pyegeria 5.3.3.13.dev4__py3-none-any.whl → 5.3.3.14.dev2__py3-none-any.whl

pyegeria/commands/cat/link-test.py

@@ -0,0 +1,185 @@
+#!/usr/bin/env python3
+"""
+SPDX-License-Identifier: Apache-2.0
+Copyright Contributors to the ODPi Egeria project.
+
+List certification types
+
+
+A simple display for certification types
+"""
+import argparse
+import os
+import sys
+import time
+import json
+
+from rich import box
+from rich.console import Console
+from rich.prompt import Prompt
+from rich.markdown import Markdown
+from rich.table import Table
+from rich.text import Text
+
+from pyegeria import (
+    InvalidParameterException,
+    PropertyServerException,
+    UserNotAuthorizedException,
+    print_exception_response,
+    AssetCatalog,
+    ClassificationManager,
+)
+
+EGERIA_METADATA_STORE = os.environ.get("EGERIA_METADATA_STORE", "active-metadata-store")
+EGERIA_KAFKA_ENDPOINT = os.environ.get("KAFKA_ENDPOINT", "localhost:9092")
+EGERIA_PLATFORM_URL = os.environ.get("EGERIA_PLATFORM_URL", "https://localhost:9443")
+EGERIA_VIEW_SERVER = os.environ.get("EGERIA_VIEW_SERVER", "view-server")
+EGERIA_VIEW_SERVER_URL = os.environ.get(
+    "EGERIA_VIEW_SERVER_URL", "https://localhost:9443"
+)
+EGERIA_INTEGRATION_DAEMON = os.environ.get("INTEGRATION_DAEMON", "integration-daemon")
+EGERIA_ADMIN_USER = os.environ.get("ADMIN_USER", "garygeeke")
+EGERIA_ADMIN_PASSWORD = os.environ.get("ADMIN_PASSWORD", "secret")
+EGERIA_USER = os.environ.get("EGERIA_USER", "erinoverview")
+EGERIA_USER_PASSWORD = os.environ.get("EGERIA_USER_PASSWORD", "secret")
+EGERIA_JUPYTER = bool(os.environ.get("EGERIA_JUPYTER", "False"))
+EGERIA_WIDTH = int(os.environ.get("EGERIA_WIDTH", "200"))
+
+
+disable_ssl_warnings = True
+
+
+def display_certifications(
+    search_string: str,
+    server: str,
+    url: str,
+    username: str,
+    user_password: str,
+    time_out: int = 60,
+    jupyter: bool = EGERIA_JUPYTER,
+    width: int = EGERIA_WIDTH,
+):
+    console = Console(width=width, force_terminal=not jupyter, soft_wrap=True)
+    if (search_string is None) or ((len(search_string) < 3)) and (search_string != "*"):
+        raise ValueError(
+            "Invalid Search String - must be greater than four characters long"
+        )
+    g_client = ClassificationManager(
+        server, url, user_id=username, user_pwd=user_password
+    )
+    token = g_client.create_egeria_bearer_token(username, user_password)
+
+    def generate_table(search_string: str = None) -> Table:
+        """Make a new table."""
+        table = Table(
+            title=f"Certifications Types  @ {time.asctime()}",
+            header_style="white on dark_blue",
+            style="bold white on black",
+            row_styles=["bold white on black"],
+            title_style="bold white on black",
+            caption_style="white on black",
+            show_lines=True,
+            box=box.ROUNDED,
+            caption=f"View Server '{server}' @ Platform - {url}",
+            expand=True,
+        )
+        table.add_column("Title", max_width=15)
+        table.add_column("summary")
+        table.add_column("domainID")
+        table.add_column("Unique Name", width=38)
+        table.add_column("Scope", width=38)
+        # table.add_column("Qualified Name",max_width=15)
+        table.add_column("Description",width=38)
+        table.add_column("Details")
+
+
+        certs = g_client.get_elements(search_string, page_size=100, time_out=time_out)
+        if type(certs) is str:
+            return table
+
+        for element in certs:
+            properties = element["properties"]
+            summary = properties.get("summary", "---")
+            domain = properties.get("domainIdentifier", "---")
+            unique_name = properties.get("qualifiedName", "---")
+            scope = properties.get("scope", "---")
+            description = properties.get("description", "---")
+            details = properties.get("details", "---")
+            title = properties.get("title", "---")
+            cert_guid = element["elementHeader"]["guid"]
+
+            related = g_client.get_related_elements(cert_guid)
+            if (len(related) > 0) and (type(related) is list):
+                rel_md = ""
+                for rel in related:
+                    rel_type = rel["relationshipHeader"]["type"]["typeName"]
+                    rel_element_props = rel["relatedElement"]["properties"]
+                    rel_el_md = f"* Rel Type: {rel_type}\n"
+                    for key in rel_element_props.keys():
+                        rel_el_md += f"* {key}: {rel_element_props[key]}\n"
+                    rel_md += f"----\n{rel_el_md}\n"
+            else:
+                rel_md = "---"
+
+
+            unique_name = "Visit my [link=https://www.willmcgugan.com]blog[/link]!"
+            scope = Text("[link=https://egeria-project.org]Egeria[/link]")
+            description = Markdown('[egeria]("https://egeria-project.org")')
+            details = "https://pdr-associates.com"
+            table.add_row(
+                title, summary, domain, unique_name, scope, description, details
+            )
+
+        g_client.close_session()
+
+        return table
+
+    try:
+        # with Live(generate_table(), refresh_per_second=4, screen=True) as live:
+        #     while True:
+        #         time.sleep(2)
+        #         live.update(generate_table())
+
+        with console.pager(styles=True):
+            console.print(generate_table(search_string), soft_wrap=True)
+
+    except (
+        InvalidParameterException,
+        PropertyServerException,
+        UserNotAuthorizedException,
+    ) as e:
+        console.print_exception()
+        sys.exit(1)
+
+    except ValueError as e:
+        console.print(
+            f"\n\n====> Invalid Search String - must be greater than four characters long"
+        )
+        sys.exit(1)
+
+
+def main():
+    parser = argparse.ArgumentParser()
+    parser.add_argument("--server", help="Name of the server to display status for")
+    parser.add_argument("--url", help="URL Platform to connect to")
+    parser.add_argument("--userid", help="User Id")
+    parser.add_argument("--password", help="User Password")
+    parser.add_argument("--time_out", help="Time Out")
+
+    args = parser.parse_args()
+
+    server = args.server if args.server is not None else EGERIA_VIEW_SERVER
+    url = args.url if args.url is not None else EGERIA_PLATFORM_URL
+    userid = args.userid if args.userid is not None else EGERIA_USER
+    user_pass = args.password if args.password is not None else EGERIA_USER_PASSWORD
+    time_out = args.time_out if args.time_out is not None else 60
+    try:
+        # search_string = Prompt.ask("Enter an asset search string:", default="*")
+        search_string = "CertificationType"
+        display_certifications(search_string, server, url, userid, user_pass, time_out)
+    except KeyboardInterrupt:
+        pass
+
+
+if __name__ == "__main__":
+    main()

pyegeria/commands/tech/list_solution_blueprints2.py

@@ -93,6 +93,7 @@ def blueprint_list(
 
             bp_components = bp.get("solutionComponents",[])
             comp_md=""
+            first_comp = True
             for component in bp_components:
                 comp = component.get("solutionComponent","")
                 if isinstance(comp,dict) is False:
@@ -111,11 +112,14 @@ def blueprint_list(
                     for prop in comp_actor_props.keys():
                         comp_actor_props_md += f"* {prop}: {comp_actor_props[prop]}\n"
                     comp_actors_list += comp_actor_props_md
-
+                if first_comp:
+                    first_comp = False
+                else:
+                    comp_md += "\n\n---\n\n"
                 comp_md = f"Solution Component {comp_name}\n\n"
                 comp_md += f"* Description: {comp_description}\n"
                 comp_md += f"* Planned Deployment: {comp_planned}\n"
-                comp_md += f"* Actors: {comp_actors_list}\n---\n"
+                comp_md += f"* Actors: {comp_actors_list}\n"
             comp_out = Markdown(comp_md)
             table.add_row(bp_name, bp_unique_name, bp_desc, comp_out)
 

pyegeria/commands/tech/work/mermaid_graphs/Clinical Trial Subject Onboarding.html

@@ -1,12 +1,13 @@
 
+    <!DOCTYPE html>
     <html>
         <head>
           <style type="text/css">
             #mySvgId {
             width: 100%;
-            height: 100%;
-            overflow: hidden;
-            border: 1px solid #ccc;
+            height: 600px;
+            overflow: scroll;
+            border: 2px solid #ccc;
             position: relative;
             margin-bottom: 10px;
             }
@@ -17,7 +18,13 @@
           </style>
         </head>
     
+        <title>Information Supply Chain - Clinical Trial Subject Onboarding </title>
+        <h3 style="text-align: center;">Information Supply Chain - Clinical Trial Subject Onboarding </h3>
+        GUID : 39a035f0-3b2b-45fe-adb8-ee8a19581f6a
+
+    
         <body>
+        
           <div id="graphDiv"></div>
           <script src="https://bumbu.me/svg-pan-zoom/dist/svg-pan-zoom.min.js"></script>
           <script type="module">
@@ -53,31 +60,31 @@
 
 39a035f0-3b2b-45fe-adb8-ee8a19581f6a@{ shape: flip-tri, label: "*Information Supply Chain*
 **Clinical Trial Subject Onboarding**"}
-b5691fb0-7569-43c1-bd4c-11198a11e733@{ shape: text, label: "*Description*
+46a5c6e0-adcd-4459-9eb2-9dfd7ef9aceb@{ shape: text, label: "*Description*
 **Delivering the data necessary to add a person as a subject in a clinical trial.**"}
-39a035f0-3b2b-45fe-adb8-ee8a19581f6a~~~b5691fb0-7569-43c1-bd4c-11198a11e733
-2338ad35-78eb-4920-8003-d522b3cecf6b@{ shape: text, label: "*Purpose*
+39a035f0-3b2b-45fe-adb8-ee8a19581f6a~~~46a5c6e0-adcd-4459-9eb2-9dfd7ef9aceb
+ec855564-e5c6-4b6c-bf6b-20cd67f06b9f@{ shape: text, label: "*Purpose*
 **Ensure patient subject is aware of the process and potential risks in participation.**"}
-b5691fb0-7569-43c1-bd4c-11198a11e733~~~2338ad35-78eb-4920-8003-d522b3cecf6b
-9f146a62-59f4-482b-8384-48b20ca76fa3@{ shape: text, label: "*Purpose*
+46a5c6e0-adcd-4459-9eb2-9dfd7ef9aceb~~~ec855564-e5c6-4b6c-bf6b-20cd67f06b9f
+2d2907d5-dfa1-4c7a-8ffe-cbd706072bd8@{ shape: text, label: "*Purpose*
 **Ensure patient subject has given permission for Coco Pharmaceuticals to acquire, store and process their personal data needed for the clinical trial.**"}
-2338ad35-78eb-4920-8003-d522b3cecf6b~~~9f146a62-59f4-482b-8384-48b20ca76fa3
-bd1d332d-6e86-4953-8f83-b0a03b5e738c@{ shape: text, label: "*Purpose*
+ec855564-e5c6-4b6c-bf6b-20cd67f06b9f~~~2d2907d5-dfa1-4c7a-8ffe-cbd706072bd8
+43a5c89e-3af2-4fd2-89ce-98f06bbed8ac@{ shape: text, label: "*Purpose*
 **Ensure incoming data is validated and catalogued.**"}
-9f146a62-59f4-482b-8384-48b20ca76fa3~~~bd1d332d-6e86-4953-8f83-b0a03b5e738c
-b58f5eba-9cf8-492d-bc86-966611bc7603@{ shape: text, label: "*Purpose*
+2d2907d5-dfa1-4c7a-8ffe-cbd706072bd8~~~43a5c89e-3af2-4fd2-89ce-98f06bbed8ac
+3063dabe-df4f-4841-9cbf-4fddc452b666@{ shape: text, label: "*Purpose*
 **Ensure data and process owners are informed of key milestones and issues requiring attention.**"}
-bd1d332d-6e86-4953-8f83-b0a03b5e738c~~~b58f5eba-9cf8-492d-bc86-966611bc7603
-1fd73811-9f3d-4599-9a22-1300e0931eff@{ shape: text, label: "*Purpose*
+43a5c89e-3af2-4fd2-89ce-98f06bbed8ac~~~3063dabe-df4f-4841-9cbf-4fddc452b666
+2ed89fe6-e28a-48a6-8f37-657efabd0e62@{ shape: text, label: "*Purpose*
 **Ensure the process of data capture and validation is transparent and auditable.**"}
-b58f5eba-9cf8-492d-bc86-966611bc7603~~~1fd73811-9f3d-4599-9a22-1300e0931eff
+3063dabe-df4f-4841-9cbf-4fddc452b666~~~2ed89fe6-e28a-48a6-8f37-657efabd0e62
 style 39a035f0-3b2b-45fe-adb8-ee8a19581f6a color:#FFFFFF, fill:#004563, stroke:#b7c0c7
-style 1fd73811-9f3d-4599-9a22-1300e0931eff color:#000000, fill:#F9F7ED, stroke:#b7c0c7
-style b5691fb0-7569-43c1-bd4c-11198a11e733 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
-style 9f146a62-59f4-482b-8384-48b20ca76fa3 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
-style 2338ad35-78eb-4920-8003-d522b3cecf6b color:#000000, fill:#F9F7ED, stroke:#b7c0c7
-style b58f5eba-9cf8-492d-bc86-966611bc7603 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
-style bd1d332d-6e86-4953-8f83-b0a03b5e738c color:#000000, fill:#F9F7ED, stroke:#b7c0c7`;
+style ec855564-e5c6-4b6c-bf6b-20cd67f06b9f color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 2d2907d5-dfa1-4c7a-8ffe-cbd706072bd8 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 43a5c89e-3af2-4fd2-89ce-98f06bbed8ac color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 3063dabe-df4f-4841-9cbf-4fddc452b666 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 2ed89fe6-e28a-48a6-8f37-657efabd0e62 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 46a5c6e0-adcd-4459-9eb2-9dfd7ef9aceb color:#000000, fill:#F9F7ED, stroke:#b7c0c7`;
               const {svg} = await mermaid.render('mySvgId', graphDefinition);
               element.innerHTML = svg.replace(/( )*max-width:( 0-9\.)*px;/i, '');
     

