pyegeria 5.2.1__py3-none-any.whl → 5.3__py3-none-any.whl

pyegeria/m_test.py

@@ -0,0 +1,118 @@
+from pyegeria.mermaid_utilities import construct_mermaid_web, construct_mermaid_jup, render_mermaid
+
+m = """
+---
+title: Component for Solution Blueprint - Clinical Trial Management Solution Blueprint [c4f8d707-7c85-4125-b5fd-c3257a2ef2ef]
+---
+flowchart TD
+%%{init: {"flowchart": {"htmlLabels": false}} }%%
+
+subgraph c4f8d707-7c85-4125-b5fd-c3257a2ef2ef [Components and Actors]
+fc2de77f-7320-48ea-8750-d434c6e870db@{ shape: text, label: "*Description*
+**A description of how a clinical trial is managed in Coco Pharmaceuticals.**"}
+37b8560d-84d4-434b-9b0d-105420fcc924@{ shape: subproc, label: "*Solution Component*
+**Certify Hospital**"}
+f37f3735-28a1-4e03-9ff5-3fe2f137f661@{ shape: trap-t, label: "*Solution Actor Role*
+**Clinical Trial Manager**"}
+f37f3735-28a1-4e03-9ff5-3fe2f137f661-->|"Certifier"|37b8560d-84d4-434b-9b0d-105420fcc924
+72a86eec-9734-4bc0-babb-4fec0aa7c9ff@{ shape: docs, label: "*Solution Component*
+**Assemble Treatment Assessment Report**"}
+48bc201e-3d4e-4beb-bdb2-0fd9d134f6d5@{ shape: rect, label: "*Solution Component*
+**Treatment Efficacy Evidence**"}
+48bc201e-3d4e-4beb-bdb2-0fd9d134f6d5-->|"Solution Linking Wire"|72a86eec-9734-4bc0-babb-4fec0aa7c9ff
+f37f3735-28a1-4e03-9ff5-3fe2f137f661-->|"Author"|72a86eec-9734-4bc0-babb-4fec0aa7c9ff
+b5c8da4c-f925-4cf1-8294-e43cd2c1a584@{ shape: rect, label: "*Solution Component*
+**Analyse Patient Data**"}
+b5c8da4c-f925-4cf1-8294-e43cd2c1a584-->|"Solution Linking Wire"|48bc201e-3d4e-4beb-bdb2-0fd9d134f6d5
+7f5dca65-50b4-4103-9ac7-3a406a09047a@{ shape: subproc, label: "*Solution Component*
+**Weekly Measurements Onboarding Pipeline**"}
+07705e15-efff-4f80-8992-f04ac85e0ef1@{ shape: rect, label: "*Solution Component*
+**Landing Folder Cataloguer**"}
+07705e15-efff-4f80-8992-f04ac85e0ef1-->|"Solution Linking Wire"|7f5dca65-50b4-4103-9ac7-3a406a09047a
+f37f3735-28a1-4e03-9ff5-3fe2f137f661-->|"Steward"|7f5dca65-50b4-4103-9ac7-3a406a09047a
+b0290339-c96c-4b05-904f-12fc98e54e14@{ shape: trap-t, label: "*Solution Actor Role*
+**Certified Data Engineer**"}
+b0290339-c96c-4b05-904f-12fc98e54e14-->|"Steward"|7f5dca65-50b4-4103-9ac7-3a406a09047a
+d48f579f-76d3-4c49-b1b4-575f5645a9d0@{ shape: lin-cyl, label: "*Solution Component*
+**Treatment Validation Sandbox**"}
+26c07ca4-3b8e-484b-812b-36c1ace4b275@{ shape: rect, label: "*Solution Component*
+**Populate Sandbox**"}
+26c07ca4-3b8e-484b-812b-36c1ace4b275-->|"Solution Linking Wire"|d48f579f-76d3-4c49-b1b4-575f5645a9d0
+ee2bb773-e630-4cf9-bdf1-7c2dd64fe4ec@{ shape: processes, label: "*Solution Component*
+**Hospital Processes**"}
+a8bd84ca-0aae-4534-b0e8-87e8659467a6@{ shape: trap-t, label: "*Solution Actor Role*
+**Clinical Trial Participating Hospital Coordinator**"}
+a8bd84ca-0aae-4534-b0e8-87e8659467a6-->|"Coordinator on behalf of hospital"|ee2bb773-e630-4cf9-bdf1-7c2dd64fe4ec
+30adaab5-8870-47a8-8ae9-facbf84cb05a@{ shape: trap-t, label: "*Solution Actor Role*
+**Clinical Trial Participating Hospital**"}
+30adaab5-8870-47a8-8ae9-facbf84cb05a-->|"Owner"|ee2bb773-e630-4cf9-bdf1-7c2dd64fe4ec
+d48f579f-76d3-4c49-b1b4-575f5645a9d0-->|"Solution Linking Wire"|b5c8da4c-f925-4cf1-8294-e43cd2c1a584
+ece17806-836c-4756-b3a2-2d12dde215f6@{ shape: trap-t, label: "*Solution Actor Role*
+**New Treatment Data Scientist**"}
+ece17806-836c-4756-b3a2-2d12dde215f6-->|"Data Analyser"|b5c8da4c-f925-4cf1-8294-e43cd2c1a584
