MAAP-Project · rtapella · Oct 11, 2023 · Jul 4, 2023 · Aug 8, 2023 · Aug 14, 2023
diff --git a/.readthedocs.yml b/.readthedocs.yml
@@ -12,7 +12,6 @@ sphinx:
 python:
    install:
       - requirements: requirements.txt
-   system_packages: false
 
 formats:
    - epub

diff --git a/README.md b/README.md
@@ -41,8 +41,6 @@ To run the documentation notebook code, you must make several configurations.
 
 Install JupyterHub. 
 
-Install the [ipycmc](https://github.com/MAAP-Project/maap-jupyter-ide/tree/master/ipycmc) extension.
-
 Install the `maap-py` library.
 
 1. Switch to your virtual environment that you wish to install in.

diff --git a/docs/source/_static/algo_reg/algo_reg_access.png b/docs/source/_static/algo_reg/algo_reg_access.png
diff --git a/docs/source/_static/algo_reg/algo_reg_reg_ci.png b/docs/source/_static/algo_reg/algo_reg_reg_ci.png
diff --git a/docs/source/_static/algo_reg/algo_reg_reg_general.png b/docs/source/_static/algo_reg/algo_reg_reg_general.png
diff --git a/docs/source/_static/algo_reg/algo_reg_reg_inputs.png b/docs/source/_static/algo_reg/algo_reg_reg_inputs.png
diff --git a/docs/source/_static/approved_asf_apps.png b/docs/source/_static/approved_asf_apps.png
diff --git a/docs/source/_static/create_workspace_advanced.png b/docs/source/_static/create_workspace_advanced.png
diff --git a/docs/source/_static/create_workspace_basic.png b/docs/source/_static/create_workspace_basic.png
diff --git a/docs/source/_static/create_workspace.png → ...ource/_static/create_workspace_memory.png b/docs/source/_static/create_workspace.png → ...ource/_static/create_workspace_memory.png
diff --git a/docs/source/_static/data_request_community_repo.png b/docs/source/_static/data_request_community_repo.png
diff --git a/docs/source/_static/data_request_form.png b/docs/source/_static/data_request_form.png
diff --git a/docs/source/_static/data_request_issues.png b/docs/source/_static/data_request_issues.png
diff --git a/docs/source/_static/data_request_selector.png b/docs/source/_static/data_request_selector.png
diff --git a/docs/source/_static/data_request_submitted.png b/docs/source/_static/data_request_submitted.png
diff --git a/docs/source/_static/egress_control_asf.png b/docs/source/_static/egress_control_asf.png
diff --git a/docs/source/_static/faq_images/share_workspace_1.png b/docs/source/_static/faq_images/share_workspace_1.png
diff --git a/docs/source/_static/faq_images/share_workspace_2.png b/docs/source/_static/faq_images/share_workspace_2.png
diff --git a/docs/source/_static/faq_images/share_workspace_3.png b/docs/source/_static/faq_images/share_workspace_3.png
diff --git a/docs/source/_static/faq_images/share_workspace_running_kernels.png b/docs/source/_static/faq_images/share_workspace_running_kernels.png
diff --git a/docs/source/_static/faq_images/share_workspace_select.png b/docs/source/_static/faq_images/share_workspace_select.png
diff --git a/docs/source/_static/faq_images/share_workspace_shared.png b/docs/source/_static/faq_images/share_workspace_shared.png
diff --git a/docs/source/_static/faq_images/share_workspace_sharing.png b/docs/source/_static/faq_images/share_workspace_sharing.png
diff --git a/docs/source/_static/faq_images/workspace_name_1.png b/docs/source/_static/faq_images/workspace_name_1.png
diff --git a/docs/source/_static/faq_images/workspace_name_2.png b/docs/source/_static/faq_images/workspace_name_2.png
diff --git a/docs/source/_static/faq_images/workspace_name_3.png b/docs/source/_static/faq_images/workspace_name_3.png
diff --git a/docs/source/_static/faq_images/workspace_name_creation.png b/docs/source/_static/faq_images/workspace_name_creation.png
diff --git a/docs/source/_static/faq_images/workspace_name_existing_1.png b/docs/source/_static/faq_images/workspace_name_existing_1.png
diff --git a/docs/source/_static/faq_images/workspace_name_existing_2.png b/docs/source/_static/faq_images/workspace_name_existing_2.png
diff --git a/docs/source/_static/launch_custom_kernel_conda.png b/docs/source/_static/launch_custom_kernel_conda.png
diff --git a/docs/source/_static/launch_registered_kernel_custom_conda.png b/docs/source/_static/launch_registered_kernel_custom_conda.png
diff --git a/docs/source/_static/maap_libs/maap_libs_code.png b/docs/source/_static/maap_libs/maap_libs_code.png
diff --git a/docs/source/_static/pycmc_view.png b/docs/source/_static/pycmc_view.png
diff --git a/docs/source/_static/search_by_spatial_circle.png b/docs/source/_static/search_by_spatial_circle.png
diff --git a/docs/source/_static/share_data.png b/docs/source/_static/share_data.png
diff --git a/docs/source/_static/share_data_1.png b/docs/source/_static/share_data_1.png
diff --git a/docs/source/_static/stac_ipyleaflet_add_mosaic.png b/docs/source/_static/stac_ipyleaflet_add_mosaic.png
diff --git a/docs/source/_static/stac_ipyleaflet_add_single_layer.png b/docs/source/_static/stac_ipyleaflet_add_single_layer.png
diff --git a/docs/source/_static/update_project_1.png b/docs/source/_static/update_project_1.png
diff --git a/docs/source/_static/update_project_2.png b/docs/source/_static/update_project_2.png
diff --git a/docs/source/_static/update_project_commit.png b/docs/source/_static/update_project_commit.png
diff --git a/docs/source/_static/update_project_git_login.png b/docs/source/_static/update_project_git_login.png
diff --git a/docs/source/_static/update_project_history.png b/docs/source/_static/update_project_history.png
diff --git a/docs/source/_static/update_project_push.png b/docs/source/_static/update_project_push.png
diff --git a/docs/source/getting_started/running_at_scale.ipynb b/docs/source/getting_started/running_at_scale.ipynb
@@ -78,8 +78,7 @@
     "### The Jobs UI\n",
     "MAAP is configured to run up to 4,000 concurrent jobs. There are two additional ways to run a job: via the Jobs UI in the Launcher, or via a call to the maap-py Python library.\n",
     "\n",
-    "The Jobs UI will let you run and monitor jobs easily. You can find full documentation in the system reference guide for [the Jobs UI](../system_reference_guide/ade_custom_extensions/jobsui.ipynb).\n",
-    "You can also find specific documentation on [how to submit jobs](../system_reference_guide/faq/job_submit.ipynb) and [how to monitor jobs](../system_reference_guide/faq/job_check_status.ipynb) in the System Reference Guide FAQs.\n",
+    "The Jobs UI will let you run and monitor jobs easily. You can find full documentation in the system reference guide for [the Jobs UI](../system_reference_guide/jobsui.ipynb) or [using maap-py](../system_reference_guide/jobs_maappy.ipynb) with Python in the System Reference Guide FAQs.\n",
     "\n",
     "![job_ui_access](../_static/jobs_ui_access.png)\n",
     "\n",

