/biodm.basics.k8scontroller.doctree
diff --git a/.doctrees/biodm/biodm.basics.rootcontroller.doctree b/.doctrees/biodm/biodm.basics.rootcontroller.doctree
diff --git a/.doctrees/biodm/biodm.component.doctree b/.doctrees/biodm/biodm.component.doctree
diff --git a/.doctrees/biodm/biodm.components.controllers.admincontroller.doctree b/.doctrees/biodm/biodm.components.controllers.admincontroller.doctree
diff --git a/.doctrees/biodm/biodm.components.controllers.controller.doctree b/.doctrees/biodm/biodm.components.controllers.controller.doctree
diff --git a/.doctrees/biodm/biodm.components.controllers.doctree b/.doctrees/biodm/biodm.components.controllers.doctree
diff --git a/.doctrees/biodm/biodm.components.controllers.resourcecontroller.doctree b/.doctrees/biodm/biodm.components.controllers.resourcecontroller.doctree
diff --git a/.doctrees/biodm/biodm.components.controllers.s3controller.doctree b/.doctrees/biodm/biodm.components.controllers.s3controller.doctree
diff --git a/.doctrees/biodm/biodm.components.doctree b/.doctrees/biodm/biodm.components.doctree
diff --git a/.doctrees/biodm/biodm.components.services.dbservice.doctree b/.doctrees/biodm/biodm.components.services.dbservice.doctree
diff --git a/.doctrees/biodm/biodm.components.services.doctree b/.doctrees/biodm/biodm.components.services.doctree
diff --git a/.doctrees/biodm/biodm.components.services.k8service.doctree b/.doctrees/biodm/biodm.components.services.k8service.doctree
diff --git a/.doctrees/biodm/biodm.components.services.kcservice.doctree b/.doctrees/biodm/biodm.components.services.kcservice.doctree
diff --git a/.doctrees/biodm/biodm.components.services.s3service.doctree b/.doctrees/biodm/biodm.components.services.s3service.doctree
diff --git a/.doctrees/biodm/biodm.components.table.doctree b/.doctrees/biodm/biodm.components.table.doctree
diff --git a/.doctrees/biodm/biodm.config.doctree b/.doctrees/biodm/biodm.config.doctree
diff --git a/.doctrees/biodm/biodm.doctree b/.doctrees/biodm/biodm.doctree
diff --git a/.doctrees/biodm/biodm.error.doctree b/.doctrees/biodm/biodm.error.doctree
diff --git a/.doctrees/biodm/biodm.exceptions.doctree b/.doctrees/biodm/biodm.exceptions.doctree
diff --git a/.doctrees/biodm/biodm.managers.dbmanager.doctree b/.doctrees/biodm/biodm.managers.dbmanager.doctree
diff --git a/.doctrees/biodm/biodm.managers.doctree b/.doctrees/biodm/biodm.managers.doctree
diff --git a/.doctrees/biodm/biodm.managers.k8smanager.doctree b/.doctrees/biodm/biodm.managers.k8smanager.doctree
diff --git a/.doctrees/biodm/biodm.managers.kcmanager.doctree b/.doctrees/biodm/biodm.managers.kcmanager.doctree
diff --git a/.doctrees/biodm/biodm.managers.s3manager.doctree b/.doctrees/biodm/biodm.managers.s3manager.doctree
diff --git a/.doctrees/biodm/biodm.schemas.doctree b/.doctrees/biodm/biodm.schemas.doctree
diff --git a/.doctrees/biodm/biodm.schemas.group.doctree b/.doctrees/biodm/biodm.schemas.group.doctree
diff --git a/.doctrees/biodm/biodm.schemas.k8sinstance.doctree b/.doctrees/biodm/biodm.schemas.k8sinstance.doctree
diff --git a/.doctrees/biodm/biodm.schemas.listgroup.doctree b/.doctrees/biodm/biodm.schemas.listgroup.doctree
diff --git a/.doctrees/biodm/biodm.schemas.user.doctree b/.doctrees/biodm/biodm.schemas.user.doctree
diff --git a/.doctrees/biodm/biodm.scope.doctree b/.doctrees/biodm/biodm.scope.doctree
diff --git a/.doctrees/biodm/biodm.tables.asso.doctree b/.doctrees/biodm/biodm.tables.asso.doctree
diff --git a/.doctrees/biodm/biodm.tables.doctree b/.doctrees/biodm/biodm.tables.doctree
diff --git a/.doctrees/biodm/biodm.tables.group.doctree b/.doctrees/biodm/biodm.tables.group.doctree
diff --git a/.doctrees/biodm/biodm.tables.history.doctree b/.doctrees/biodm/biodm.tables.history.doctree
diff --git a/.doctrees/biodm/biodm.tables.k8sinstance.doctree b/.doctrees/biodm/biodm.tables.k8sinstance.doctree
diff --git a/.doctrees/biodm/biodm.tables.listgroup.doctree b/.doctrees/biodm/biodm.tables.listgroup.doctree
diff --git a/.doctrees/biodm/biodm.tables.user.doctree b/.doctrees/biodm/biodm.tables.user.doctree
diff --git a/.doctrees/biodm/biodm.utils.doctree b/.doctrees/biodm/biodm.utils.doctree
diff --git a/.doctrees/biodm/biodm.utils.security.doctree b/.doctrees/biodm/biodm.utils.security.doctree
diff --git a/.doctrees/biodm/biodm.utils.sqla.doctree b/.doctrees/biodm/biodm.utils.sqla.doctree
diff --git a/.doctrees/biodm/biodm.utils.utils.doctree b/.doctrees/biodm/biodm.utils.utils.doctree
diff --git a/.doctrees/biodm/modules.doctree b/.doctrees/biodm/modules.doctree
diff --git a/.doctrees/developer_manual.doctree b/.doctrees/developer_manual.doctree
diff --git a/.doctrees/environment.pickle b/.doctrees/environment.pickle
diff --git a/.doctrees/getting_started.doctree b/.doctrees/getting_started.doctree
diff --git a/.doctrees/index.doctree b/.doctrees/index.doctree
diff --git a/.doctrees/licence.doctree b/.doctrees/licence.doctree
diff --git a/.doctrees/user_manual.doctree b/.doctrees/user_manual.doctree
diff --git a/.nojekyll b/.nojekyll
diff --git a/_sources/advanced_use.rst.txt b/_sources/advanced_use.rst.txt
@@ -0,0 +1,8 @@
+============
+Advanced Use
+============
+TODO:
+
+This section describes how to implement a server that goes beyond the standard functionalities provided by 
+``BioDM``.
