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# PanoramaContacts — CLAUDE.md
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## Účel adresáře
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Import kontaktů středisek (site contacts) z exportů systému PANORAMA (CTMS) do MySQL a jejich zobrazení ve Streamlit web reportu.
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Filtruje pouze záznamy pro **Czechia**. Aktuálně pokryté protokoly:
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| Protocol ID | TA |
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|---|---|
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| `77242113UCO3001` | Immunology |
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| `42847922MDD3003` | Neuroscience |
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---
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## Soubory
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| Soubor | Účel |
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|---|---|
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| `import_CZ_contacts.py` | Import xlsx → MySQL |
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| `webreport.py` | Streamlit web report |
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| `run_webreport.py` | PyCharm launcher (`streamlit run webreport.py`) |
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| `sql/create_CTMS_contacts.sql` | DDL tabulky `CTMS_contacts` |
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| `SourceData/*.xlsx` | PANORAMA Dashboard exporty (zdrojová data) |
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| `filter_state.json` | Automaticky ukládaný stav filtrů (generuje app) |
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---
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## MySQL
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- **Host:** 192.168.1.76:3306 · **DB:** `studie` · **Tabulka:** `CTMS_contacts`
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- **Sheet v xlsx:** `Site Contacts`, header na řádku 6 (0-based index 5)
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### Klíčové sloupce tabulky
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| Sloupec | Typ | Poznámka |
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|---|---|---|
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| `file_date` | DATE | Z `dcterms:created` v docProps/core.xml xlsx |
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| `imported_at` | DATETIME | Auto timestamp importu |
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| `protocol_id` | VARCHAR(20) | Identifikátor studie |
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| `site_id` | VARCHAR(15) | Středisko (např. `DD5-CZ10006`) |
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| `contact_role` | VARCHAR(50) | Role kontaktu (PI, Study Coordinator, …) |
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| `contact_start_date` | DATE | Začátek platnosti kontaktu |
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| `contact_end_date` | DATE | Konec platnosti — NULL = stále aktivní |
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| `email` | VARCHAR(100) | Hlavní e-mail |
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---
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## import_CZ_contacts.py
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- Zpracuje všechny `*.xlsx` v `SourceData/`
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- Přeskočí soubory, jejichž `file_date` ≠ dnešní datum (UTC)
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- Přepis: DELETE + INSERT podle `(file_date, protocol_id, country_name)`
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- `clean_value()` převede NaN / NaT / Timestamp na typy přijatelné MySQL driverem
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---
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## webreport.py — Streamlit app
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### Filtry (sidebar)
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| Filtr | Widget | Logika options |
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|---|---|---|
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| **Střediska** | radio | Aktivní / Neaktivní / Všechna |
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| **Protokol** | selectbox | Z celé DB |
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| **Role** | multiselect | Filtrováno dle protokolu + aktivní/neaktivní |
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| **Site** | multiselect | Filtrováno dle protokolu + aktivní/neaktivní |
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| **Hledání** | text_input | Fulltext přes všechny sloupce řádku |
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### Logika filtru Střediska
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| Hodnota | Site podmínka | End Date podmínka |
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|---|---|---|
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| **Aktivní** | `site_id` v `ACTIVE_SITES` | `contact_end_date IS NULL` |
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| **Neaktivní** | `site_id` NOT v `ACTIVE_SITES` | bez omezení |
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| **Všechna** | bez omezení | bez omezení |
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### Aktivní střediska (ACTIVE_SITES)
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```python
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"77242113UCO3001": {
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"DD5-CZ10001", "DD5-CZ10003", "DD5-CZ10006", "DD5-CZ10009",
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"DD5-CZ10010", "DD5-CZ10012", "DD5-CZ10013", "DD5-CZ10015",
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"DD5-CZ10016", "DD5-CZ10020", "DD5-CZ10021", "DD5-CZ10022",
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}
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"42847922MDD3003": {
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"S10-CZ10004", "S10-CZ10008", "S10-CZ10011", "S10-CZ10012",
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}
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```
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### Perzistence filtrů
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- Stav se ukládá do `filter_state.json` při každé změně filtru (`on_change=save_filter_state`)
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- Načítá se jednou za session přes flag `filters_initialized` v `st.session_state`
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- Při načítání se hodnoty validují vůči aktuálním options (ochrana před zastaralými daty)
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### Clipboard tlačítko
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- Knihovna `pyperclip` — kopíruje přímo do Windows clipboardu ze serverové strany
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- Formát: `Jméno Příjmení <email@domain.cz>; …`
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- Reaguje na aktuálně zobrazené (filtrované) záznamy
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### Cache
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- `@st.cache_data(ttl=300)` — data se drží 5 minut
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- Tlačítko 🔄 Obnovit data volá `st.cache_data.clear()` + `st.rerun()`
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---
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## Závislosti (venv)
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```
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mysql-connector-python
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pandas
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openpyxl
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streamlit
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pyperclip
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```
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"""
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create_report.py
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Streamlit report kontaktů z MySQL tabulky CTMS_contacts.
