restructure docs and tests

elixir-cloud-aai · May 11, 2024 · 7ef9206 · 7ef9206
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diff --git a/README.md b/README.md
@@ -1,7 +1,7 @@
-<img src="deployment/documentation/img/TESKlogowfont.png" height="200">
+<img src="images/TESKlogowfont.png" height="200">
 
 
-An implementation of a task execution engine based on the [TES standard](https://github.com/ga4gh/task-execution-schemas) running on `Kubernetes`. For more details on `TES`, see the (very) brief [introduction to TES](deployment/documentation/tesintro.md).
+An implementation of a task execution engine based on the [TES standard](https://github.com/ga4gh/task-execution-schemas) running on `Kubernetes`. For more details on `TES`, see the (very) brief [introduction to TES](docs/tesintro.md).
 
 For organisational reasons, this project is split into 3 repositories:
 - This one, which contains documentation and deployment files
@@ -19,7 +19,7 @@ The technical documentation is available in the [documentation](deployment/docum
 As a diagram:
 
 <!-- TODO: Change the image remove tomcat, change naming etc -->
-![TESK architecture](deployment/documentation/img/architecture.png)
+![TESK architecture](images/architecture.png)
 
 **Description**: The first pod in the task lifecycle is the API pod, a pod which runs a web server (`Tomcat`) and exposes the `TES` specified endpoints. It consumes `TES` requests, validates them and translates them to `Kubernetes` jobs. The API pod then creates a `task controller` pod, or `taskmaster`. 
 