diff --git a/docs/source/getting_started/writing_code.ipynb b/docs/source/getting_started/writing_code.ipynb
@@ -53,28 +53,24 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "### Clone a Test Algorithm with GitHub\n",
+    "### Clone a Repository with GitHub\n",
     "\n",
-    "Any git repository online can be used to host code. In order to register your algorithm with the DPS, the repo must be public. Here is an example algorithm you can use for this getting started guide:\n",
+    "Here is an example repository you can use for this getting started guide:\n",
     "https://github.com/MAAP-Project/dps-unit-test\n",
-    "![Demo GitHub repo](_static/example_alg1.png)\n",
     "\n",
-    "1. Make a new folder for your test algorithm. Open a terminal here (File > New > Terminal or use the blue \"+\" button above the Jupyter file browser).\n",
-    "![New Folder](_static/clone_demo1.png)\n",
-    "\n",
-    "2. Copy the Github clone link from https://github.com/MAAP-Project/dps-unit-test\n",
+    "1. Copy the Github clone link from https://github.com/MAAP-Project/dps-unit-test\n",
     "![Copy .git link](_static/clone_demo2.png)\n",
     "\n",
-    "3. Open the built-in Jupyter Github UI to the left of the file browser. Choose \"Clone a Repository\" and paste in the .git link you copied from the Github repository.\n",
+    "2. Open the built-in Jupyter Github UI to the left of the file browser. Choose \"Clone a Repository\" and paste in the .git link you copied from the Github repository.\n",
     "![Clone a Repository](_static/clone_demo3.png)\n",
     "![Paste .git link](_static/clone_demo4.png)\n",
     "\n",
-    "4. You should see a new folder created with the repo you cloned. If you browse to that folder and open up the Jupyter Github UI again, it will show you some info about that repo.\n",
+    "3. You should see a new folder created with the repo you cloned. If you browse to that folder and open up the Jupyter Github UI again, it will show you some info about that repo.\n",
     "![Algorithm folder was created](_static/clone_demo5.png)\n",
     "![Browse to folder](_static/clone_demo6.png)\n",
     "![Look at Github UI](_static/clone_demo7.png)\n",
     "\n",
-    "5. If you want to make changes to the code and have your own copy of it to register, Clone the code into a public repository in Github or in MAAP Gitlab."
+    "4. If you want to make changes to the code and have your own copy of it to register, clone the code into a public repository in Github or in MAAP Gitlab."
    ]
   },
   {
@@ -215,9 +211,9 @@
    "source": [
     "## Customizing your workspace environment\n",
     "\n",
-    "Your Jupyter workspace has a set of pre-installed libraries, depending on [which Stack you selected](getting_started.ipynb#Creating-a-workspace). If you need libraries that are not pre-installed, we suggest using an environment manager; `mamba` is pre-installed to help with this. \n",
+    "Your Jupyter workspace has a set of pre-installed libraries, depending on [which Stack you selected](getting_started.ipynb#Creating-a-workspace). If you need libraries that are not pre-installed, we suggest using an environment manager; `conda` is pre-installed to help with this. \n",
     "\n",
-    "Full [documentation on configuring mamba](../system_reference_guide/custom-environments.ipynb) (or conda) may be found in the [System Reference Guide](../system_reference.rst).\n"
+    "Full [documentation on configuring conda](../system_reference_guide/custom-environments.ipynb) may be found in the [System Reference Guide](../system_reference.rst).\n"
    ]
   },
   {
@@ -234,7 +230,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "Python 3",
+   "display_name": "Python 3.11.1 64-bit",
    "language": "python",
    "name": "python3"
   },
@@ -248,7 +244,12 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.7.8"
+   "version": "3.11.1"
+  },
+  "vscode": {
+   "interpreter": {
+    "hash": "5c7b89af1651d0b8571dde13640ecdccf7d5a6204171d6ab33e7c296e100e08a"
+   }
   }
  },
  "nbformat": 4,

