mirror of
https://github.com/temetro/temetro.git
synced 2026-08-27 19:06:52 +00:00
feat: patient & lab file attachments (real backend storage)
Add a real file-storage layer to the backend and wire upload UI into the frontend. backend: - new `attachments` table (org-scoped, links to a patient file number and optionally a lab result) + Drizzle migration - `/api/attachments` route: upload (multer → disk under UPLOAD_DIR), list, stream/download, delete; gated by patient:write OR lab:write via a new requireAnyPermission helper so lab staff can attach analyses - UPLOAD_DIR env (default ./uploads) + a persistent docker volume frontend: - lib/attachments.ts client (multipart upload, list, delete, preview URL) - staged file picker in the patient Add/Edit dialog (uploaded after save) and the lab Add-result dialog (linked to the result) - a Files section in the patient sheet that lists attachments and opens them in a preview dialog (images inline, others via download) Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
This commit is contained in:
@@ -9,6 +9,10 @@ BETTER_AUTH_SECRET=replace-me-with-openssl-rand-base64-32
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# Public base URL of THIS backend (used for auth callbacks & cookies).
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BETTER_AUTH_URL=http://localhost:4000
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# Directory for uploaded patient/lab files. Defaults to ./uploads in local dev;
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# in Docker it's a persistent volume (see docker-compose.yml).
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UPLOAD_DIR=./uploads
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# --- AI ------------------------------------------------------------------
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# Key used to encrypt at-rest AI provider API keys (per-user, set in the app's
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# Settings → AI). Generate one: openssl rand -base64 32. Rotating it forces
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@@ -6,3 +6,4 @@ dist
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npm-debug.log*
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.DS_Store
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coverage
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uploads
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@@ -52,6 +52,8 @@ services:
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FRONTEND_URL: http://localhost:3000
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PORT: "4000"
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NODE_ENV: production
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# Uploaded patient/lab files live here, on the temetro_uploads volume.
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UPLOAD_DIR: /var/lib/temetro/uploads
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SMTP_HOST: ${SMTP_HOST:-}
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SMTP_PORT: ${SMTP_PORT:-}
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SMTP_USER: ${SMTP_USER:-}
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@@ -60,6 +62,8 @@ services:
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volumes:
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# Persists auto-generated secrets so they stay stable across restarts.
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- temetro_secrets:/var/lib/temetro
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# Persists uploaded files across restarts/rebuilds.
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- temetro_uploads:/var/lib/temetro/uploads
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ports:
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- "4000:4000"
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@@ -88,3 +92,4 @@ services:
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volumes:
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temetro_pgdata:
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temetro_secrets:
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temetro_uploads:
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@@ -0,0 +1,16 @@
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CREATE TABLE "attachments" (
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"id" uuid PRIMARY KEY DEFAULT gen_random_uuid() NOT NULL,
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"organization_id" text NOT NULL,
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"file_number" text,
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"lab_key" text,
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"filename" text NOT NULL,
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"mime_type" text NOT NULL,
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"size_bytes" integer NOT NULL,
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"storage_path" text NOT NULL,
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"uploaded_by_user_id" text,
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"created_at" timestamp DEFAULT now() NOT NULL
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);
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--> statement-breakpoint
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ALTER TABLE "attachments" ADD CONSTRAINT "attachments_organization_id_organization_id_fk" FOREIGN KEY ("organization_id") REFERENCES "public"."organization"("id") ON DELETE cascade ON UPDATE no action;--> statement-breakpoint
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ALTER TABLE "attachments" ADD CONSTRAINT "attachments_uploaded_by_user_id_user_id_fk" FOREIGN KEY ("uploaded_by_user_id") REFERENCES "public"."user"("id") ON DELETE set null ON UPDATE no action;--> statement-breakpoint