+
diff --git a/_sources/biodm/biodm.api.rst.txt b/_sources/biodm/biodm.api.rst.txt
@@ -0,0 +1,7 @@
+biodm.api module
+================
+
+.. automodule:: biodm.api
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.basics.k8scontroller.rst.txt b/_sources/biodm/biodm.basics.k8scontroller.rst.txt
@@ -0,0 +1,7 @@
+biodm.basics.k8scontroller module
+=================================
+
+.. automodule:: biodm.basics.k8scontroller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.basics.rootcontroller.rst.txt b/_sources/biodm/biodm.basics.rootcontroller.rst.txt
@@ -0,0 +1,7 @@
+biodm.basics.rootcontroller module
+==================================
+
+.. automodule:: biodm.basics.rootcontroller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.basics.rst.txt b/_sources/biodm/biodm.basics.rst.txt
@@ -0,0 +1,19 @@
+biodm.basics package
+====================
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.basics.k8scontroller
+   biodm.basics.rootcontroller
+
+Module contents
+---------------
+
+.. automodule:: biodm.basics
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.component.rst.txt b/_sources/biodm/biodm.component.rst.txt
@@ -0,0 +1,7 @@
+biodm.component module
+======================
+
+.. automodule:: biodm.component
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.controllers.admincontroller.rst.txt b/_sources/biodm/biodm.components.controllers.admincontroller.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.controllers.admincontroller module
+===================================================
+
+.. automodule:: biodm.components.controllers.admincontroller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.controllers.controller.rst.txt b/_sources/biodm/biodm.components.controllers.controller.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.controllers.controller module
+==============================================
+
+.. automodule:: biodm.components.controllers.controller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.controllers.resourcecontroller.rst.txt b/_sources/biodm/biodm.components.controllers.resourcecontroller.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.controllers.resourcecontroller module
+======================================================
+
+.. automodule:: biodm.components.controllers.resourcecontroller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.controllers.rst.txt b/_sources/biodm/biodm.components.controllers.rst.txt
@@ -0,0 +1,21 @@
+biodm.components.controllers package
+====================================
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.components.controllers.admincontroller
+   biodm.components.controllers.controller
+   biodm.components.controllers.resourcecontroller
+   biodm.components.controllers.s3controller
+
+Module contents
+---------------
+
+.. automodule:: biodm.components.controllers
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.controllers.s3controller.rst.txt b/_sources/biodm/biodm.components.controllers.s3controller.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.controllers.s3controller module
+================================================
+
+.. automodule:: biodm.components.controllers.s3controller
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.rst.txt b/_sources/biodm/biodm.components.rst.txt
@@ -0,0 +1,27 @@
+biodm.components package
+========================
+
+Subpackages
+-----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.components.controllers
+   biodm.components.services
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.components.table
+
+Module contents
+---------------
+
+.. automodule:: biodm.components
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.services.dbservice.rst.txt b/_sources/biodm/biodm.components.services.dbservice.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.services.dbservice module
+==========================================
+
+.. automodule:: biodm.components.services.dbservice
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.services.k8service.rst.txt b/_sources/biodm/biodm.components.services.k8service.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.services.k8service module
+==========================================
+
+.. automodule:: biodm.components.services.k8service
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.services.kcservice.rst.txt b/_sources/biodm/biodm.components.services.kcservice.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.services.kcservice module
+==========================================
+
+.. automodule:: biodm.components.services.kcservice
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.services.rst.txt b/_sources/biodm/biodm.components.services.rst.txt
@@ -0,0 +1,21 @@
+biodm.components.services package
+=================================
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.components.services.dbservice
+   biodm.components.services.k8service
+   biodm.components.services.kcservice
+   biodm.components.services.s3service
+
+Module contents
+---------------
+