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Spuštění: streamlit run create_report.py
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"""
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from datetime import date
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import mysql.connector
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import pandas as pd
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import streamlit as st
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# ── Konfigurace ────────────────────────────────────────────────────────────────
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DB_CONFIG = {
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"host": "192.168.1.76",
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"port": 3306,
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"user": "root",
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"password": "Vlado9674+",
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"database": "studie",
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"charset": "utf8mb4",
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}
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TABLE = "CTMS_contacts"
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DISPLAY_COLS = {
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"site_id": "Site ID",
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"institution_name": "Institution",
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"pi_full_name": "PI",
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"contact_title": "Title",
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"last_name": "Last Name",
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"first_name": "First Name",
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"contact_role": "Role",
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"primary_indicator": "Primary",
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"phone": "Phone",
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"phone_mobile": "Mobile",
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"email": "Email",
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"contact_start_date": "Start Date",
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"contact_end_date": "End Date",
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}
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# ── Data ───────────────────────────────────────────────────────────────────────
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@st.cache_data(ttl=300)
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def load_data() -> pd.DataFrame:
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cols = ", ".join(DISPLAY_COLS.keys())
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sql = (
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f"SELECT protocol_id, file_date, {cols} "
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f"FROM {TABLE} "
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f"ORDER BY protocol_id, site_id, contact_role, last_name, first_name"
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)
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conn = mysql.connector.connect(**DB_CONFIG)
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cursor = conn.cursor(dictionary=True)
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cursor.execute(sql)
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rows = cursor.fetchall()
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cursor.close()
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conn.close()
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return pd.DataFrame(rows)
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# ── Aplikace ───────────────────────────────────────────────────────────────────
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st.set_page_config(page_title="CTMS Contacts", page_icon="🏥", layout="wide")
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st.title("🏥 CTMS Contacts — Czechia")
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try:
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df = load_data()
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except Exception as e:
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st.error(f"Chyba připojení k MySQL: {e}")
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st.stop()
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# ── Sidebar filtry ─────────────────────────────────────────────────────────────
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with st.sidebar:
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st.header("Filtry")
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protocols = ["Všechny"] + sorted(df["protocol_id"].unique().tolist())
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sel_proto = st.selectbox("Protokol", protocols)
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roles = ["Všechny"] + sorted(df["contact_role"].dropna().unique().tolist())
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sel_role = st.selectbox("Role", roles)
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sites = ["Všechny"] + sorted(df["site_id"].dropna().unique().tolist())
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sel_site = st.selectbox("Site", sites)
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search = st.text_input("Hledat (jméno, email…)")
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st.divider()
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if st.button("🔄 Obnovit data"):
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st.cache_data.clear()
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st.rerun()
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st.caption(f"Naposledy načteno: {pd.Timestamp.now().strftime('%H:%M:%S')}")
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# ── Filtrování ─────────────────────────────────────────────────────────────────
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filtered = df.copy()
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if sel_proto != "Všechny":
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filtered = filtered[filtered["protocol_id"] == sel_proto]
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if sel_role != "Všechny":
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filtered = filtered[filtered["contact_role"] == sel_role]
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if sel_site != "Všechny":
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filtered = filtered[filtered["site_id"] == sel_site]
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if search:
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mask = filtered.apply(
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lambda row: row.astype(str).str.contains(search, case=False, na=False).any(),
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axis=1,
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)
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filtered = filtered[mask]
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# ── Metriky ────────────────────────────────────────────────────────────────────
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col1, col2, col3, col4 = st.columns(4)
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col1.metric("Kontaktů celkem", len(filtered))
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col2.metric("Protokolů", filtered["protocol_id"].nunique())
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col3.metric("Středisek", filtered["site_id"].nunique())
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col4.metric("Rolí", filtered["contact_role"].nunique())
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st.divider()
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# ── Tabulka ────────────────────────────────────────────────────────────────────
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display = filtered[["protocol_id", "file_date"] + list(DISPLAY_COLS.keys())].copy()
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display = display.rename(columns={"protocol_id": "Protocol", "file_date": "File Date", **DISPLAY_COLS})
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st.dataframe(
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display,
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width="stretch",
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hide_index=True,
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column_config={
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"Email": st.column_config.LinkColumn("Email", display_text=".*"),
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"Start Date": st.column_config.DateColumn("Start Date", format="DD-MMM-YYYY"),
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"End Date": st.column_config.DateColumn("End Date", format="DD-MMM-YYYY"),
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},
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)
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st.caption(f"Zobrazeno {len(filtered)} z {len(df)} záznamů")
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{
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"sel_status": "Všechna",
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"sel_proto": "77242113UCO3001",
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"sel_role": [
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"Principal Investigator",
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"Sub-Investigator",
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"Study Coordinator"
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],
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"sel_site": [
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"DD5-CZ10001",
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"DD5-CZ10003",
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"DD5-CZ10006",
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"DD5-CZ10009",
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"DD5-CZ10010",
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"DD5-CZ10012",
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"DD5-CZ10013",
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"DD5-CZ10015",
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"DD5-CZ10016",
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"DD5-CZ10020",
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"DD5-CZ10021"
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]
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}
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import subprocess
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import sys
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from pathlib import Path
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app = Path(__file__).parent / "webreport.py"
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subprocess.run([sys.executable, "-m", "streamlit", "run", str(app)])
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@@ -0,0 +1,223 @@
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"""
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create_report.py
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Streamlit report kontaktů z MySQL tabulky CTMS_contacts.
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Spuštění: streamlit run create_report.py
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"""
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import json
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from pathlib import Path