+0c757e35-8a42-4d5f-b01b-c72a6cea65cc@{ shape: trap-t, label: "*Solution Actor Role*
+**New Treatment Researcher.**"}
+0c757e35-8a42-4d5f-b01b-c72a6cea65cc-->|"Results Interpreter"|b5c8da4c-f925-4cf1-8294-e43cd2c1a584
+e9c2f911-ffcb-40c6-aeee-8c4d43811576@{ shape: subproc, label: "*Solution Component*
+**Onboard Hospital**"}
+b0290339-c96c-4b05-904f-12fc98e54e14-->|"Initiator"|e9c2f911-ffcb-40c6-aeee-8c4d43811576
+849b0b42-f465-452b-813c-477d6398e082@{ shape: subproc, label: "*Solution Component*
+**Set up clinical trial**"}
+f37f3735-28a1-4e03-9ff5-3fe2f137f661-->|"Initiator"|849b0b42-f465-452b-813c-477d6398e082
+a5d4d638-6836-47e5-99d0-fdcde637e13f@{ shape: lin-cyl, label: "*Solution Component*
+**Weekly Measurements Data Lake Folder**"}
+7f5dca65-50b4-4103-9ac7-3a406a09047a-->|"Solution Linking Wire"|a5d4d638-6836-47e5-99d0-fdcde637e13f
+0bf2547c-937c-41b6-814f-6284849271a1@{ shape: odd, label: "*Solution Component*
+**Treatment Assessment Report Validation and Delivery**"}
+72a86eec-9734-4bc0-babb-4fec0aa7c9ff-->|"Solution Linking Wire"|0bf2547c-937c-41b6-814f-6284849271a1
+f6bc847b-868d-43cc-b767-41f5fe3e47d1@{ shape: trap-t, label: "*Solution Actor Role*
+**Clinical Trial Sponsor**"}
+f6bc847b-868d-43cc-b767-41f5fe3e47d1-->|"Reviewer"|0bf2547c-937c-41b6-814f-6284849271a1
+a5d4d638-6836-47e5-99d0-fdcde637e13f-->|"Solution Linking Wire"|26c07ca4-3b8e-484b-812b-36c1ace4b275
+fb32bef2-e79f-4893-b500-2e547f24d482@{ shape: subproc, label: "*Solution Component*
+**Set up Data Lake Folder**"}
+b0290339-c96c-4b05-904f-12fc98e54e14-->|"Initiator"|fb32bef2-e79f-4893-b500-2e547f24d482
+1c150d6e-30cf-481c-9afb-3b06c9c9e78f@{ shape: lin-cyl, label: "*Solution Component*
+**Hospital Landing Area Folder**"}
+ee2bb773-e630-4cf9-bdf1-7c2dd64fe4ec-->|"Solution Linking Wire"|1c150d6e-30cf-481c-9afb-3b06c9c9e78f
+1c150d6e-30cf-481c-9afb-3b06c9c9e78f-->|"Solution Linking Wire"|07705e15-efff-4f80-8992-f04ac85e0ef1
+11c7c850-c67c-41cc-9423-d74db47cbf3a@{ shape: subproc, label: "*Solution Component*
+**Nominate Hospital**"}
+f37f3735-28a1-4e03-9ff5-3fe2f137f661-->|"Initiator"|11c7c850-c67c-41cc-9423-d74db47cbf3a
+end
+style 48bc201e-3d4e-4beb-bdb2-0fd9d134f6d5 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style ece17806-836c-4756-b3a2-2d12dde215f6 color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style e9c2f911-ffcb-40c6-aeee-8c4d43811576 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style a5d4d638-6836-47e5-99d0-fdcde637e13f color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 0bf2547c-937c-41b6-814f-6284849271a1 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 30adaab5-8870-47a8-8ae9-facbf84cb05a color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style b0290339-c96c-4b05-904f-12fc98e54e14 color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style 26c07ca4-3b8e-484b-812b-36c1ace4b275 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 1c150d6e-30cf-481c-9afb-3b06c9c9e78f color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 07705e15-efff-4f80-8992-f04ac85e0ef1 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style a8bd84ca-0aae-4534-b0e8-87e8659467a6 color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style 0c757e35-8a42-4d5f-b01b-c72a6cea65cc color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style c4f8d707-7c85-4125-b5fd-c3257a2ef2ef color:#3079ab, fill:#b7c0c7, stroke:#3079ab