+.. automodule:: biodm.components.services
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.services.s3service.rst.txt b/_sources/biodm/biodm.components.services.s3service.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.services.s3service module
+==========================================
+
+.. automodule:: biodm.components.services.s3service
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.components.table.rst.txt b/_sources/biodm/biodm.components.table.rst.txt
@@ -0,0 +1,7 @@
+biodm.components.table module
+=============================
+
+.. automodule:: biodm.components.table
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.config.rst.txt b/_sources/biodm/biodm.config.rst.txt
@@ -0,0 +1,7 @@
+biodm.config module
+===================
+
+.. automodule:: biodm.config
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.error.rst.txt b/_sources/biodm/biodm.error.rst.txt
@@ -0,0 +1,7 @@
+biodm.error module
+==================
+
+.. automodule:: biodm.error
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.exceptions.rst.txt b/_sources/biodm/biodm.exceptions.rst.txt
@@ -0,0 +1,7 @@
+biodm.exceptions module
+=======================
+
+.. automodule:: biodm.exceptions
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.managers.dbmanager.rst.txt b/_sources/biodm/biodm.managers.dbmanager.rst.txt
@@ -0,0 +1,7 @@
+biodm.managers.dbmanager module
+===============================
+
+.. automodule:: biodm.managers.dbmanager
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.managers.k8smanager.rst.txt b/_sources/biodm/biodm.managers.k8smanager.rst.txt
@@ -0,0 +1,7 @@
+biodm.managers.k8smanager module
+================================
+
+.. automodule:: biodm.managers.k8smanager
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.managers.kcmanager.rst.txt b/_sources/biodm/biodm.managers.kcmanager.rst.txt
@@ -0,0 +1,7 @@
+biodm.managers.kcmanager module
+===============================
+
+.. automodule:: biodm.managers.kcmanager
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.managers.rst.txt b/_sources/biodm/biodm.managers.rst.txt
@@ -0,0 +1,21 @@
+biodm.managers package
+======================
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.managers.dbmanager
+   biodm.managers.k8smanager
+   biodm.managers.kcmanager
+   biodm.managers.s3manager
+
+Module contents
+---------------
+
+.. automodule:: biodm.managers
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.managers.s3manager.rst.txt b/_sources/biodm/biodm.managers.s3manager.rst.txt
@@ -0,0 +1,7 @@
+biodm.managers.s3manager module
+===============================
+
+.. automodule:: biodm.managers.s3manager
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.rst.txt b/_sources/biodm/biodm.rst.txt
@@ -0,0 +1,36 @@
+biodm package
+=============
+
+Subpackages
+-----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.basics
+   biodm.components
+   biodm.managers
+   biodm.schemas
+   biodm.tables
+   biodm.utils
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.api
+   biodm.component
+   biodm.config
+   biodm.error
+   biodm.exceptions
+   biodm.scope
+
+Module contents
+---------------
+
+.. automodule:: biodm
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.schemas.group.rst.txt b/_sources/biodm/biodm.schemas.group.rst.txt
@@ -0,0 +1,7 @@
+biodm.schemas.group module
+==========================
+
+.. automodule:: biodm.schemas.group
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.schemas.k8sinstance.rst.txt b/_sources/biodm/biodm.schemas.k8sinstance.rst.txt
@@ -0,0 +1,7 @@
+biodm.schemas.k8sinstance module
+================================
+
+.. automodule:: biodm.schemas.k8sinstance
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.schemas.listgroup.rst.txt b/_sources/biodm/biodm.schemas.listgroup.rst.txt
@@ -0,0 +1,7 @@
+biodm.schemas.listgroup module
+==============================
+
+.. automodule:: biodm.schemas.listgroup
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.schemas.rst.txt b/_sources/biodm/biodm.schemas.rst.txt
@@ -0,0 +1,21 @@
+biodm.schemas package
+=====================
+
+Submodules
+----------
+
+.. toctree::
+   :maxdepth: 4
+
+   biodm.schemas.group
+   biodm.schemas.k8sinstance
+   biodm.schemas.listgroup
+   biodm.schemas.user
+
+Module contents
+---------------
+
+.. automodule:: biodm.schemas
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.schemas.user.rst.txt b/_sources/biodm/biodm.schemas.user.rst.txt
@@ -0,0 +1,7 @@
+biodm.schemas.user module
+=========================
+
+.. automodule:: biodm.schemas.user
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.scope.rst.txt b/_sources/biodm/biodm.scope.rst.txt
@@ -0,0 +1,7 @@
+biodm.scope module
+==================
+
+.. automodule:: biodm.scope
+   :members:
+   :undoc-members:
+   :show-inheritance:
diff --git a/_sources/biodm/biodm.tables.asso.rst.txt b/_sources/biodm/biodm.tables.asso.rst.txt
@@ -0,0 +1,7 @@
+biodm.tables.asso module
+========================
+
+.. automodule:: biodm.tables.asso
+   :members:
+   :undoc-members:
+   :show-inheritance: