build(retrocookie): reflect updates to source template from generated project 'element-data-model'

Author: Joseph Burling

datajoint-workflow/cookiecutter.json

@@ -3,8 +3,7 @@
     "author_email": "{{cookiecutter.author_name|words(1)|lower}}@datajoint.com",
     "organization": "Science Institute",
     "workflow": "Brain Lab",
-    "__org": "{{cookiecutter.organization|slugify}}",
-    "__wf": "{{cookiecutter.workflow|slugify}}",
+    "pkg_type": "SciOps",
     "github_user": [
         "dj-sciops",
         "datajoint",
@@ -14,7 +13,7 @@
         "yambottle",
         "other-gh-username"
     ],
-    "github_repo": "{{cookiecutter.__org}}_{{cookiecutter.__wf}}",
+    "github_repo": "{{cookiecutter.organization|slugify}}_{{cookiecutter.workflow|slugify}}",
     "python_version": [
         "3.9",
         "3.10",
@@ -23,9 +22,8 @@
     "_pkg_version": "0.0.1",
     "homepage_url": "https://github.com/{{cookiecutter.github_user}}",
     "docs_url": "https://{{cookiecutter.github_user}}.github.io/{{cookiecutter.github_repo}}",
-    "__project_name": "sciops-{{cookiecutter.__wf}}",
-    "__pkg_import_name": "sciops{{cookiecutter.__wf|slugify(separator='')}}",
-    "__pkg_import_sc_name": "sciops_{{cookiecutter.__wf|slugify(separator='_')}}",
+    "__project_name": "{{cookiecutter.pkg_type|lower}}-{{cookiecutter.workflow|slugify}}",
+    "__pkg_import_name": "{{cookiecutter.pkg_type|lower}}_{{cookiecutter.workflow|slugify(separator='_')}}",
     "_djconfig": "dj_local_conf.json",
     "_copy_without_render": [
         "docs/assets/*.svg",

datajoint-workflow/{{cookiecutter.github_repo}}/README.md

@@ -4,13 +4,13 @@ _View the latest documentation site here:_ [{{cookiecutter.docs_url}}]({{cookiec
 
 # `{{cookiecutter.__project_name}}`
 
-_A DataJoint SciOps Workflow for {{cookiecutter.organization}}, {{cookiecutter.workflow}}_
+_A {{cookiecutter.workflow}} {{cookiecutter.pkg_type}} for {{cookiecutter.organization}}_
 
 ## Description
 
 TODO: finish description.
 
-Welcome to the DataJoint SciOps service!
+Welcome to the {{cookiecutter.organization}} {{cookiecutter.pkg_type}} service!
 
 This service is designed for a user to upload their raw [_modality type_] data acquired with [_description_], which will then be automatically processed with [_..._]. The service also provides online Jupyter notebooks to visualize the results.
 
@@ -21,7 +21,7 @@ This [workflow](https://github.com/{{cookiecutter.github_user}}/{{cookiecutter.g
 
 Please follow the steps listed below to begin working with the platform.
 
-## Using the SciOps Services
+## Using the {{cookiecutter.pkg_type}} Services
 
 ### Account Setup
 
@@ -95,12 +95,12 @@ DataJoint LabBook displays data from your database.
 <!--intro-end-->
 <!--install-start-->
 
-Thank you for using the DataJoint SciOps cloud-based platform.
+Thank you for using the {{cookiecutter.organization}} {{cookiecutter.pkg_type}} cloud-based platform.
 
 ## Installation
 
 !!! note
-    The following is intended for developers and is not required for users of the SciOps services.
+    The following is intended for developers and is not required for users of the {{cookiecutter.pkg_type}} services.
 
 ### 1. Clone the repository
 

datajoint-workflow/{{cookiecutter.github_repo}}/docker/.devcontainer/devcontainer.json

@@ -36,7 +36,7 @@
 			"docker"
 		],
 		"djcookiecutter.condaExec": "mamba",
-		"djcookiecutter.localPath": "${env:HOME}/Documents/{{cookiecutter.__org}}/dj-cookiecutter",
+		"djcookiecutter.localPath": "${env:HOME}/Documents/datajoint/dj-cookiecutter",
 		"files.exclude": {
 			"**/.DS_Store": true,
 			"**/.git": true,
@@ -85,5 +85,5 @@
 		"python.testing.pytestEnabled": true
 	},
 	"shutdownAction": "none",
-	"workspaceFolder": "/home/{{cookiecutter.github_user}}/{{cookiecutter.__org}}_{{cookiecutter.__wf}}"
+	"workspaceFolder": "/home/{{cookiecutter.github_user}}/{{cookiecutter.github_repo}}"
 }