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import mysql.connector
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import pandas as pd
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import pyperclip
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import streamlit as st
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# ── Konfigurace ────────────────────────────────────────────────────────────────
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DB_CONFIG = {
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"host": "192.168.1.76",
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"port": 3306,
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"user": "root",
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"password": "Vlado9674+",
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"database": "studie",
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"charset": "utf8mb4",
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}
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TABLE = "CTMS_contacts"
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STATE_FILE = Path(__file__).parent / "filter_state.json"
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ACTIVE_SITES = {
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"77242113UCO3001": {
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"DD5-CZ10001", "DD5-CZ10003", "DD5-CZ10006", "DD5-CZ10009",
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"DD5-CZ10010", "DD5-CZ10012", "DD5-CZ10013", "DD5-CZ10015",
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"DD5-CZ10016", "DD5-CZ10020", "DD5-CZ10021", "DD5-CZ10022",
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},
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"42847922MDD3003": {
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"S10-CZ10004", "S10-CZ10008", "S10-CZ10011", "S10-CZ10012",
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},
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}
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DISPLAY_COLS = {
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"site_id": "Site ID",
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"institution_name": "Institution",
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"pi_full_name": "PI",
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"contact_title": "Title",
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"last_name": "Last Name",
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"first_name": "First Name",
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"contact_role": "Role",
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"primary_indicator": "Primary",
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"phone": "Phone",
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"phone_mobile": "Mobile",
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"email": "Email",
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"contact_start_date": "Start Date",
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"contact_end_date": "End Date",
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}
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STATUS_OPTIONS = ["Aktivní", "Neaktivní", "Všechna"]
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DEFAULT_STATUS = "Aktivní"
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# ── Perzistence filtrů ─────────────────────────────────────────────────────────
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def load_filter_state() -> dict:
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if STATE_FILE.exists():
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try:
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return json.loads(STATE_FILE.read_text(encoding="utf-8"))
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except Exception:
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pass
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return {}
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def save_filter_state():
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state = {
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"sel_status": st.session_state.get("sel_status", DEFAULT_STATUS),
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"sel_proto": st.session_state.get("sel_proto", "Všechny"),
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"sel_role": st.session_state.get("sel_role", []),
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"sel_site": st.session_state.get("sel_site", []),
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}
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STATE_FILE.write_text(json.dumps(state, ensure_ascii=False, indent=2), encoding="utf-8")
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# ── Data ───────────────────────────────────────────────────────────────────────
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||||||
|
@st.cache_data(ttl=300)
|
||||||
|
def load_data() -> pd.DataFrame:
|
||||||
|
cols = ", ".join(DISPLAY_COLS.keys())
|
||||||
|
sql = (
|
||||||
|
f"SELECT protocol_id, file_date, {cols} "
|
||||||
|
f"FROM {TABLE} "
|
||||||
|
f"ORDER BY protocol_id, site_id, contact_role, last_name, first_name"
|
||||||
|
)
|
||||||
|
conn = mysql.connector.connect(**DB_CONFIG)
|
||||||
|
cursor = conn.cursor(dictionary=True)
|
||||||
|
cursor.execute(sql)
|
||||||
|
rows = cursor.fetchall()
|
||||||
|
cursor.close()
|
||||||
|
conn.close()
|
||||||
|
return pd.DataFrame(rows)
|
||||||
|
|
||||||
|
|
||||||
|
# ── Aplikace ───────────────────────────────────────────────────────────────────
|
||||||
|
st.set_page_config(page_title="CTMS Contacts", page_icon="🏥", layout="wide")
|
||||||
|
st.title("🏥 CTMS Contacts — Czechia")
|
||||||
|
|
||||||
|
try:
|
||||||
|
df = load_data()
|
||||||
|
except Exception as e:
|
||||||
|
st.error(f"Chyba připojení k MySQL: {e}")
|
||||||
|
st.stop()
|
||||||
|
|
||||||
|
protocols = ["Všechny"] + sorted(df["protocol_id"].unique().tolist())
|
||||||
|
|
||||||
|
# Načti uložený stav jednou za session
|
||||||
|
if "filters_initialized" not in st.session_state:
|
||||||
|
saved = load_filter_state()
|
||||||
|
st.session_state["sel_status"] = saved.get("sel_status", DEFAULT_STATUS) if saved.get("sel_status") in STATUS_OPTIONS else DEFAULT_STATUS
|
||||||
|
st.session_state["sel_proto"] = saved.get("sel_proto", "Všechny") if saved.get("sel_proto") in protocols else "Všechny"
|
||||||
|
st.session_state["sel_role"] = saved.get("sel_role", [])
|
||||||
|
st.session_state["sel_site"] = saved.get("sel_site", [])
|
||||||
|
st.session_state["filters_initialized"] = True
|
||||||
|
|
||||||
|
# Role a centra podle vybraného protokolu + aktivní/neaktivní
|
||||||
|
all_active = set().union(*ACTIVE_SITES.values())
|
||||||
|
df_opts = df.copy()
|
||||||
|
if st.session_state["sel_proto"] != "Všechny":
|
||||||
|
df_opts = df_opts[df_opts["protocol_id"] == st.session_state["sel_proto"]]
|
||||||
|
if st.session_state["sel_status"] == "Aktivní":
|
||||||
|
df_opts = df_opts[df_opts["site_id"].isin(all_active) & df_opts["contact_end_date"].isna()]
|
||||||
|
elif st.session_state["sel_status"] == "Neaktivní":
|
||||||
|
df_opts = df_opts[~df_opts["site_id"].isin(all_active)]
|
||||||
|
roles = sorted(df_opts["contact_role"].dropna().unique().tolist())
|
||||||
|
sites = sorted(df_opts["site_id"].dropna().unique().tolist())
|
||||||
|
|
||||||
|
# Pročisti neplatné výběry po změně protokolu
|
||||||
|
st.session_state["sel_role"] = [r for r in st.session_state["sel_role"] if r in roles]
|
||||||
|
st.session_state["sel_site"] = [s for s in st.session_state["sel_site"] if s in sites]
|
||||||
|
|
||||||
|
# ── Sidebar filtry ─────────────────────────────────────────────────────────────
|
||||||
|
with st.sidebar:
|
||||||
|
st.header("Filtry")
|
||||||
|
|
||||||
|
st.radio(
|
||||||
|
"Střediska", STATUS_OPTIONS, horizontal=True,
|
||||||
|
key="sel_status", on_change=save_filter_state,
|
||||||
|
)
|
||||||
|
st.selectbox(
|
||||||
|
"Protokol", protocols,
|
||||||
|
key="sel_proto", on_change=save_filter_state,
|
||||||
|
)
|
||||||
|
st.multiselect(
|
||||||
|
"Role", roles,
|
||||||
|
key="sel_role", on_change=save_filter_state,
|
||||||
|
)
|
||||||
|
st.multiselect(
|
||||||
|
"Site", sites,
|
||||||
|
key="sel_site", on_change=save_filter_state,
|
||||||
|
)
|
||||||
|
|
||||||
|
search = st.text_input("Hledat (jméno, email…)")
|
||||||
|
|
||||||
|
st.divider()
|
||||||
|
if st.button("🔄 Obnovit data"):
|
||||||
|
st.cache_data.clear()
|
||||||
|
st.rerun()
|
||||||
|
|
||||||
|
st.caption(f"Naposledy načteno: {pd.Timestamp.now().strftime('%H:%M:%S')}")
|
||||||
|
|
||||||
|
# ── Filtrování ─────────────────────────────────────────────────────────────────
|
||||||
|
filtered = df.copy()
|
||||||
|
|
||||||
|
if st.session_state["sel_proto"] != "Všechny":
|
||||||
|
filtered = filtered[filtered["protocol_id"] == st.session_state["sel_proto"]]
|
||||||
|
|
||||||
|
if st.session_state["sel_status"] == "Aktivní":
|
||||||
|
filtered = filtered[filtered["site_id"].isin(all_active) & filtered["contact_end_date"].isna()]
|
||||||
|
elif st.session_state["sel_status"] == "Neaktivní":
|
||||||
|
filtered = filtered[~filtered["site_id"].isin(all_active)]
|
||||||
|
|
||||||
|
if st.session_state["sel_role"]:
|
||||||
|
filtered = filtered[filtered["contact_role"].isin(st.session_state["sel_role"])]
|
||||||
|
if st.session_state["sel_site"]:
|
||||||
|
filtered = filtered[filtered["site_id"].isin(st.session_state["sel_site"])]
|
||||||
|
if search:
|
||||||
|
mask = filtered.apply(
|
||||||
|
lambda row: row.astype(str).str.contains(search, case=False, na=False).any(),
|
||||||
|
axis=1,
|
||||||
|
)
|
||||||
|
filtered = filtered[mask]
|
||||||
|
|
||||||
|
# ── Metriky ────────────────────────────────────────────────────────────────────
|
||||||
|
col1, col2, col3, col4 = st.columns(4)
|
||||||
|
col1.metric("Kontaktů celkem", len(filtered))
|
||||||
|
col2.metric("Protokolů", filtered["protocol_id"].nunique())
|
||||||
|
col3.metric("Středisek", filtered["site_id"].nunique())
|
||||||
|
col4.metric("Rolí", filtered["contact_role"].nunique())
|
||||||
|
|
||||||
|
st.divider()
|
||||||
|
|
||||||
|
# ── Tabulka ────────────────────────────────────────────────────────────────────
|
||||||
|
display = filtered[["protocol_id", "file_date"] + list(DISPLAY_COLS.keys())].copy()
|
||||||
|
display = display.rename(columns={"protocol_id": "Protocol", "file_date": "File Date", **DISPLAY_COLS})
|
||||||
|
|
||||||
|
st.dataframe(
|
||||||
|
display,
|
||||||
|
width="stretch",
|
||||||
|
hide_index=True,
|
||||||
|
column_config={
|
||||||
|
"Email": st.column_config.LinkColumn("Email", display_text=".*"),
|
||||||
|
"Start Date": st.column_config.DateColumn("Start Date", format="DD-MMM-YYYY"),
|
||||||
|
"End Date": st.column_config.DateColumn("End Date", format="DD-MMM-YYYY"),
|
||||||
|
},
|
||||||
|
)
|
||||||
|
|
||||||
|
st.caption(f"Zobrazeno {len(filtered)} z {len(df)} záznamů")
|
||||||
|
|
||||||
|
st.divider()
|
||||||
|
email_rows = filtered[["first_name", "last_name", "email"]].dropna(subset=["email"])
|
||||||
|
email_rows = email_rows[email_rows["email"].str.strip() != ""]
|
||||||
|
entries = [
|
||||||
|
f"{row.first_name} {row.last_name} <{row.email}>"
|
||||||
|
for row in email_rows.itertuples()
|
||||||
|
]
|
||||||
|
email_str = "; ".join(entries)
|
||||||
|
|
||||||
|
if st.button(f"📋 Kopírovat emaily do clipboardu ({len(entries)} adres)"):
|
||||||
|
if entries:
|
||||||
|
pyperclip.copy(email_str)
|
||||||
|
st.success(f"✅ Zkopírováno {len(entries)} adres — vlož přímo do pole Komu.")
