From 9bc161d3d4fba7b724d156afe1aa061f219423a7 Mon Sep 17 00:00:00 2001
From: JeanClement <jeanclement.gallardo@inrae.fr>
Date: Wed, 30 Aug 2023 10:13:48 +0200
Subject: [PATCH 1/6] add user and app auth + add delete and update method for
step
---
paths/steps/delete.yml | 25 +++++++++++++++++++++++++
paths/steps/steps.yml | 8 +++++++-
paths/steps/update.yml | 25 +++++++++++++++++++++++++
schemas/steps/StepUpdate.yml | 16 ++++++++++++++++
4 files changed, 73 insertions(+), 1 deletion(-)
create mode 100644 paths/steps/delete.yml
create mode 100644 paths/steps/update.yml
create mode 100644 schemas/steps/StepUpdate.yml
diff --git a/paths/steps/delete.yml b/paths/steps/delete.yml
new file mode 100644
index 0000000..d61871f
--- /dev/null
+++ b/paths/steps/delete.yml
@@ -0,0 +1,25 @@
+tags:
+ - Pathways
+summary: del Pathway
+description: delete for Step
+operationId: delStep
+x-eov-operation-handler: steps
+security:
+ - appAuth: []
+ userAuth: []
+parameters:
+ - name: id
+ in: query
+ description: the id for the Step
+ required: false
+ schema:
+ type: integer
+responses:
+ 200:
+ description: successful operation
+ content:
+ application/json:
+ schema:
+ $ref: ../../schemas/pathways/StepResponse.yml
+ 404:
+ $ref: ../../responses/notFound.yml
\ No newline at end of file
diff --git a/paths/steps/steps.yml b/paths/steps/steps.yml
index 0eb3a12..5b37533 100644
--- a/paths/steps/steps.yml
+++ b/paths/steps/steps.yml
@@ -2,4 +2,10 @@ get:
$ref: get.yml
post:
- $ref: add.yml
\ No newline at end of file
+ $ref: add.yml
+
+delete:
+ $ref: delete.yml
+
+patch:
+ $ref: update.yml
\ No newline at end of file
diff --git a/paths/steps/update.yml b/paths/steps/update.yml
new file mode 100644
index 0000000..5c329a6
--- /dev/null
+++ b/paths/steps/update.yml
@@ -0,0 +1,25 @@
+tags:
+ - Steps
+summary: update Step
+description: update a step for a specific analysis
+operationId: updateSteps
+x-eov-operation-handler: steps
+security:
+ - appAuth: []
+ userAuth: []
+requestBody:
+ content:
+ application/json:
+ schema:
+ type: object
+ items:
+ $ref: '../../schemas/steps/StepUpdate.yml'
+responses:
+ 200:
+ description: success
+ content:
+ application/json:
+ schema:
+ $ref: ../../schemas/steps/StepResponse.yml
+ 404:
+ $ref: ../../responses/notFound.yml
\ No newline at end of file
diff --git a/schemas/steps/StepUpdate.yml b/schemas/steps/StepUpdate.yml
new file mode 100644
index 0000000..72f6b51
--- /dev/null
+++ b/schemas/steps/StepUpdate.yml
@@ -0,0 +1,16 @@
+type: object
+description: "Update object for steps"
+properties:
+ id:
+ description: "id of the step in the MetExplore database"
+ type: integer
+ format: int64
+ example: 10
+ column:
+ description: "Column name to update"
+ type: string
+ example: "Name"
+ value:
+ description: "New value for the column"
+ type: string
+ example: "Glutamate"
\ No newline at end of file
--
GitLab
From edd2cf1a1227ef1fa7e72797c96353974633c9a4 Mon Sep 17 00:00:00 2001
From: JeanClement <jeanclement.gallardo@inrae.fr>
Date: Wed, 30 Aug 2023 10:16:29 +0200
Subject: [PATCH 2/6] fix path for stepresponse
---
paths/steps/delete.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/paths/steps/delete.yml b/paths/steps/delete.yml