datajoint-workflow/{{cookiecutter.github_repo}}/docker/README.md

@@ -56,7 +56,7 @@ cd docker
 docker-compose -f docker-compose-codebook_env.yaml up --detach --force-recreate --remove-orphans --build
 ```
 
-## Standard Workflow Environment
+## Standard {{cookiecutter.pkg_type}} Environment
 
 ... 
 

datajoint-workflow/{{cookiecutter.github_repo}}/docker/devcontainer.Dockerfile

@@ -3,7 +3,7 @@
 ARG PROJECT_NAME={{cookiecutter.__project_name}}
 ARG IMPORT_NAME={{cookiecutter.__pkg_import_name}}
 ARG REPO_OWNER={{cookiecutter.github_user}}
-ARG REPO_NAME={{cookiecutter.__org}}_{{cookiecutter.__wf}}
+ARG REPO_NAME={{cookiecutter.github_repo}}
 ARG HOST_UID=1000
 ARG HOST_GID=1000
 ARG USER_SUDO=true
@@ -92,7 +92,7 @@ USER ${NEW_USER_NAME}:${NEW_USER_GROUP}
 RUN <<-EOF
 	rm -rf .nox .git .mypy_cache .pytest_cache site build
 	cp -f /usr/local/src/.datajoint_config.json ../.datajoint_config.json
-	mkdir -p .nox src/{{cookiecutter.__pkg_import_sc_name}}.egg-info \
+	mkdir -p .nox src/{{cookiecutter.__pkg_import_name}}.egg-info \
 		../.vscode-server/extensions ../.vscode-server-insiders/extensions
 	chmod -R 2775 ../.vscode-server*
 	source activate
@@ -117,7 +117,7 @@ ENV TZ=${TIMEZONE}
 ENV LANG=en_US.UTF-8
 ENV LC_ALL=en_US.UTF-8
 LABEL org.opencontainers.image.authors "Joseph M. Burling"
-LABEL org.opencontainers.image.title "{{cookiecutter.__org}}_{{cookiecutter.__wf}}"
+LABEL org.opencontainers.image.title "{{cookiecutter.github_repo}}"
 LABEL org.opencontainers.image.description "A development container with a debian-based python environment"
 LABEL org.opencontainers.image.version "$WORKFLOW_VERSION"
 LABEL org.opencontainers.image.created "$IMAGE_DATE"

datajoint-workflow/{{cookiecutter.github_repo}}/docker/docker-compose-devcontainer_env.yaml

@@ -42,7 +42,7 @@ services:
       - vscode:/home/${REPO_OWNER}/.vscode-server/extensions
       - vscode-insiders:/home/${REPO_OWNER}/.vscode-server-insiders/extensions
       - /home/${REPO_OWNER}/${REPO_NAME}/.nox
-      - /home/${REPO_OWNER}/${REPO_NAME}/src/{{cookiecutter.__pkg_import_sc_name}}.egg-info
+      - /home/${REPO_OWNER}/${REPO_NAME}/src/{{cookiecutter.__pkg_import_name}}.egg-info
 
   # MySQL GUI --------------
   # http://localhost:8087/

datajoint-workflow/{{cookiecutter.github_repo}}/mkdocs.yml

@@ -1,5 +1,5 @@
-site_name: "Datajoint Workflow {{cookiecutter.workflow}}"
-site_description: "A DataJoint SciOps Workflow for {{cookiecutter.organization}}, {{cookiecutter.workflow}}"
+site_name: "{{cookiecutter.organization}} {{cookiecutter.pkg_type}} - {{cookiecutter.workflow}}"
+site_description: "A {{cookiecutter.workflow}} {{cookiecutter.pkg_type}} for {{cookiecutter.organization}}"
 site_author: "{{cookiecutter.author_name}}"
 repo_url: "https://github.com/{{cookiecutter.github_user}}/{{cookiecutter.github_repo}}"
 edit_uri: ""

datajoint-workflow/{{cookiecutter.github_repo}}/pyproject.toml

@@ -4,7 +4,7 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "{{cookiecutter.__project_name}}"
-description = "A DataJoint SciOps Workflow for {{cookiecutter.organization}}, {{cookiecutter.workflow}}"
+description = "A {{cookiecutter.workflow}} {{cookiecutter.pkg_type}} for {{cookiecutter.organization}}"
 readme = "README.md"
 requires-python = ">={{cookiecutter.python_version}}"
 license = { file = "LICENSE" }

datajoint-workflow/{{cookiecutter.github_repo}}/src/{{cookiecutter.__pkg_import_name}}/__init__.py

@@ -1,6 +1,5 @@
 """`{{cookiecutter.__project_name}}`:
-_A DataJoint SciOps Workflow for
-{{cookiecutter.organization}}, {{cookiecutter.workflow}}_
+_A {{cookiecutter.workflow}} {{cookiecutter.pkg_type}} for {{cookiecutter.organization}}_
 """
 
 import logging