|
||||||
@@ -0,0 +1,562 @@
|
|||||||
|
import os
|
||||||
|
import mysql.connector
|
||||||
|
import pandas as pd
|
||||||
|
from datetime import date
|
||||||
|
from pathlib import Path
|
||||||
|
from openpyxl import load_workbook
|
||||||
|
from openpyxl.styles import Font, PatternFill, Alignment, Border, Side
|
||||||
|
from openpyxl.utils import get_column_letter
|
||||||
|
|
||||||
|
import db_config
|
||||||
|
|
||||||
|
STUDIES = ["77242113UCO3001", "42847922MDD3003"]
|
||||||
|
|
||||||
|
BASE_DIR = Path(os.path.dirname(os.path.abspath(__file__)))
|
||||||
|
OUTPUT_DIR = BASE_DIR / "output"
|
||||||
|
|
||||||
|
DATE_COLUMNS = {
|
||||||
|
"Orig Exp Date", "Exp Date", "Rcv Date",
|
||||||
|
"Date Asgn", "Disp Date", "Date Ret", "Destroyed", "Max Visit Date",
|
||||||
|
}
|
||||||
|
|
||||||
|
N_SHIP_COLS = 9 # počet shipment sloupců před detail sloupci
|
||||||
|
|
||||||
|
|
||||||
|
# ── DB ────────────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
def get_conn():
|
||||||
|
return mysql.connector.connect(
|
||||||
|
host=db_config.DB_HOST, port=db_config.DB_PORT,
|
||||||
|
user=db_config.DB_USER, password=db_config.DB_PASSWORD,
|
||||||
|
database=db_config.DB_NAME,
|
||||||
|
)
|
||||||
|
|
||||||
|
|
||||||
|
def get_latest_import_id(cursor, study):
|
||||||
|
cursor.execute(
|
||||||
|
"SELECT MAX(import_id) AS mid FROM iwrs_import WHERE study=%s AND report_type='drugs'",
|
||||||
|
(study,),
|
||||||
|
)
|
||||||
|
row = cursor.fetchone()
|
||||||
|
mid = row["mid"]
|
||||||
|
if mid is None:
|
||||||
|
raise RuntimeError(f"Žádná data v MySQL pro studii {study}")
|
||||||
|
return mid
|
||||||
|
|
||||||
|
|
||||||
|
# ── Načítání dat ──────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
def load_inventory(cursor, study, import_id):
|
||||||
|
sql = """
|
||||||
|
SELECT
|
||||||
|
i.site AS Site,
|
||||||
|
i.medication_id AS `Med ID`,
|
||||||
|
i.packaged_lot_no AS `Lot No.`,
|
||||||
|
i.original_expiration_date AS `Orig Exp Date`,
|
||||||
|
i.expiration_date AS `Exp Date`,
|
||||||
|
i.received_date AS `Rcv Date`,
|
||||||
|
i.receipt_user AS `Rcpt User`,
|
||||||
|
i.subject_identifier AS `Subject ID`,
|
||||||
|
i.quantity_assigned AS `Qty Asgn`,
|
||||||
|
i.irt_transaction AS `IRT Tx`,
|
||||||
|
i.date_assigned AS `Date Asgn`,
|
||||||
|
i.assignment_user AS `Asgn User`,
|
||||||
|
i.dispensation_status AS `Disp Status`,
|
||||||
|
i.dispensing_date AS `Disp Date`,
|
||||||
|
i.quantity_dispensed AS `Qty Disp`,
|
||||||
|
i.dispensing_user AS `Disp User`,
|
||||||
|
i.quantity_returned AS `Qty Ret`,
|
||||||
|
i.date_returned AS `Date Ret`,
|
||||||
|
i.return_user AS `Ret User`,
|
||||||
|
d.destruction_date AS Destroyed,
|
||||||
|
d.basket_id AS `Basket No.`
|
||||||
|
FROM iwrs_inventory i
|
||||||
|
LEFT JOIN (
|
||||||
|
SELECT medication_id,
|
||||||
|
ANY_VALUE(basket_id) AS basket_id,
|
||||||
|
ANY_VALUE(destruction_date) AS destruction_date
|
||||||
|
FROM iwrs_destruction
|
||||||
|
WHERE study = %s
|
||||||
|
GROUP BY medication_id
|
||||||
|
) d ON d.medication_id = i.medication_id
|
||||||
|
WHERE i.import_id = %s
|
||||||
|
AND i.study = %s
|
||||||
|
ORDER BY i.site, i.received_date, i.medication_id
|
||||||
|
"""
|
||||||
|
cursor.execute(sql, (study, import_id, study))
|
||||||
|
rows = cursor.fetchall()
|
||||||
|
df = pd.DataFrame(rows)
|
||||||
|
for col in DATE_COLUMNS:
|
||||||
|
if col in df.columns:
|
||||||
|
df[col] = pd.to_datetime(df[col], errors="coerce")
|
||||||
|
print(f" Inventory: {len(df)} kitu")
|
||||||
|
return df
|
||||||
|
|
||||||
|
|
||||||
|
def load_shipments(cursor, study, import_id):
|
||||||
|
sql = """
|
||||||
|
SELECT
|
||||||
|
s.shipment_id AS `Shipment ID`,
|
||||||
|
s.status AS `IRT Shipment Status`,
|
||||||
|
s.type AS Type,
|
||||||
|
s.ship_from AS `Shipment From`,
|
||||||
|
s.ship_to_site AS `Ship To:`,
|
||||||
|
s.request_date AS `Request Date`,
|
||||||
|
s.received_date AS `Received Date`,
|
||||||
|
s.received_by AS `Received by`,
|
||||||
|
s.expected_arrival AS `Expected Arrival`,
|
||||||
|
i.investigator AS Investigator,
|
||||||
|
i.medication_description AS `Medication Description`,
|
||||||
|
i.medication_id AS `Medication ID`,
|
||||||
|
i.packaged_lot_no AS `Packaged Lot number`,
|
||||||
|
i.expiration_date AS `Expiration Date`,
|
||||||
|
i.item_status AS Status
|
||||||
|
FROM iwrs_shipments s
|
||||||
|
JOIN iwrs_shipment_items i
|
||||||
|
ON i.study = s.study
|
||||||
|
AND i.shipment_id = s.shipment_id
|
||||||
|
AND i.import_id = %s
|
||||||
|
WHERE s.import_id = %s
|
||||||
|
AND s.study = %s
|
||||||
|
ORDER BY s.ship_to_site, s.shipment_id, i.medication_id
|
||||||
|
"""
|
||||||
|
cursor.execute(sql, (import_id, import_id, study))
|
||||||
|
rows = cursor.fetchall()
|
||||||
|
df = pd.DataFrame(rows)
|
||||||
|
for col in ("Request Date", "Received Date", "Expiration Date", "Expected Arrival"):
|
||||||
|
if col in df.columns:
|
||||||
|
df[col] = pd.to_datetime(df[col], errors="coerce")
|
||||||
|
n_ship = df["Shipment ID"].nunique() if len(df) else 0
|
||||||
|
print(f" Shipments: {n_ship} zásilek, {len(df)} kitu")
|
||||||
|
return df
|
||||||
|
|
||||||
|
|
||||||
|
# ── Odvozené sheety ───────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
def build_site_summary(shipments_df):
|
||||||
|
STATUS_COLS = ["Available", "Assigned", "Dispensed", "Returned by Subject"]
|
||||||
|
pivot = shipments_df.groupby("Ship To:")["Status"].value_counts().unstack(fill_value=0)
|
||||||
|
for s in STATUS_COLS:
|
||||||
|
if s not in pivot.columns:
|
||||||
|
pivot[s] = 0
|
||||||
|
pivot = (
|
||||||
|
pivot[STATUS_COLS]
|
||||||
|
.reset_index()
|
||||||
|
.rename(columns={"Ship To:": "Site", "Returned by Subject": "Returned"})
|
||||||
|
.sort_values("Site")
|
||||||
|
.reset_index(drop=True)
|
||||||
|
)
|
||||||
|
pivot["Total"] = pivot[["Available", "Assigned", "Dispensed", "Returned"]].sum(axis=1)
|
||||||
|
print(f" Site Summary: {len(pivot)} center")
|
||||||
|
return pivot
|
||||||
|
|
||||||
|
|
||||||
|
def build_expired(df):
|
||||||
|
today = date.today()
|
||||||
|
mask = (
|
||||||
|
df["Basket No."].isna() &
|
||||||
|
df["Subject ID"].isna() &
|
||||||
|
(df["Exp Date"] < pd.Timestamp(today))
|
||||||
|
)
|
||||||
|
filtered = df[mask].copy().reset_index(drop=True)
|
||||||
|
sheet_name = f"Expired as of {today.strftime('%d-%b-%Y')}"
|
||||||
|
print(f" Expired: {len(filtered)}")
|
||||||
|
return filtered, sheet_name
|
||||||
|
|
||||||
|
|
||||||
|
def build_assigned_not_dispensed(df):
|
||||||
|
mask = df["Subject ID"].notna() & df["Disp Date"].isna()
|
||||||
|
filtered = df[mask].copy().reset_index(drop=True)
|
||||||
|
print(f" Assigned not dispensed: {len(filtered)}")
|
||||||
|
return filtered
|
||||||
|
|
||||||
|
|
||||||
|
def build_not_returned(df):
|
||||||
|
no_ret = df[
|
||||||
|
df["Date Ret"].isna() &
|
||||||
|
df["Subject ID"].notna() &
|
||||||
|
(df["Disp Status"].fillna("").str.upper() != "NOT DISPENSED")
|
||||||
|
].copy()
|
||||||
|
max_asgn = df.groupby("Subject ID")["Date Asgn"].max().rename("Max Visit Date")
|
||||||
|
no_ret = no_ret.join(max_asgn, on="Subject ID")
|
||||||
|
filtered = no_ret[no_ret["Date Asgn"] < no_ret["Max Visit Date"]].copy()
|
||||||
|
filtered = filtered.drop(columns=["Qty Ret", "Date Ret", "Ret User", "Destroyed", "Basket No."])
|
||||||
|
filtered = filtered.reset_index(drop=True)
|
||||||
|
print(f" Not returned: {len(filtered)}")
|
||||||
|
return filtered
|
||||||
|
|
||||||
|
|
||||||
|
def build_kits_for_destruction(df):
|
||||||
|
mask = (
|
||||||
|
df["Basket No."].isna() &
|
||||||
|
(df["Date Ret"].notna() | (df["Disp Status"].fillna("").str.upper() == "NOT DISPENSED"))
|
||||||
|
)
|
||||||
|
filtered = (
|
||||||
|
df[mask]
|
||||||
|
.copy()
|
||||||
|
.sort_values(["Site", "Date Ret"], ascending=[True, True])
|
||||||
|
.drop(columns=["Destroyed", "Basket No."])