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CREATE INDEX "attachments_org_file_idx" ON "attachments" USING btree ("organization_id","file_number");
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File diff suppressed because it is too large
Load Diff
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}
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|
||||
"license": "MIT",
|
||||
"dependencies": {
|
||||
"safe-buffer": "~5.2.0"
|
||||
@@ -5537,6 +5637,12 @@
|
||||
"url": "https://opencollective.com/express"
|
||||
}
|
||||
},
|
||||
"node_modules/typedarray": {
|
||||
"version": "0.0.6",
|
||||
"resolved": "https://registry.npmjs.org/typedarray/-/typedarray-0.0.6.tgz",
|
||||
"integrity": "sha512-/aCDEGatGvZ2BIk+HmLf4ifCJFwvKFNb9/JeZPMulfgFracn9QFcAf5GO8B/mweUjSoblS5In0cWhqpfs/5PQA==",
|
||||
"license": "MIT"
|
||||
},
|
||||
"node_modules/typescript": {
|
||||
"version": "6.0.3",
|
||||
"resolved": "https://registry.npmjs.org/typescript/-/typescript-6.0.3.tgz",
|
||||
@@ -5601,7 +5707,6 @@
|
||||
"version": "1.0.2",
|
||||
"resolved": "https://registry.npmjs.org/util-deprecate/-/util-deprecate-1.0.2.tgz",
|
||||
"integrity": "sha512-EPD5q1uXyFxJpCrLnCc1nHnq3gOa6DZBocAIiI2TaSCA7VCJ1UJDMagCzIkXNsUYfD1daK//LTEQ8xiIbrHtcw==",
|
||||
"devOptional": true,
|
||||
"license": "MIT"
|
||||
},
|
||||
"node_modules/vary": {
|
||||
|
||||
@@ -24,12 +24,14 @@
|
||||
"@ai-sdk/google": "^3.0.82",
|
||||
"@ai-sdk/openai": "^3.0.71",
|
||||
"@ai-sdk/openai-compatible": "^2.0.50",
|
||||
"@types/multer": "^2.1.0",
|
||||
"ai": "^6.0.204",
|
||||
"better-auth": "^1.6.13",
|
||||
"cors": "^2.8.6",
|
||||
"dotenv": "^17.4.2",
|
||||
"drizzle-orm": "^0.45.2",
|
||||
"express": "^5.2.1",
|
||||
"multer": "^2.2.0",
|
||||
"nanoid": "^5.1.11",
|
||||
"nodemailer": "^8.0.10",
|
||||
"pg": "^8.21.0",
|
||||
|
||||
@@ -0,0 +1,42 @@
|
||||
import {
|
||||
index,
|
||||
integer,
|
||||
pgTable,
|
||||
text,
|
||||
timestamp,
|
||||
uuid,
|
||||
} from "drizzle-orm/pg-core";
|
||||
|
||||
import { organization, user } from "./auth.js";
|
||||
|
||||
// Files uploaded against a patient record (and optionally a specific lab
|
||||
// result). Scoped to a clinic (organization). The bytes live on disk under
|
||||
// UPLOAD_DIR (see src/services/attachments.ts); this table only holds metadata
|
||||
// plus the relative `storagePath`.
|
||||
// fileNumber → the patient's MRN this file belongs to.
|
||||
// labKey → set when the file documents a specific lab result.
|
||||
export const attachments = pgTable(
|
||||
"attachments",
|
||||
{
|
||||
id: uuid("id").primaryKey().defaultRandom(),
|
||||
organizationId: text("organization_id")
|
||||
.notNull()
|
||||
.references(() => organization.id, { onDelete: "cascade" }),
|
||||
fileNumber: text("file_number"),
|
||||
labKey: text("lab_key"),
|
||||
filename: text("filename").notNull(),
|
||||
mimeType: text("mime_type").notNull(),
|
||||
sizeBytes: integer("size_bytes").notNull(),
|
||||
storagePath: text("storage_path").notNull(),
|
||||
uploadedByUserId: text("uploaded_by_user_id").references(() => user.id, {
|
||||
onDelete: "set null",
|
||||
}),
|
||||
createdAt: timestamp("created_at").defaultNow().notNull(),
|
||||
},
|
||||
(table) => [
|
||||
index("attachments_org_file_idx").on(
|
||||
table.organizationId,
|
||||
table.fileNumber,
|
||||
),
|
||||
],
|
||||
);
|
||||
@@ -14,3 +14,4 @@ export * from "./settings.js";
|
||||
export * from "./ai.js";
|
||||
export * from "./ai-chat.js";
|
||||
export * from "./org-ai-policy.js";
|
||||
export * from "./attachments.js";
|
||||
|
||||
@@ -16,6 +16,9 @@ const schema = z.object({
|
||||
.string()
|
||||
.min(1)
|
||||
.default("dev-insecure-ai-key-change-me"),
|
||||
// Directory where uploaded patient/lab files are stored on disk. Back this
|
||||
// with a persistent volume in production (see docker-compose.yml).
|
||||
UPLOAD_DIR: z.string().min(1).default("./uploads"),
|
||||
BETTER_AUTH_URL: z.string().min(1).default("http://localhost:4000"),
|
||||
FRONTEND_URL: z.string().min(1).default("http://localhost:3000"),
|
||||
PORT: z.coerce.number().int().positive().default(4000),
|
||||
|
||||
@@ -11,6 +11,7 @@ import { initRealtime } from "./realtime.js";
|
||||
import { activityRouter } from "./routes/activity.js";
|
||||
import { aiRouter } from "./routes/ai.js";
|
||||
import { analyticsRouter } from "./routes/analytics.js";
|
||||
import { attachmentsRouter } from "./routes/attachments.js";
|
||||
import { appointmentsRouter } from "./routes/appointments.js";
|
||||
import { chatRouter } from "./routes/chat.js";
|
||||
import { conversationsRouter } from "./routes/conversations.js";
|
||||
@@ -63,6 +64,7 @@ app.get("/health", (_req, res) => {
|
||||
});
|
||||
|
||||
app.use("/api/patients", patientsRouter);
|
||||
app.use("/api/attachments", attachmentsRouter);
|
||||
app.use("/api/notes", notesRouter);
|
||||
app.use("/api/appointments", appointmentsRouter);
|
||||
app.use("/api/prescriptions", prescriptionsRouter);
|
||||
@@ -90,6 +92,7 @@ server.listen(env.PORT, () => {
|
||||
console.log(`temetro backend listening on ${env.BETTER_AUTH_URL}`);
|
||||
console.log(` • auth: /api/auth/* (frontend origin: ${env.FRONTEND_URL})`);
|
||||
console.log(` • patients: /api/patients`);
|
||||
console.log(` • files: /api/attachments`);
|
||||
console.log(` • notes: /api/notes`);
|
||||
console.log(` • appts: /api/appointments`);
|
||||
console.log(` • rx: /api/prescriptions`);
|
||||
|
||||
@@ -100,3 +100,39 @@ export function requirePermission(permission: PermissionRequest) {
|
||||
}
|
||||
};
|
||||
}
|
||||
|
||||
// Gates a route on holding ANY of several permissions (logical OR) — e.g. an
|
||||
// attachment may be uploaded by a clinician (patient:write) OR by lab staff
|
||||
// (lab:write). Passes if the caller's role(s) satisfy at least one request.