pyegeria/commands/tech/work/mermaid_graphs/Clinical Trial Treatment Validation.html

@@ -1,12 +1,13 @@
 
+    <!DOCTYPE html>
     <html>
         <head>
           <style type="text/css">
             #mySvgId {
             width: 100%;
-            height: 100%;
-            overflow: hidden;
-            border: 1px solid #ccc;
+            height: 600px;
+            overflow: scroll;
+            border: 2px solid #ccc;
             position: relative;
             margin-bottom: 10px;
             }
@@ -17,7 +18,13 @@
           </style>
         </head>
     
+        <title>Information Supply Chain - Clinical Trial Treatment Validation </title>
+        <h3 style="text-align: center;">Information Supply Chain - Clinical Trial Treatment Validation </h3>
+        GUID : 1f71e403-1187-4f03-a1dd-ae7dc105f06f
+
+    
         <body>
+        
           <div id="graphDiv"></div>
           <script src="https://bumbu.me/svg-pan-zoom/dist/svg-pan-zoom.min.js"></script>
           <script type="module">
@@ -53,27 +60,27 @@
 
 1f71e403-1187-4f03-a1dd-ae7dc105f06f@{ shape: flip-tri, label: "*Information Supply Chain*
 **Clinical Trial Treatment Validation**"}
-c5135483-a30c-4dfc-8729-54d306b0d2cc@{ shape: text, label: "*Description*
+cfea745a-ad42-4d6d-a69d-6bcfa09ca2d0@{ shape: text, label: "*Description*
 **Delivering data relating to a clinical trial from the hospitals to the Coco Researchers so that they can then determine the efficacy of the treatment to report to the regulators.**"}
-1f71e403-1187-4f03-a1dd-ae7dc105f06f~~~c5135483-a30c-4dfc-8729-54d306b0d2cc
-8033331a-7342-4a66-b85a-0aa1bd35b203@{ shape: text, label: "*Purpose*
+1f71e403-1187-4f03-a1dd-ae7dc105f06f~~~cfea745a-ad42-4d6d-a69d-6bcfa09ca2d0
+d467f775-2db7-46aa-8f53-8c8b162585d6@{ shape: text, label: "*Purpose*
 **Deliver patient measurement data from hospitals to data scientists in research.**"}
-c5135483-a30c-4dfc-8729-54d306b0d2cc~~~8033331a-7342-4a66-b85a-0aa1bd35b203
-25ca6519-ef83-4789-a8a9-ef08e8d195a0@{ shape: text, label: "*Purpose*
+cfea745a-ad42-4d6d-a69d-6bcfa09ca2d0~~~d467f775-2db7-46aa-8f53-8c8b162585d6
+5cdf8613-5704-49c3-9fef-1933b559193b@{ shape: text, label: "*Purpose*
 **Ensure incoming data is only from certified hospitals.**"}
-8033331a-7342-4a66-b85a-0aa1bd35b203~~~25ca6519-ef83-4789-a8a9-ef08e8d195a0
-68c30b1a-d716-4a34-b656-7b53f21e0d38@{ shape: text, label: "*Purpose*
+d467f775-2db7-46aa-8f53-8c8b162585d6~~~5cdf8613-5704-49c3-9fef-1933b559193b
+4fb3a484-600c-4915-83d0-55450554f3ee@{ shape: text, label: "*Purpose*
 **Ensure incoming data is validated and catalogued.**"}
-25ca6519-ef83-4789-a8a9-ef08e8d195a0~~~68c30b1a-d716-4a34-b656-7b53f21e0d38
-2e6b651b-1235-411d-87f7-5bbb25e91057@{ shape: text, label: "*Purpose*
+5cdf8613-5704-49c3-9fef-1933b559193b~~~4fb3a484-600c-4915-83d0-55450554f3ee
+f0a4c74a-01e6-44df-99b5-84153e02b012@{ shape: text, label: "*Purpose*
 **Ensure data and process owners are informed of key milestones and issues requiring attention.**"}
-68c30b1a-d716-4a34-b656-7b53f21e0d38~~~2e6b651b-1235-411d-87f7-5bbb25e91057
-ded87798-758f-4cc2-895f-95467009fe41@{ shape: text, label: "*Purpose*
+4fb3a484-600c-4915-83d0-55450554f3ee~~~f0a4c74a-01e6-44df-99b5-84153e02b012
+a45f95b6-cc69-4931-a0d2-93849af35b98@{ shape: text, label: "*Purpose*
 **Ensure the process of data capture and treatment validation is transparent and auditable.**"}
-2e6b651b-1235-411d-87f7-5bbb25e91057~~~ded87798-758f-4cc2-895f-95467009fe41
-baf2f019-afff-487d-9a40-4fcdce8f8b84@{ shape: text, label: "*Purpose*
+f0a4c74a-01e6-44df-99b5-84153e02b012~~~a45f95b6-cc69-4931-a0d2-93849af35b98
+6b4073ce-218b-4cec-ad9d-4eb36452a5c0@{ shape: text, label: "*Purpose*
 **Ensure the treatment validation report is complete and regulatory compliant.**"}
-ded87798-758f-4cc2-895f-95467009fe41~~~baf2f019-afff-487d-9a40-4fcdce8f8b84
+a45f95b6-cc69-4931-a0d2-93849af35b98~~~6b4073ce-218b-4cec-ad9d-4eb36452a5c0
 38635d38-f728-400d-a8ec-7c26e68b7c0f@{ shape: hex, label: "*Information Supply Chain Segment*
 **Weekly Measurements Onboarding**"}
 38635d38-f728-400d-a8ec-7c26e68b7c0f-->|"capture and catalog,
@@ -135,26 +142,26 @@ d48f579f-76d3-4c49-b1b4-575f5645a9d0-->|"retrieve patient data,
 72a86eec-9734-4bc0-babb-4fec0aa7c9ff-->|"publish results,
 [Solution Linking Wire]"|0bf2547c-937c-41b6-814f-6284849271a1
 style 48bc201e-3d4e-4beb-bdb2-0fd9d134f6d5 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style d467f775-2db7-46aa-8f53-8c8b162585d6 color:#000000, fill:#F9F7ED, stroke:#b7c0c7
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 style e4303326-e418-4f77-b8e7-fd5d34717594 color:#004563, fill:#b7c0c7, stroke:#004563
+style 4fb3a484-600c-4915-83d0-55450554f3ee color:#000000, fill:#F9F7ED, stroke:#b7c0c7
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