@erosolaraijs/cure 2.4.0 → 2.5.1

package/README.md

@@ -1,6 +1,6 @@
 # Cure
 
-AI-powered precision oncology platform for cancer treatment, clinical decision support, and research.
+AI-powered precision oncology and comprehensive health platform for cancer treatment, clinical decision support, and wellness optimization.
 
 ```
   ██████╗██╗   ██╗██████╗ ███████╗
@@ -20,170 +20,215 @@ npm install -g @erosolaraijs/cure
 ## Quick Start
 
 ```bash
-# Launch interactive AI oncologist
+# Launch interactive mode
 cure
 
-# Set your AI provider (xAI or OpenAI)
-/model openai
-/key YOUR_API_KEY
+# Or run specific commands directly
+cure --selftest              # Run health checks
+cure --tools                 # List all 70+ health tools
+cure --tool=preventive-screening  # Run a specific tool
+cure --cure --cancer=NSCLC --stage=IV --mutations=KRAS_G12C
+```
+
+## Interactive Mode
+
+Just run `cure` to enter interactive mode:
 
-# Generate a cure protocol
-/cure NSCLC IV KRAS_G12C
 ```
+$ cure
 
-## Features
+  ██████╗██╗   ██╗██████╗ ███████╗
+ ██╔════╝██║   ██║██╔══██╗██╔════╝
+ ...
 
-### Interactive AI Oncologist
+cure> /help                    # Show all commands
+cure> /tools                   # List all 70+ health tools
+cure> /tool preventive-screening  # Run preventive screening
+cure> /cure Lung IV EGFR       # Generate cure protocol
+cure> What treatments are available for KRAS G12C lung cancer?
+```
 
-Chat with an AI-powered oncology assistant for:
-- Treatment recommendations based on cancer type, stage, and biomarkers
-- Drug mechanism explanations
-- Clinical trial guidance
-- Biomarker interpretation
+## Features
 
-**Multi-Provider Support:**
-- **xAI Grok** (`grok-4-1-fast-reasoning`) - Default
-- **OpenAI GPT-5.1** (`gpt-5.1`) - Alternative
+### 70+ Health & Wellness Tools
+
+Run `/tools` to see all available tools, or `/tool <id>` to run a specific tool.
+
+#### Cancer & Oncology Tools
+| Tool | Description |
+|------|-------------|
+| `selftest` | Core capability smoke tests |
+| `validate` | Retrospective validation |
+| `cancer-core` | Treatment dataset summary |
+| `cancer-analyze` | Patient analysis |
+| `cancer-plan` | Treatment planning |
+| `cancer-cure` | Cure protocol generation |
+| `cancer-discover` | Drug target discovery |
+| `universal-cure` | Universal cancer cure engine |
+| `global-coverage` | Global guideline coverage |
+| `treatment-sequencing` | Next-line therapy |
+| `precision-medicine` | Precision medicine report |
+| `emerging-therapeutics` | Emerging therapies |
+| `multimodal-oncology` | Multimodal oncology |
+| `special-populations` | Pediatric/geriatric care |
+| `resistance-management` | Resistance analysis |
+| `cure-verification` | Cure status verification |
+| `cure-validation` | Coverage validation |
+| `clinical-trial-matching` | Trial matching |
+| `palliative-care` | Pain and opioid management |
+| `emergency-oncology` | Oncology emergencies |
+| `survivorship-care` | Survivorship planning |
+
+#### Preventive Health Tools
+| Tool | Description |
+|------|-------------|
+| `preventive-screening` | Age/gender-specific screenings |
+| `immunization-schedule` | Vaccine recommendations |
+| `genetic-risk` | Hereditary condition assessment |
+| `skin-health` | Skin cancer prevention |
+
+#### Chronic Disease Management
+| Tool | Description |
+|------|-------------|
+| `cardiovascular-risk` | ASCVD/Framingham risk |
+| `diabetes-management` | Diabetes care |
+| `hypertension-management` | Blood pressure management |
