deployment: fix docker file

* Fixes lxml conflict with uwsgi command for the deployment.
* Adds safety exceptions.
* Fixes some small cosmetics in the JSONSchemas.

Co-Authored-by: Johnny Mariéthoz <[email protected]>

Author: jma

Dockerfile.base

@@ -22,11 +22,11 @@
 # and includes Pip, Pipenv, Node.js, NPM and some few standard libraries
 # Invenio usually needs.
 
-FROM python:3.9-slim-bullseye
+FROM python:3.9-slim-bookworm
 
 # require debian packages
 RUN apt-get upgrade -y && apt-get update -y
-RUN apt-get install --no-install-recommends -y git vim-tiny curl gcc g++ pkg-config gnupg libc6-dev libxml2-dev libxmlsec1-dev libxmlsec1-openssl xpdf xpdf-utils ghostscript imagemagick && rm -rf /var/lib/apt/lists/*
+RUN apt-get install --no-install-recommends -y git vim-tiny curl gcc g++ pkg-config gnupg libc6-dev libxmlsec1-openssl xpdf xpdf-utils ghostscript imagemagick && rm -rf /var/lib/apt/lists/*
 RUN sed -i 's/<policy domain="coder" rights="none" pattern="PDF" \/>/<policy domain="coder" rights="read" pattern="PDF" \/>/g' /etc/ImageMagick-6/policy.xml
 RUN pip install --upgrade wheel pip poetry
 

scripts/test

@@ -45,9 +45,15 @@ fi
 #    Vulnerability ID: 70612
 # -> Vulnerability found in flask-cors version 4.0.1
 #    Vulnerability ID: 70624
+# -> Vulnerability found in werkzeug version 2.2.3
+#    Vulnerability ID: 71595
+# -> Vulnerability found in werkzeug version 2.2.3
+#    Vulnerability ID: 71594
+# -> Vulnerability found in urllib3 version 1.26.18
+#    Vulnerability ID: 71608
 
 echo "Check vulnerabilities:"
-safety_exceptions="-i 40459 -i 51668 -i 42194 -i 42852 -i 62019 -i 67599 -i 51457 -i 70624 -i 70612"
+safety_exceptions="-i 40459 -i 51668 -i 42194 -i 42852 -i 62019 -i 67599 -i 51457 -i 70624 -i 70612 -i 71595 -i 71594 -i 71608"
 msg=$(safety check -o text ${safety_exceptions}) || {
   echo "Safety vulnerabilites found for packages:" $(safety check -o bare ${safety_exceptions})
   echo "Run:" "safety check -o screen ${safety_exceptions} | grep -i vulnerability" "for more details"

sonar/modules/documents/jsonschemas/documents/document-v1.0.0_src.json

@@ -247,12 +247,14 @@
         "type": "object",
         "properties": {
           "$ref": {
+            "title": "Organisation",
             "type": "string",
             "pattern": "^https://sonar.ch/api/organisations/.*?$",
             "minLength": 1,
             "widget": {
               "formlyConfig": {
                 "props": {
+                  "hideLabel": true,
                   "remoteOptions": {
                     "type": "organisations"
                   }
@@ -2324,10 +2326,10 @@
     }
   },
   "propertiesOrder": [
+    "organisation",
     "documentType",
     "title",
     "language",
-    "organisation",
     "projects",
     "classification",
     "abstracts",

sonar/modules/organisations/jsonschemas/organisations/organisation-v1.0.0_src.json

@@ -43,7 +43,6 @@
     "description": {
       "title": "Descriptions",
       "type": "array",
-      "minItems": 1,
       "items": {
         "title": "Description",
         "type": "object",
@@ -97,7 +96,6 @@
     "footer": {
       "title": "Footers",
       "type": "array",
-      "minItems": 1,
       "items": {
         "title": "Footer",
         "type": "object",
@@ -226,6 +224,7 @@
       "widget": {
         "formlyConfig": {
           "type": "markdown",
+          "wrappers": ["form-field"],
           "expressions": {
             "hide": "!field.model.isDedicated"
           },
@@ -520,13 +519,13 @@
   "propertiesOrder": [
     "name",
     "code",
+    "description",
+    "arkNAAN",
     "isShared",
     "isDedicated",
+    "allowedIps",
     "serverName",
     "platformName",
-    "arkNAAN",
-    "allowedIps",
-    "description",
     "footer",
     "documentsCustomField1",
     "documentsCustomField2",

sonar/modules/users/jsonschemas/users/user-v1.0.0.json

@@ -43,7 +43,12 @@
       "description": "Date in yyyy-mm-dd format, ex: 1970-01-01",
       "type": "string",
       "format": "date",
-      "pattern": "^[0-9]{4}-(0[1-9]|1[012])-(0[1-9]|[12][0-9]|3[01])$"
+      "pattern": "^[0-9]{4}-(0[1-9]|1[012])-(0[1-9]|[12][0-9]|3[01])$",
+      "widget": {
+        "formlyConfig": {
+          "type": "datepicker"
+        }
+      }
     },
     "email": {
       "title": "Email",
@@ -91,6 +96,7 @@
     },
     "organisation": {
       "type": "object",
+      "title": "Organisation",
       "properties": {
         "$ref": {
           "title": "Organisation",
@@ -107,21 +113,20 @@
           }
         }
       },
-      "required": [
-        "$ref"
-      ]
+      "required": ["$ref"],
+      "widget": {
+        "formlyConfig": {
+          "props": {
+            "hideLabel": true
+          }
+        }
+      }
     },
     "role": {
       "title": "Role",
       "type": "string",
       "minLength": 1,
-      "enum": [
-        "superuser",
-        "admin",
-        "moderator",
-        "submitter",
-        "user"
-      ],
+      "enum": ["superuser", "admin", "moderator", "submitter", "user"],
       "widget": {
         "formlyConfig": {
           "props": {
@@ -172,9 +177,7 @@
           }
         }
       },
-      "required": [
-        "$ref"
-      ]
+      "required": ["$ref"]
     }
   },
   "propertiesOrder": [
@@ -190,11 +193,5 @@
     "postal_code",
     "city"
   ],
-  "required": [
-    "first_name",
-    "last_name",
-    "email",
-    "role",
-    "$schema"
-  ]
-}
+  "required": ["first_name", "last_name", "email", "role", "$schema"]
+}

sonar/resources/projects/jsonschemas/projects/project-v1.0.0_src.json

@@ -264,7 +264,7 @@
         "funding_organisations": {
           "title": "Funding organisations",
           "type": "array",
-          "minItems": 0,
+          "minItems": 1,
           "items": {
             "title": "Funding organisation",
             "type": "object",
@@ -316,6 +316,7 @@
           "type": "object",
           "properties": {
             "$ref": {
+              "title": "Organisation",
               "type": "string",
               "pattern": "^https://sonar.ch/api/organisations/.*?$",
               "widget": {
@@ -334,6 +335,9 @@
           ],
           "widget": {
             "formlyConfig": {
+              "props": {
+                "hideLabel": true
+              },
               "expressions": {
                 "props.required": "true"
               }
@@ -373,11 +377,11 @@
         }
       },
       "propertiesOrder": [
+        "organisation",
         "name",
         "description",
         "startDate",
         "endDate",
-        "organisation",
         "identifiedBy",
         "investigators",
         "funding_organisations"