index d61871f..43efdf3 100644
--- a/paths/steps/delete.yml
+++ b/paths/steps/delete.yml
@@ -20,6 +20,6 @@ responses:
content:
application/json:
schema:
- $ref: ../../schemas/pathways/StepResponse.yml
+ $ref: ../../schemas/steps/StepResponse.yml
404:
$ref: ../../responses/notFound.yml
\ No newline at end of file
--
GitLab
From 32ca0334f89434c9fa30577d91cadf1121dbdfd0 Mon Sep 17 00:00:00 2001
From: Ludovic Cottret <ludovic.cottret@inra.fr>
Date: Wed, 30 Aug 2023 11:35:31 +0200
Subject: [PATCH 3/6] Apply 1 suggestion(s) to 1 file(s)
---
paths/steps/delete.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/paths/steps/delete.yml b/paths/steps/delete.yml
index 43efdf3..226f88a 100644
--- a/paths/steps/delete.yml
+++ b/paths/steps/delete.yml
@@ -1,5 +1,5 @@
tags:
- - Pathways
+ - Steps
summary: del Pathway
description: delete for Step
operationId: delStep
--
GitLab
From 1e978a81b7fe3a12ace0c298103126217e04cc70 Mon Sep 17 00:00:00 2001
From: Ludovic Cottret <ludovic.cottret@inra.fr>
Date: Wed, 30 Aug 2023 11:35:56 +0200
Subject: [PATCH 4/6] Apply 1 suggestion(s) to 1 file(s)
---
paths/steps/delete.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/paths/steps/delete.yml b/paths/steps/delete.yml
index 226f88a..ca76096 100644
--- a/paths/steps/delete.yml
+++ b/paths/steps/delete.yml
@@ -1,6 +1,6 @@
tags:
- Steps
-summary: del Pathway
+summary: Remove a step
description: delete for Step
operationId: delStep
x-eov-operation-handler: steps
--
GitLab
From 33d38c53ad6cb0ff9fd7a8f8205a4a5fbf80b930 Mon Sep 17 00:00:00 2001
From: Ludovic Cottret <ludovic.cottret@inra.fr>
Date: Wed, 30 Aug 2023 11:36:06 +0200
Subject: [PATCH 5/6] Apply 1 suggestion(s) to 1 file(s)
---
paths/steps/delete.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/paths/steps/delete.yml b/paths/steps/delete.yml
index ca76096..2afdd58 100644
--- a/paths/steps/delete.yml
+++ b/paths/steps/delete.yml
@@ -1,7 +1,7 @@
tags:
- Steps
summary: Remove a step
-description: delete for Step
+description: delete a Step in an analysis
operationId: delStep
x-eov-operation-handler: steps
security:
--
GitLab
From 7f4296ad3747f11c24964c9686c73eab89d2ff1b Mon Sep 17 00:00:00 2001
From: JeanClement <jeanclement.gallardo@inrae.fr>
Date: Wed, 30 Aug 2023 15:09:23 +0200
Subject: [PATCH 6/6] fix auth for steps
---
paths/steps/add.yml | 3 +++
paths/steps/get.yml | 3 +++
2 files changed, 6 insertions(+)
diff --git a/paths/steps/add.yml b/paths/steps/add.yml
index b830653..5eb04e2 100644
--- a/paths/steps/add.yml
+++ b/paths/steps/add.yml
@@ -4,6 +4,9 @@ summary: add step
description: add a step for a specific analysis
operationId: addSteps
x-eov-operation-handler: steps
+security:
+ - appAuth: []
+ userAuth: []
requestBody:
content:
application/json:
diff --git a/paths/steps/get.yml b/paths/steps/get.yml
index 086ff15..23fe17e 100644
--- a/paths/steps/get.yml
+++ b/paths/steps/get.yml
@@ -4,6 +4,9 @@ summary: Get specific step of an analysis
operationId: getSteps
x-eov-operation-handler: steps
description: Get a specific step of an analysis
+security:
+ - appAuth: []
+ userAuth: []
parameters:
- name: id
in: query
--
GitLab