+| `kidney-health` | CKD screening/staging |
+| `liver-health` | Liver disease assessment |
+| `respiratory-health` | COPD/asthma evaluation |
+| `thyroid-screening` | Thyroid disorders |
+| `bone-health` | Osteoporosis assessment |
+
+#### Mental Health & Wellness
+| Tool | Description |
+|------|-------------|
+| `mental-health-screening` | Depression/anxiety screening |
+| `cognitive-screening` | Dementia risk assessment |
+| `sleep-assessment` | Sleep disorders |
+| `substance-screening` | Alcohol/tobacco/drug screening |
+| `stress-management` | Stress coping strategies |
+
+#### Nutrition & Lifestyle
+| Tool | Description |
+|------|-------------|
+| `nutrition-assessment` | Dietary recommendations |
+| `exercise-prescription` | Exercise guidelines |
+| `weight-management` | Obesity management |
+| `longevity-assessment` | Healthy aging strategies |
+| `health-optimization` | Comprehensive wellness |
+
+#### Specialized Care
+| Tool | Description |
+|------|-------------|
+| `sexual-health` | STI screening, contraception |
+| `infectious-disease` | HIV, hepatitis, TB screening |
+| `autoimmune-screening` | Autoimmune markers |
+| `allergy-assessment` | Allergy testing |
+| `pain-management` | Chronic pain options |
+| `medication-review` | Polypharmacy review |
+| `fall-risk` | Fall risk assessment |
+| `functional-status` | ADL/IADL assessment |
+
+#### Life Stage Care
+| Tool | Description |
+|------|-------------|
+| `pediatric-wellness` | Child development |
+| `prenatal-care` | Pregnancy care |
+| `menopause-management` | Menopause symptoms |
+| `prostate-health` | Prostate screening |
+
+#### Specialized Settings
+| Tool | Description |
+|------|-------------|
+| `travel-health` | Travel vaccines/malaria |
+| `occupational-health` | Workplace hazards |
+| `environmental-health` | Environmental exposures |
+| `vision-screening` | Eye health |
+| `hearing-screening` | Audiological care |
+| `dental-health` | Oral health |
+
+### AI Chat
+
+Chat with an AI oncologist using xAI Grok or OpenAI GPT-5.1:
 
-Switch providers at runtime with `/model xai` or `/model openai`.
+```bash
+cure> /model openai
+cure> /key YOUR_API_KEY
+cure> What is the best treatment for HER2+ breast cancer?
+```
 
 ### Comprehensive Cancer Coverage
 
 | Category | Coverage |
 |----------|----------|
-| Cancer Types | 200+ types and histological subtypes |
+| Cancer Types | 200+ types and subtypes |
 | Biomarkers | 500+ actionable targets |
-| Protocols | 100+ (NCCN, ESMO, ASCO, FDA) |
-| Patient Populations | Pediatric, AYA, adult, elderly, frail |
-| Special Circumstances | Pregnancy, transplant, autoimmune, HIV |
-| Stages | Localized, locally advanced, metastatic, recurrent |
-
-### Core Capabilities
-
-#### Patient Analysis (`/analyze`)
-- Genomic profiling and biomarker assessment
-- Risk stratification and survival prediction
-- Treatment response modeling
-- MSI/TMB/HRD status analysis
-
-#### Treatment Planning (`/plan`)
-- NCCN, ESMO, ASCO protocol integration
-- Personalized treatment recommendations
-- Multi-modality planning (surgery, radiation, systemic)
-- Timeline and monitoring schedules
-
-#### Cure Protocol Generation (`/cure`)
-- Comprehensive cure strategies by cancer type and stage
-- Drug target prioritization with evidence levels
-- Immunotherapy protocol matching
-- Projected outcomes (response rate, 5-year survival, cure confidence)
-
-#### Drug Target Discovery (`/discover`)
-- AI-driven target identification