+style 37b8560d-84d4-434b-9b0d-105420fcc924 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 11c7c850-c67c-41cc-9423-d74db47cbf3a color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style fc2de77f-7320-48ea-8750-d434c6e870db color:#000000, fill:#F9F7ED, stroke:#b7c0c7
+style 849b0b42-f465-452b-813c-477d6398e082 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 7f5dca65-50b4-4103-9ac7-3a406a09047a color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style ee2bb773-e630-4cf9-bdf1-7c2dd64fe4ec color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style 72a86eec-9734-4bc0-babb-4fec0aa7c9ff color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style b5c8da4c-f925-4cf1-8294-e43cd2c1a584 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style f6bc847b-868d-43cc-b767-41f5fe3e47d1 color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style d48f579f-76d3-4c49-b1b4-575f5645a9d0 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+style f37f3735-28a1-4e03-9ff5-3fe2f137f661 color:#FFFFFF, fill:#AA00FF, stroke:#E1D5E7
+style fb32bef2-e79f-4893-b500-2e547f24d482 color:#FFFFFF, fill:#838cc7, stroke:#3079ab
+"""
+
+h = construct_mermaid_web(m)
+print(h)
+with open("test_w.html", "w") as f:
+    f.write(h)
+
+h = render_mermaid(m)
+print(h)
+with open("test_j.html", "w") as f:
+    f.write(h)

pyegeria/md_processing_helpers.py

@@ -0,0 +1,58 @@
+#
+# from typing import List, Optional
+#
+# import os
+# import re
+#
+# from rich import box, print
+# from rich.console import Console
+# from rich.markdown import Markdown
+#
+# from pyegeria import body_slimmer
+# from pyegeria._globals import NO_TERMS_FOUND, NO_GLOSSARIES_FOUND, NO_TERMS_FOUND, NO_ELEMENTS_FOUND, NO_PROJECTS_FOUND, NO_CATEGORIES_FOUND
+# from pyegeria.egeria_tech_client import EgeriaTech
+# from pyegeria.md_processing_utils import extract_attribute, get_element_by_name, process_element_identifiers
+# from pyegeria.project_manager_omvs import ProjectManager
+# from pyegeria.glossary_manager_omvs import GlossaryManager
+# ERROR = "ERROR-> "
+# INFO = "INFO- "
+# WARNING = "WARNING-> "
+# pre_command = "\n---\n==> Processing object_action:"
+#
+#
+#
+# def process_q_name_list(egeria_client: EgeriaTech, element_type:str, txt:str )-> tuple[str | None,list | None,str | None,bool,bool]:
+#     msg = ""
+#     known_guid = None
+#     valid = True
+#     exists = False
+#     elements = ""
+#     new_element_list = []
+#
+#     elements_txt = extract_attribute(txt, [element_type])
+#
+#     if elements_txt is None:
+#         msg += f"* {INFO}No {element_type}s found\n"
+#
+#     else:
+#         element_list = re.split(r'[,\n]+', elements_txt)
+#
+#         for element in element_list:
+#             element_el = element.strip()
+#
+#                 # Get the element using the generalized function
+#             known_q_name, known_guid, status_msg, el_valid, el_exists = get_element_by_name(
+#                 egeria_client, element_type,txt)
+#             msg += status_msg
+#             if exists and valid:
+#                 elements = f"{element_el}, {elements}" # list of the input names
+#                 new_element_list.append(known_q_name) # list of qualified names
+#             valid = valid and el_valid
+#             exists = exists and el_exists
+#
+#         if elements:
+#             elements += "\n"
+#             msg += f"* {INFO}Found {element_type}s: {elements}"
+#         else:
+#             msg += f"* {INFO}List contains one or more invalid elements.\n"
+#         return elements,new_element_list, msg, valid, exists