|
||||||
|
.reset_index(drop=True)
|
||||||
|
)
|
||||||
|
print(f" Kits for destruction: {len(filtered)}")
|
||||||
|
return filtered
|
||||||
|
|
||||||
|
|
||||||
|
# ── Formátování ───────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
STRIPE_GRAY = PatternFill("solid", start_color="F2F2F2")
|
||||||
|
STRIPE_WHITE = PatternFill("solid", start_color="FFFFFF")
|
||||||
|
|
||||||
|
# pacienti — styly zachovány z create_subject_report.py
|
||||||
|
_PAT_HEADER_FILL = PatternFill("solid", start_color="1F4E79")
|
||||||
|
_PAT_HEADER_FONT = Font(name="Arial", bold=True, color="FFFFFF", size=10)
|
||||||
|
_PAT_NORMAL_FONT = Font(name="Arial", size=10)
|
||||||
|
_PAT_BOLD_FONT = Font(name="Arial", bold=True, size=10)
|
||||||
|
_PAT_STRIKE_FONT = Font(name="Arial", size=10, strike=True, color="999999")
|
||||||
|
_PAT_ADOLESC_FONT = Font(name="Arial", bold=True, size=10)
|
||||||
|
_PAT_THIN = Side(style="thin", color="CCCCCC")
|
||||||
|
_PAT_BORDER = Border(left=_PAT_THIN, right=_PAT_THIN, top=_PAT_THIN, bottom=_PAT_THIN)
|
||||||
|
_PAT_EVEN_FILL = PatternFill("solid", start_color="EBF3FB")
|
||||||
|
_PAT_ODD_FILL = PatternFill("solid", start_color="FFFFFF")
|
||||||
|
_PAT_CENTER = Alignment(horizontal="center", vertical="center")
|
||||||
|
_PAT_LEFT = Alignment(horizontal="left", vertical="center")
|
||||||
|
|
||||||
|
|
||||||
|
def _autofit(ws):
|
||||||
|
for col_cells in ws.columns:
|
||||||
|
max_len = 0
|
||||||
|
col_letter = get_column_letter(col_cells[0].column)
|
||||||
|
for cell in col_cells:
|
||||||
|
if cell.value is None:
|
||||||
|
continue
|
||||||
|
# datum se zobrazí jako DD-MMM-YYYY = 11 znaků
|
||||||
|
if hasattr(cell.value, "strftime") or cell.number_format == "DD-MMM-YYYY":
|
||||||
|
length = 11
|
||||||
|
else:
|
||||||
|
length = len(str(cell.value))
|
||||||
|
if length > max_len:
|
||||||
|
max_len = length
|
||||||
|
ws.column_dimensions[col_letter].width = min(max_len + 3, 50)
|
||||||
|
|
||||||
|
|
||||||
|
def format_sheet(ws, header_color, highlight_col=None, highlight_color=None):
|
||||||
|
thin = Side(style="thin", color="000000")
|
||||||
|
border = Border(left=thin, right=thin, top=thin, bottom=thin)
|
||||||
|
header_fill = PatternFill("solid", start_color=header_color)
|
||||||
|
header_font = Font(bold=True, color="FFFFFF", name="Arial", size=10)
|
||||||
|
row_font = Font(name="Arial", size=10)
|
||||||
|
hi_fill = PatternFill("solid", start_color=highlight_color) if highlight_color else None
|
||||||
|
|
||||||
|
headers = [cell.value for cell in ws[1]]
|
||||||
|
|
||||||
|
for cell in ws[1]:
|
||||||
|
cell.fill = header_fill
|
||||||
|
cell.font = header_font
|
||||||
|
cell.alignment = Alignment(horizontal="center", vertical="center", wrap_text=False)
|
||||||
|
cell.border = border
|
||||||
|
|
||||||
|
for row in ws.iter_rows(min_row=2, max_row=ws.max_row):
|
||||||
|
stripe = STRIPE_GRAY if row[0].row % 2 == 0 else STRIPE_WHITE
|
||||||
|
for cell in row:
|
||||||
|
col_name = headers[cell.column - 1] if cell.column <= len(headers) else None
|
||||||
|
cell.font = row_font
|
||||||
|
cell.border = border
|
||||||
|
cell.alignment = Alignment(horizontal="center")
|
||||||
|
if col_name in DATE_COLUMNS:
|
||||||
|
cell.number_format = "DD-MMM-YYYY"
|
||||||
|
if hi_fill and col_name == highlight_col:
|
||||||
|
cell.fill = hi_fill
|
||||||
|
else:
|
||||||
|
cell.fill = stripe
|
||||||
|
|
||||||
|
_autofit(ws)
|
||||||
|
ws.auto_filter.ref = ws.dimensions
|
||||||
|
ws.freeze_panes = "A2"
|
||||||
|
|
||||||
|
|
||||||
|
def format_shipment_sheet(ws, header_color_ship, header_color_detail, n_ship_cols):
|
||||||
|
thin = Side(style="thin", color="000000")
|
||||||
|
border = Border(left=thin, right=thin, top=thin, bottom=thin)
|
||||||
|
hfont = Font(bold=True, color="FFFFFF", name="Arial", size=10)
|
||||||
|
dfont = Font(name="Arial", size=10)
|
||||||
|
fill_ship = PatternFill("solid", start_color=header_color_ship)
|
||||||
|
fill_detail = PatternFill("solid", start_color=header_color_detail)
|
||||||
|
|
||||||
|
for cell in ws[1]:
|
||||||
|
cell.fill = fill_ship if cell.column <= n_ship_cols else fill_detail
|
||||||
|
cell.font = hfont
|
||||||
|
cell.alignment = Alignment(horizontal="center", vertical="center", wrap_text=True)
|
||||||
|
cell.border = border
|
||||||
|
ws.row_dimensions[1].height = 30
|
||||||
|
|
||||||
|
for row in ws.iter_rows(min_row=2, max_row=ws.max_row):
|
||||||
|
stripe = STRIPE_GRAY if row[0].row % 2 == 0 else STRIPE_WHITE
|
||||||
|
for cell in row:
|
||||||
|
cell.font = dfont
|
||||||
|
cell.border = border
|
||||||
|
cell.alignment = Alignment(horizontal="center", vertical="center")
|
||||||
|
cell.fill = stripe
|
||||||
|
if cell.value.__class__.__name__ in ("datetime", "date", "Timestamp"):
|
||||||
|
cell.number_format = "DD-MMM-YYYY"
|
||||||
|
|
||||||
|
_autofit(ws)
|
||||||
|
ws.auto_filter.ref = ws.dimensions
|
||||||
|
ws.freeze_panes = "A2"
|
||||||
|
|
||||||
|
|
||||||
|
# ── Pacienti ─────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
PATIENT_TABLE = {
|
||||||
|
"77242113UCO3001": "iwrs_uco3001_subject_summary",
|
||||||
|
"42847922MDD3003": "iwrs_mdd3003_subject_summary",
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
def load_patients(cursor, study):
|
||||||
|
table = PATIENT_TABLE[study]
|
||||||
|
cursor.execute(f"SELECT MAX(import_id) AS mid FROM {table}")
|
||||||
|
mid = cursor.fetchone()["mid"]
|
||||||
|
if mid is None:
|
||||||
|
raise RuntimeError(f"Žádná data v MySQL pro pacienty {study}")
|
||||||
|
sql = f"""
|
||||||
|
SELECT
|
||||||
|
subject AS `Subject`,
|
||||||
|