-- Evidence-based prioritization (FDA-approved, clinical trials, preclinical)
-- Pathway analysis
-- Approved drug matching
-
-#### Clinical Trial Matching (`/trials`)
-- ClinicalTrials.gov integration
-- Biomarker-based eligibility matching
-- Location-aware search
-- Phase and status filtering
-
-#### Drug Safety (`/safety`)
-- Drug-drug interaction checking
-- Black box warning alerts
-- QT prolongation risk assessment
-- Pharmacogenomic considerations (DPYD, UGT1A1, TPMT/NUDT15)
-
-#### ML Outcome Prediction (`/predict`)
-- Response prediction (CR, PR, SD, PD)
-- Survival estimates (PFS, OS with confidence intervals)
-- Toxicity risk assessment
-- Resistance prediction
+| Protocols | 154+ (NCCN, ESMO, ASCO, FDA) |
+| Drug Targets | 185+ with approved therapies |
 
 ### EHR Integration
 
-Connect to hospital systems via HL7 FHIR R4:
-
 ```bash
-/ehr connect epic
-/ehr connect cerner
+cure> /ehr connect epic
+cure> /ehr connect cerner
 ```
 
-**Supported Systems:**
-- Epic
-- Cerner
+### Genomic Platforms
 
-**Data Exchange:**
-- Patient demographics
-- Cancer diagnoses (ICD-10)
-- Biomarker results
-- Treatment history
-- Medication records
-
-### Genomic Platform Integration
-
-```bash
-/genomics platforms
-```
-
-**Supported Platforms:**
-- **Foundation Medicine** (FoundationOne CDx)
-- **Guardant Health** (Guardant360, GuardantOMNI)
-- **Tempus** (xT, xF, xR)
-
-**Analysis Types:**
-- Somatic variant detection
-- Copy number alterations
-- Gene fusions
-- MSI/TMB analysis
-- Therapy matching
-
-### HIPAA Compliance
-
-- End-to-end encryption
-- PHI masking and de-identification
-- Audit logging with 7-year retention
-- Role-based access control
-- Consent management
+- Foundation Medicine (FoundationOne CDx)
+- Guardant Health (Guardant360)
+- Tempus (xT, xF, xR)
 
 ## CLI Commands
 
-### AI Chat Commands
+### Quick Commands
 | Command | Description |
 |---------|-------------|
-| `/key [provider] [key]` | Set API key (xai or openai) |
-| `/model [xai\|openai]` | Show/switch AI provider |
-| `/clear` | Clear conversation history |
+| `/help` | Show all commands |
+| `/tools` | List all 70+ health tools |
+| `/tool <id>` | Run a specific tool |
+| `/tool all` | Run all tools |
+| `/selftest` | Run self-tests |
 
-### Clinical Commands
-| Command | Description |
-|---------|-------------|
-| `/analyze [patient]` | Analyze patient data |
-| `/plan [patient]` | Design treatment plan |
-| `/cure [cancer] [stage] [mutations...]` | Generate cure protocol |
-| `/discover [gene] [cancer]` | Drug target discovery |
-| `/trials [cancer] [biomarkers...]` | Find clinical trials |
-| `/safety [drug1] [drug2...]` | Check drug interactions |
-| `/predict [patient]` | ML outcome predictions |
-
-### System Commands
+### Cancer Commands
 | Command | Description |
 |---------|-------------|
-| `/status` | System health check |
-| `/ehr [connect\|status]` | EHR integration |
-| `/genomics [platforms]` | Genomic platforms status |
-| `/demo` | Run framework demonstration |
-| `/version` | Show version |
-| `/update` | Check for updates |
-
-### Tool Commands
+| `/analyze [patient]` | Analyze patient |
+| `/plan [patient]` | Treatment plan |
+| `/cure [cancer] [stage] [mutations...]` | Cure protocol |
+| `/discover [gene] [cancer]` | Drug discovery |
+| `/trials [cancer] [biomarkers...]` | Clinical trials |
+| `/safety [drug1] [drug2...]` | Drug interactions |
+| `/predict [patient]` | ML predictions |
+
+### AI Commands
 | Command | Description |
 |---------|-------------|
-| `/tools` | List diagnostic tools |
-| `/tool <id>` | Run a tool (see `/tools`) |
-| `/tool all` | Run all tools |
+| `/key [provider] [key]` | Set API key |
+| `/model [xai\|openai]` | Switch AI provider |
+| `/clear` | Clear conversation |
+
+## Command Line Usage
+
+```bash
+# Run tools directly
+cure --selftest
+cure --tools
+cure --tool=preventive-screening
+cure --tool=cardiovascular-risk
+
+# Cancer commands
+cure --cure --cancer=NSCLC --stage=IV --mutations=KRAS_G12C,TP53
+cure --trials --cancer=Melanoma --biomarkers=BRAF_V600E
+cure --safety --drugs=pembrolizumab,ipilimumab
+cure --analyze-patient --patient=P001 --genomics
+cure --drug-discovery --target=BRAF --cancer=Melanoma
+
+# System
+cure --status
+cure --version
+cure --help
+```
 
 ## Programmatic API
 
@@ -192,167 +237,38 @@ import {
   CancerTreatmentCapabilityModule,
   createOncologyPlatform,
   FHIRClient,
-  ClinicalTrialsGovClient,
-  OutcomePredictorService,
-  DrugSafetyService,
-  HIPAAComplianceService
+  ClinicalTrialsGovClient
 } from '@erosolaraijs/cure';
 
-// Quick start with full platform
+// Quick start
 const platform = await createOncologyPlatform({
-  ehr: {
-    enabled: true,
-    vendor: 'epic',
-    baseUrl: 'https://epic.hospital.org/fhir',
-    clientId: 'your-client-id'
-  },
-  genomics: {
-    enabled: true,
-    platforms: ['foundation', 'guardant', 'tempus']
-  },
-  clinicalTrials: {
-    enabled: true,
-    maxDistance: 100
-  },
-  ml: {
-    enabled: true,
-    modelVersion: '1.0.0'
-  },
-  safety: {
-    enabled: true,
-    strictMode: true
-  },
-  compliance: {
-    enabled: true,
-    auditRetentionDays: 2555
-  }
+  genomics: { enabled: true, platforms: ['foundation', 'guardant', 'tempus'] },
+  clinicalTrials: { enabled: true },
+  ml: { enabled: true },
+  safety: { enabled: true, strictMode: true },
+  compliance: { enabled: true }
 });
 
-// Generate comprehensive treatment plan
-const plan = await platform.generateComprehensivePlan(patient, 'DR001');
-```
-
-### Core Module Usage
-
-```typescript
-// Cancer treatment capability
-const capability = new CancerTreatmentCapabilityModule();
-
-// Analyze patient
-const analysis = await capability.analyzePatient('P001', true);
-
 // Generate cure protocol
-const cure = await capability.cureCancer('P001', 'Lung', 'IV', {
+const cure = await platform.cureCancer('P001', 'Lung', 'IV', {
   mutations: ['EGFR', 'TP53'],
   biomarkers: ['PD-L1'],
   msiStatus: 'MSS',
   tmbLevel: 'High'
 });
-
-// Discover drug targets
-const targets = await capability.discoverDrugTargets('Melanoma', 'BRAF');
-```
-
-### Individual Services
-
-```typescript
-// EHR Integration
-const fhir = new FHIRClient(config);
-const patient = await fhir.getPatient('12345');
-const conditions = await fhir.getConditions('12345');
-
-// Clinical Trials
-const trials = new ClinicalTrialsGovClient();
-const matches = await trials.searchTrials({
-  condition: 'Non-Small Cell Lung Cancer',
-  intervention: 'pembrolizumab',
-  status: 'RECRUITING'
-});
-
-// ML Predictions
-const predictor = new OutcomePredictorService();
-const response = await predictor.predictResponse(patientFeatures, treatmentFeatures);
-
-// Drug Safety
-const safety = new DrugSafetyService();
-const interactions = await safety.checkInteractions(['pembrolizumab', 'ipilimumab']);
-
-// HIPAA Compliance
-const hipaa = new HIPAAComplianceService();
-await hipaa.logAccess(userId, patientId, 'VIEW', 'Clinical review');
 ```
 
 ## Environment Variables
 
 | Variable | Description |
 |----------|-------------|
-| `AI_PROVIDER` | AI provider: `xai` or `openai` (default: xai) |
+| `AI_PROVIDER` | `xai` or `openai` (default: xai) |
 | `XAI_API_KEY` | xAI API key |
 | `OPENAI_API_KEY` | OpenAI API key |
 | `FHIR_BASE_URL` | FHIR server URL |
 | `FHIR_CLIENT_ID` | FHIR OAuth client ID |
 | `FHIR_CLIENT_SECRET` | FHIR OAuth client secret |
 
-## Supported Cancer Types
-
-<details>
-<summary>Click to expand full list</summary>
-
-**Solid Tumors:**
-- Lung (NSCLC, SCLC, mesothelioma)
-- Breast (HR+, HER2+, TNBC)
-- Colorectal
-- Prostate
-- Melanoma
-- Pancreatic
-- Hepatocellular
-- Gastric/Esophageal
-- Ovarian
-- Endometrial
-- Cervical
-- Bladder/Urothelial
-- Renal Cell
-- Head and Neck
-- Thyroid
-- Sarcomas
-- Brain (GBM, meningioma)
-- And 150+ more subtypes
-
-**Hematologic Malignancies:**
-- Acute Myeloid Leukemia (AML)
-- Acute Lymphoblastic Leukemia (ALL)
-- Chronic Myeloid Leukemia (CML)
-- Chronic Lymphocytic Leukemia (CLL)
-- Diffuse Large B-Cell Lymphoma
-- Follicular Lymphoma
-- Hodgkin Lymphoma
-- Multiple Myeloma
-- Myelodysplastic Syndromes
-- Myeloproliferative Neoplasms
-
-**Rare Cancers:**
-- Cholangiocarcinoma
-- Neuroendocrine Tumors
-- GIST
-- Adrenocortical Carcinoma
-- Thymoma
-- And more
-
-</details>
-
-## Emerging Therapeutics
-
-The platform includes cutting-edge treatment modalities:
-
-- **Antibody-Drug Conjugates (ADCs):** T-DXd, sacituzumab govitecan
-- **Bispecific Antibodies:** teclistamab, glofitamab
-- **CAR-T Therapies:** axi-cel, liso-cel, ide-cel
-- **Tumor-Infiltrating Lymphocytes (TILs):** lifileucel
-- **KRAS Inhibitors:** sotorasib, adagrasib
-- **Protein Degraders:** PROTACs, molecular glues
-- **Radiopharmaceuticals:** Lu-177 PSMA, I-131 MIBG
-- **Cancer Vaccines:** mRNA-4157, personalized neoantigen vaccines
-
 ## Requirements
 
 - Node.js >= 18.0.0
@@ -364,4 +280,3 @@ MIT
 ## Links
 
 - [npm Package](https://www.npmjs.com/package/@erosolaraijs/cure)
-- [Report Issues](https://github.com/anthropics/claude-code/issues)

package/dist/bin/cure.js

@@ -20,7 +20,7 @@ import * as os from 'os';
 import { CancerTreatmentCapabilityModule } from '../capabilities/cancerTreatmentCapability.js';
 import { createRealWorldOncologyService } from '../orchestrator/realWorldOncology.js';
 import { getCliTool, listCliTools } from '../tools/index.js';
-const VERSION = '2.4.0';
+const VERSION = '2.5.1';
 const PACKAGE_NAME = '@erosolaraijs/cure';
 const UPDATE_CHECK_INTERVAL = 24 * 60 * 60 * 1000; // 24 hours
 let currentProvider = process.env.AI_PROVIDER || 'xai';

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