diff --git a/deployment/charts/tesk/README.md b/deployment/charts/tesk/README.md
@@ -82,5 +82,5 @@ See [`values.yaml`](values.yaml) for default values.
 | ingress.rules| boolean | Apply or not the ingress rule |
 | ingress.ingressClassName | string | Name of the Ingress Class |
 | ingress.path | string |  |
-| ingress.tls_secret_name | string |  If no TLS secret name configured, TLS will be switched off. A template can be found at [deployment/tls_secret_name.yml-TEMPLATE](deployment/tls_secret_name.yml-TEMPLATE). If you are using cert-manager the secret will be created automatically.|
+| ingress.tls_secret_name | string |  If no TLS secret name configured, TLS will be switched off. A template can be found at [tls_secret_name.yml-TEMPLATE](tls_secret_name.yml-TEMPLATE). If you are using cert-manager the secret will be created automatically.|
 | ingress.annotations | string | Annotations for the ingress rules |
diff --git a/deployment/examples/inputFile.json → docs/examples/inputFile.json b/deployment/examples/inputFile.json → docs/examples/inputFile.json
diff --git a/deployment/examples/inputHelloWorld.json → docs/examples/inputHelloWorld.json b/deployment/examples/inputHelloWorld.json → docs/examples/inputHelloWorld.json
diff --git a/deployment/examples/inputHttp.json → docs/examples/inputHttp.json b/deployment/examples/inputHttp.json → docs/examples/inputHttp.json
diff --git a/deployment/examples/localftp/taskWithIO.json → docs/examples/localftp/taskWithIO.json b/deployment/examples/localftp/taskWithIO.json → docs/examples/localftp/taskWithIO.json
diff --git a/deployment/examples/resources/cpu.json → docs/examples/resources/cpu.json b/deployment/examples/resources/cpu.json → docs/examples/resources/cpu.json
diff --git a/...amples/resources/more_cpu_than_nodes.json → ...amples/resources/more_cpu_than_nodes.json b/...amples/resources/more_cpu_than_nodes.json → ...amples/resources/more_cpu_than_nodes.json
diff --git a/deployment/examples/taskCreate → docs/examples/taskCreate b/deployment/examples/taskCreate → docs/examples/taskCreate
diff --git a/deployment/examples/taskList → docs/examples/taskList b/deployment/examples/taskList → docs/examples/taskList
diff --git a/deployment/examples/transferPvc/Readme.md → docs/examples/transferPvc/Readme.md b/deployment/examples/transferPvc/Readme.md → docs/examples/transferPvc/Readme.md
diff --git a/deployment/examples/transferPvc/clean → docs/examples/transferPvc/clean b/deployment/examples/transferPvc/clean → docs/examples/transferPvc/clean
diff --git a/...oyment/examples/transferPvc/minikubeStart → docs/examples/transferPvc/minikubeStart b/...oyment/examples/transferPvc/minikubeStart → docs/examples/transferPvc/minikubeStart
diff --git a/deployment/examples/transferPvc/pod.yaml → docs/examples/transferPvc/pod.yaml b/deployment/examples/transferPvc/pod.yaml → docs/examples/transferPvc/pod.yaml
diff --git a/deployment/examples/transferPvc/pv.yaml → docs/examples/transferPvc/pv.yaml b/deployment/examples/transferPvc/pv.yaml → docs/examples/transferPvc/pv.yaml
diff --git a/deployment/examples/transferPvc/pvc.yaml → docs/examples/transferPvc/pvc.yaml b/deployment/examples/transferPvc/pvc.yaml → docs/examples/transferPvc/pvc.yaml
diff --git a/doc/taskmaster_architecture.png → docs/taskmaster_architecture.png b/doc/taskmaster_architecture.png → docs/taskmaster_architecture.png
diff --git a/deployment/documentation/tesintro.md → docs/tesintro.md b/deployment/documentation/tesintro.md → docs/tesintro.md
diff --git a/deployment/documentation/img/TESKlogo.png → images/TESKlogo.png b/deployment/documentation/img/TESKlogo.png → images/TESKlogo.png
diff --git a/...yment/documentation/img/TESKlogowfont.png → images/TESKlogowfont.png b/...yment/documentation/img/TESKlogowfont.png → images/TESKlogowfont.png
diff --git a/...oyment/documentation/img/architecture.png → images/architecture.png b/...oyment/documentation/img/architecture.png → images/architecture.png
diff --git a/...ocumentation/img/project-architecture.png → images/project-architecture.png b/...ocumentation/img/project-architecture.png → images/project-architecture.png
diff --git a/tests/unit_test/service/FilerClassTest.py → tests/test_unit/service/FilerClassTest.py b/tests/unit_test/service/FilerClassTest.py → tests/test_unit/service/FilerClassTest.py
diff --git a/tests/unit_test/service/TaskMasterTest.py → tests/test_unit/service/TaskMasterTest.py b/tests/unit_test/service/TaskMasterTest.py → tests/test_unit/service/TaskMasterTest.py
diff --git a/tests/unit_test/service/assertThrows.py → tests/test_unit/service/assertThrows.py b/tests/unit_test/service/assertThrows.py → tests/test_unit/service/assertThrows.py
diff --git a/...t/service/resources/copyDirTest/src/3.txt → ...t/service/resources/copyDirTest/src/3.txt b/...t/service/resources/copyDirTest/src/3.txt → ...t/service/resources/copyDirTest/src/3.txt
diff --git a/...service/resources/copyDirTest/src/a/1.txt → ...service/resources/copyDirTest/src/a/1.txt b/...service/resources/copyDirTest/src/a/1.txt → ...service/resources/copyDirTest/src/a/1.txt
diff --git a/...service/resources/copyDirTest/src/a/2.txt → ...service/resources/copyDirTest/src/a/2.txt b/...service/resources/copyDirTest/src/a/2.txt → ...service/resources/copyDirTest/src/a/2.txt
diff --git a/...nit_test/service/resources/inputFile.json → ...est_unit/service/resources/inputFile.json b/...nit_test/service/resources/inputFile.json → ...est_unit/service/resources/inputFile.json
diff --git a/...s/unit_test/service/resources/test_config → ...s/test_unit/service/resources/test_config b/...s/unit_test/service/resources/test_config → ...s/test_unit/service/resources/test_config
diff --git a/tests/unit_test/service/test_filer.py → tests/test_unit/service/test_filer.py b/tests/unit_test/service/test_filer.py → tests/test_unit/service/test_filer.py
diff --git a/...nit_test/service/test_filer_ftp_pytest.py → ...est_unit/service/test_filer_ftp_pytest.py b/...nit_test/service/test_filer_ftp_pytest.py → ...est_unit/service/test_filer_ftp_pytest.py
diff --git a/...test/service/test_filer_general_pytest.py → ...unit/service/test_filer_general_pytest.py b/...test/service/test_filer_general_pytest.py → ...unit/service/test_filer_general_pytest.py
diff --git a/...it_test/service/test_filer_http_pytest.py → ...st_unit/service/test_filer_http_pytest.py b/...it_test/service/test_filer_http_pytest.py → ...st_unit/service/test_filer_http_pytest.py
diff --git a/tests/unit_test/service/test_job.py → tests/test_unit/service/test_job.py b/tests/unit_test/service/test_job.py → tests/test_unit/service/test_job.py
diff --git a/tests/unit_test/service/test_s3_filer.py → tests/test_unit/service/test_s3_filer.py b/tests/unit_test/service/test_s3_filer.py → tests/test_unit/service/test_s3_filer.py
diff --git a/tests/unit_test/service/test_taskmaster.py → tests/test_unit/service/test_taskmaster.py b/tests/unit_test/service/test_taskmaster.py → tests/test_unit/service/test_taskmaster.py