investigator AS `Investigator`,
|
||||||
|
age AS `Subject's age collection`,
|
||||||
|
cohort_per_irt AS `Cohort per IRT`,
|
||||||
|
irt_subject_status AS `IRT Subject Status`,
|
||||||
|
last_irt_transaction AS `Last Recorded IRT Transaction`,
|
||||||
|
next_irt_transaction AS `Next Expected IRT Transaction`,
|
||||||
|
next_irt_transaction_date_local AS `Next Expected IRT Transaction Date [Local]`
|
||||||
|
FROM {table}
|
||||||
|
WHERE import_id = %s
|
||||||
|
ORDER BY subject
|
||||||
|
"""
|
||||||
|
cursor.execute(sql, (mid,))
|
||||||
|
rows = cursor.fetchall()
|
||||||
|
df = pd.DataFrame(rows)
|
||||||
|
if "Next Expected IRT Transaction Date [Local]" in df.columns:
|
||||||
|
df["Next Expected IRT Transaction Date [Local]"] = pd.to_datetime(
|
||||||
|
df["Next Expected IRT Transaction Date [Local]"], errors="coerce"
|
||||||
|
)
|
||||||
|
print(f" Pacienti: {len(df)} subjektů (import_id={mid})")
|
||||||
|
return df
|
||||||
|
|
||||||
|
|
||||||
|
def _simplify_cohort(val):
|
||||||
|
if pd.isna(val):
|
||||||
|
return ""
|
||||||
|
val = str(val)
|
||||||
|
if "dolescent" in val:
|
||||||
|
return "Adolescent"
|
||||||
|
if val.startswith("Adult"):
|
||||||
|
return "Adult"
|
||||||
|
return val
|
||||||
|
|
||||||
|
|
||||||
|
def _fmt_date(val):
|
||||||
|
if pd.isna(val):
|
||||||
|
return ""
|
||||||
|
if hasattr(val, "strftime"):
|
||||||
|
return val.strftime("%Y-%m-%d")
|
||||||
|
return str(val)[:10]
|
||||||
|
|
||||||
|
|
||||||
|
def _write_prehled(wb, df_raw, study):
|
||||||
|
ws = wb.create_sheet("Přehled", 0)
|
||||||
|
ws.sheet_view.showGridLines = False
|
||||||
|
|
||||||
|
ws.merge_cells("A1:H1")
|
||||||
|
title = ws["A1"]
|
||||||
|
title.value = f"Subject Summary — {study} ({date.today().strftime('%d-%b-%Y')})"
|
||||||
|
title.font = Font(name="Arial", bold=True, size=12, color="1F4E79")
|
||||||
|
title.alignment = Alignment(horizontal="left", vertical="center")
|
||||||
|
ws.row_dimensions[1].height = 22
|
||||||
|
|
||||||
|
display_headers = ["Subject", "Investigator", "Věk", "Cohort", "Status", "Last IRT", "Next Visit", "Next Date"]
|
||||||
|
col_widths = [14, 22, 6, 12, 14, 12, 12, 13]
|
||||||
|
for c, (h, w) in enumerate(zip(display_headers, col_widths), 1):
|
||||||
|
cell = ws.cell(row=2, column=c, value=h)
|
||||||
|
cell.font = _PAT_HEADER_FONT
|
||||||
|
cell.fill = _PAT_HEADER_FILL
|
||||||
|
cell.alignment = _PAT_CENTER
|
||||||
|
cell.border = _PAT_BORDER
|
||||||
|
ws.column_dimensions[get_column_letter(c)].width = w
|
||||||
|
ws.row_dimensions[2].height = 18
|
||||||
|
|
||||||
|
display = pd.DataFrame({
|
||||||
|
"Subject": df_raw["Subject"].fillna(""),
|
||||||
|
"Investigator": df_raw["Investigator"].fillna(""),
|
||||||
|
"Věk": df_raw["Subject's age collection"].apply(lambda v: "" if pd.isna(v) else int(v)),
|
||||||
|
"Cohort": df_raw["Cohort per IRT"].apply(_simplify_cohort),
|
||||||
|
"Status": df_raw["IRT Subject Status"].fillna(""),
|
||||||
|
"Last IRT": df_raw["Last Recorded IRT Transaction"].fillna("—"),
|
||||||
|
"Next Visit": df_raw["Next Expected IRT Transaction"].fillna("—"),
|
||||||
|
"Next Date": df_raw["Next Expected IRT Transaction Date [Local]"].apply(_fmt_date),
|
||||||
|
}).sort_values("Subject").reset_index(drop=True)
|
||||||
|
|
||||||
|
for r_idx, row in display.iterrows():
|
||||||
|
excel_row = r_idx + 3
|
||||||
|
status = str(row["Status"])
|
||||||
|
is_failed = "Screen Failed" in status or "Discontinued" in status
|
||||||
|
is_randomized = "Randomized" in status
|
||||||
|
is_adolescent = row["Cohort"] == "Adolescent"
|
||||||
|
fill = _PAT_EVEN_FILL if r_idx % 2 == 0 else _PAT_ODD_FILL
|
||||||
|
|
||||||
|
values = [row["Subject"], row["Investigator"], row["Věk"],
|
||||||
|
row["Cohort"], row["Status"], row["Last IRT"],
|
||||||
|
row["Next Visit"], row["Next Date"]]
|
||||||
|
for c_idx, val in enumerate(values, 1):
|
||||||
|
cell = ws.cell(row=excel_row, column=c_idx, value=val if val != "" else None)
|
||||||
|
cell.fill = fill
|
||||||
|
cell.border = _PAT_BORDER
|
||||||
|
cell.alignment = _PAT_CENTER if c_idx == 3 else _PAT_LEFT
|
||||||
|
if is_failed:
|
||||||
|
cell.font = _PAT_STRIKE_FONT
|
||||||
|
elif c_idx == 5 and is_randomized:
|
||||||
|
cell.font = _PAT_BOLD_FONT
|
||||||
|
elif c_idx == 4 and is_adolescent:
|
||||||
|
cell.font = _PAT_ADOLESC_FONT
|
||||||
|
else:
|
||||||
|
cell.font = _PAT_NORMAL_FONT
|
||||||
|
ws.row_dimensions[excel_row].height = 16
|
||||||
|
|
||||||
|
ws.freeze_panes = "A3"
|
||||||
|
ws.auto_filter.ref = f"A2:H{len(display) + 2}"
|
||||||
|
|
||||||
|
|
||||||
|
def _write_next_visits(wb, df_raw, study):
|
||||||
|
ws = wb.create_sheet("Next Visits", 1)
|
||||||
|
ws.sheet_view.showGridLines = False
|
||||||
|
|
||||||
|
ws.merge_cells("A1:D1")
|
||||||
|
title = ws["A1"]
|
||||||
|
title.value = f"Next Expected Visits — {study} ({date.today().strftime('%d-%b-%Y')})"
|
||||||
|
title.font = Font(name="Arial", bold=True, size=12, color="1F4E79")
|
||||||
|
title.alignment = Alignment(horizontal="left", vertical="center")
|
||||||
|
ws.row_dimensions[1].height = 22
|
||||||
|
|
||||||
|
nv_headers = ["Subject", "Investigator", "Next Visit", "Datum"]
|
||||||
|
nv_widths = [14, 22, 26, 13]
|
||||||
|
for c, (h, w) in enumerate(zip(nv_headers, nv_widths), 1):
|
||||||
|
cell = ws.cell(row=2, column=c, value=h)
|
||||||
|
cell.font = _PAT_HEADER_FONT
|
||||||
|
cell.fill = _PAT_HEADER_FILL
|
||||||
|
cell.alignment = _PAT_CENTER
|
||||||
|
cell.border = _PAT_BORDER
|
||||||
|
ws.column_dimensions[get_column_letter(c)].width = w
|
||||||
|
ws.row_dimensions[2].height = 18
|
||||||
|
|
||||||