diff --git a/docs/source/release_notes.rst b/docs/source/release_notes.rst
@@ -9,10 +9,11 @@ Release Notes
 
 
 Added
-^^^^^^
+^^^^^^^^^^^^
 * Added more capacity to the new ADE cluster to support more concurrent users.
+
 Fixed
-^^^^^^
+^^^^^^^^^^^^
 * Error with cursor jumping around in Jupyter & Opening blank notebook error (disable Jupyter collaboration feature): https://github.com/MAAP-Project/Community/issues/735 
 * Nested eclipse che menu error: https://github.com/MAAP-Project/Community/issues/733 (PR: https://github.com/MAAP-Project/maap-workspaces/pull/47)
 * Add Show/Hide Che sidebar extension: https://github.com/MAAP-Project/Community/issues/692 
@@ -21,8 +22,9 @@ Fixed
 * Api_server now present in MAAP() instance (changing use of maapsec): https://github.com/MAAP-Project/Community/issues/781 
 * Open SSL fix: https://github.com/MAAP-Project/Community/issues/737 
 * Update Jupyter server to include API endpoints: https://github.com/MAAP-Project/Community/issues/685 
+
 Changed
-^^^^^^
+^^^^^^^^^^^^
 Removed
-^^^^^^
+^^^^^^^^^^^^
 * Remove ipycmc from default MAAP icon upper left of notebooks: https://github.com/MAAP-Project/Community/issues/779 
diff --git a/docs/source/science/AfriSAR/AfriSAR_AGB.ipynb b/docs/source/science/AfriSAR/AfriSAR_AGB.ipynb