|
df = pd.DataFrame({
|
||||||
|
"Subject": df_raw["Subject"].fillna(""),
|
||||||
|
"Investigator": df_raw["Investigator"].fillna(""),
|
||||||
|
"Next Visit": df_raw["Next Expected IRT Transaction"].fillna(""),
|
||||||
|
"Datum": df_raw["Next Expected IRT Transaction Date [Local]"],
|
||||||
|
"Status": df_raw["IRT Subject Status"].fillna(""),
|
||||||
|
})
|
||||||
|
df = df[df["Datum"].notna()]
|
||||||
|
df = df[~df["Status"].str.contains("Screen Failed|Discontinued", na=False)]
|
||||||
|
df = df.sort_values("Datum").reset_index(drop=True)
|
||||||
|
|
||||||
|
for r_idx, row in df.iterrows():
|
||||||
|
excel_row = r_idx + 3
|
||||||
|
fill = _PAT_EVEN_FILL if r_idx % 2 == 0 else _PAT_ODD_FILL
|
||||||
|
datum_val = row["Datum"]
|
||||||
|
datum_str = datum_val.strftime("%Y-%m-%d") if hasattr(datum_val, "strftime") else str(datum_val)[:10]
|
||||||
|
for c_idx, val in enumerate([row["Subject"], row["Investigator"], row["Next Visit"], datum_str], 1):
|
||||||
|
cell = ws.cell(row=excel_row, column=c_idx, value=val if val != "" else None)
|
||||||
|
cell.fill = fill
|
||||||
|
cell.border = _PAT_BORDER
|
||||||
|
cell.font = _PAT_NORMAL_FONT
|
||||||
|
cell.alignment = _PAT_LEFT
|
||||||
|
ws.row_dimensions[excel_row].height = 16
|
||||||
|
|
||||||
|
ws.freeze_panes = "A3"
|
||||||
|
ws.auto_filter.ref = f"A2:D{len(df) + 2}"
|
||||||
|
|
||||||
|
|
||||||
|
# ── Jeden report pro jednu studii ─────────────────────────────────────────────
|
||||||
|
|
||||||
|
def create_study_report(study):
|
||||||
|
today = date.today()
|
||||||
|
|
||||||
|
# číslování: najdi nejvyšší existující verzi pro dnešní datum
|
||||||
|
existing = sorted(OUTPUT_DIR.glob(f"{today} {study} CZ IWRS overview v*.xlsx"))
|
||||||
|
if existing:
|
||||||
|
last = existing[-1].stem # např. "2026-05-12 42847922MDD3003 CZ IWRS overview v3"
|
||||||
|
last_ver = int(last.rsplit("v", 1)[-1])
|
||||||
|
version = last_ver + 1
|
||||||
|
else:
|
||||||
|
version = 1
|
||||||
|
|
||||||
|
output_file = OUTPUT_DIR / f"{today} {study} CZ IWRS overview v{version}.xlsx"
|
||||||
|
|
||||||
|
print(f"\n[{study}] Načítám z MySQL...")
|
||||||
|
conn = get_conn()
|
||||||
|
cursor = conn.cursor(dictionary=True)
|
||||||
|
import_id = get_latest_import_id(cursor, study)
|
||||||
|
print(f" import_id = {import_id}")
|
||||||
|
|
||||||
|
df = load_inventory(cursor, study, import_id)
|
||||||
|
shipments_df = load_shipments(cursor, study, import_id)
|
||||||
|
df_patients = load_patients(cursor, study)
|
||||||
|
cursor.close()
|
||||||
|
conn.close()
|
||||||
|
|
||||||
|
expired_df, expired_sheet = build_expired(df)
|
||||||
|
assigned_df = build_assigned_not_dispensed(df)
|
||||||
|
not_returned_df = build_not_returned(df)
|
||||||
|
destruction_df = build_kits_for_destruction(df)
|
||||||
|
site_summary_df = build_site_summary(shipments_df)
|
||||||
|
|
||||||
|
with pd.ExcelWriter(output_file, engine="openpyxl") as writer:
|
||||||
|
df.to_excel( writer, index=False, sheet_name="CountryMedicationOverview")
|
||||||
|
expired_df.to_excel( writer, index=False, sheet_name=expired_sheet)
|
||||||
|
assigned_df.to_excel( writer, index=False, sheet_name="Assigned not dispensed")
|
||||||
|
not_returned_df.to_excel( writer, index=False, sheet_name="Not returned")
|
||||||
|
destruction_df.to_excel( writer, index=False, sheet_name="Kits for destruction")
|
||||||
|
shipments_df.to_excel( writer, index=False, sheet_name="Shipments")
|
||||||
|
site_summary_df.to_excel( writer, index=False, sheet_name="Site Summary")
|
||||||
|
|
||||||
|
wb = load_workbook(output_file)
|
||||||
|
|
||||||
|
ws_main = wb["CountryMedicationOverview"]
|
||||||
|
format_sheet(ws_main, header_color="1F4E79")
|
||||||
|
green_fill = PatternFill("solid", start_color="E2EFDA")
|
||||||
|
headers_main = [c.value for c in ws_main[1]]
|
||||||
|
for row in ws_main.iter_rows(min_row=2, max_row=ws_main.max_row):
|
||||||
|
for cell in row:
|
||||||
|
col_name = headers_main[cell.column - 1] if cell.column <= len(headers_main) else None
|
||||||
|
if col_name in ("Destroyed", "Basket No."):
|
||||||
|
cell.fill = green_fill
|
||||||
|
|
||||||
|
format_sheet(wb[expired_sheet], header_color="C00000", highlight_col="Exp Date", highlight_color="FFE0E0")
|
||||||
|
format_sheet(wb["Assigned not dispensed"], header_color="833C00", highlight_col="Subject ID", highlight_color="FFF2CC")
|
||||||
|
format_sheet(wb["Not returned"], header_color="375623", highlight_col="Max Visit Date", highlight_color="E2EFDA")
|
||||||
|
format_sheet(wb["Kits for destruction"], header_color="595959")
|
||||||
|
format_shipment_sheet(wb["Shipments"], "1F4E79", "375623", N_SHIP_COLS)
|
||||||
|
format_sheet(wb["Site Summary"], header_color="1F4E79")
|
||||||
|
|
||||||
|
# ── pacienti (Přehled + Next Visits) na začátek ──────────────────────────
|
||||||
|
_write_prehled(wb, df_patients, study)
|
||||||
|
_write_next_visits(wb, df_patients, study)
|
||||||
|
|
||||||
|
wb.save(output_file)
|
||||||
|
print(f" Uloženo: {output_file.name} ({len(df)} řádků)")
|
||||||
|
|
||||||
|
|
||||||
|
# ── Main ──────────────────────────────────────────────────────────────────────
|
||||||
|
|
||||||
|
def main():
|
||||||
|
OUTPUT_DIR.mkdir(exist_ok=True)
|
||||||
|
for study in STUDIES:
|
||||||
|
try:
|
||||||
|
create_study_report(study)
|
||||||
|
except Exception as e:
|
||||||
|
import traceback
|
||||||
|
print(f"\n[{study}] CHYBA: {e}")
|
||||||
|
traceback.print_exc()
|
||||||
|
print("\nHotovo.")
|
||||||
|
|
||||||
|
|
||||||
|
main()
|
||||||
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Reference in New Issue
Block a user