|
||||
export function requireAnyPermission(...permissions: PermissionRequest[]) {
|
||||
return async (
|
||||
req: Request,
|
||||
_res: Response,
|
||||
next: NextFunction,
|
||||
): Promise<void> => {
|
||||
try {
|
||||
const names = String(req.memberRole ?? "")
|
||||
.split(",")
|
||||
.map((s) => s.trim())
|
||||
.filter(Boolean);
|
||||
|
||||
let allowed = false;
|
||||
outer: for (const permission of permissions) {
|
||||
for (const name of names) {
|
||||
const role = roles[name as keyof typeof roles];
|
||||
if (role && (await role.authorize(permission)).success) {
|
||||
allowed = true;
|
||||
break outer;
|
||||
}
|
||||
}
|
||||
}
|
||||
|
||||
if (!allowed) {
|
||||
throw new HttpError(403, "You don't have permission to do that.");
|
||||
}
|
||||
next();
|
||||
} catch (err) {
|
||||
next(err);
|
||||
}
|
||||
};
|
||||
}
|
||||
|
||||
@@ -0,0 +1,202 @@
|
||||
import path from "node:path";
|
||||
|
||||
import { Router } from "express";
|
||||
import multer from "multer";
|
||||
import { nanoid } from "nanoid";
|
||||
import { z } from "zod";
|
||||
|
||||
import { HttpError } from "../lib/http-error.js";
|
||||
import {
|
||||
requireAnyPermission,
|
||||
requireAuth,
|
||||
requireOrg,
|
||||
} from "../middleware/auth.js";
|
||||
import { recordActivity } from "../services/activity.js";
|
||||
import {
|
||||
createAttachment,
|
||||
deleteAttachment,
|
||||
ensureUploadDir,
|
||||
getAttachmentRow,
|
||||
listAttachments,
|
||||
openAttachmentStream,
|
||||
} from "../services/attachments.js";
|
||||
|
||||
export const attachmentsRouter = Router();
|
||||
|
||||
const MAX_BYTES = 15 * 1024 * 1024; // 15 MB
|
||||
|
||||
// Clinical documents only — block scripts/executables.
|
||||
const ALLOWED_MIME = new Set([
|
||||
"application/pdf",
|
||||
"image/png",
|
||||
"image/jpeg",
|
||||
"image/gif",
|
||||
"image/webp",
|
||||
"image/tiff",
|
||||
"image/heic",
|
||||
"text/plain",
|
||||
"text/csv",
|
||||
"application/dicom",
|
||||
"application/msword",
|
||||
"application/vnd.openxmlformats-officedocument.wordprocessingml.document",
|
||||
"application/vnd.ms-excel",
|
||||
"application/vnd.openxmlformats-officedocument.spreadsheetml.sheet",
|
||||
]);
|
||||
|
||||
// Disk storage under UPLOAD_DIR/<orgId>/, keyed by a random id so original
|
||||
// names never collide or escape the directory. Runs after requireOrg, so
|
||||
// req.organizationId is set.
|
||||
const storage = multer.diskStorage({
|
||||
destination: (req, _file, cb) => {
|
||||
ensureUploadDir(req.organizationId!)
|
||||
.then((dir) => cb(null, dir))
|
||||
.catch((err) => cb(err as Error, ""));
|
||||
},
|
||||
filename: (_req, file, cb) => {
|
||||
cb(null, `${nanoid()}${path.extname(file.originalname).toLowerCase()}`);
|
||||
},
|
||||
});
|
||||
|
||||
const upload = multer({
|
||||
storage,
|
||||
limits: { fileSize: MAX_BYTES, files: 1 },
|
||||
fileFilter: (_req, file, cb) => {
|
||||
if (ALLOWED_MIME.has(file.mimetype)) cb(null, true);
|
||||
else cb(new HttpError(400, `Unsupported file type: ${file.mimetype}`));
|
||||
},
|
||||
});
|
||||
|
||||
// Wrap multer so its errors (size/type) surface as clean 400s.
|
||||
function uploadSingle(req: never, res: never, next: (err?: unknown) => void) {
|
||||
upload.single("file")(req, res, (err: unknown) => {
|
||||
if (!err) return next();
|
||||
if (err instanceof multer.MulterError) {
|
||||
next(
|
||||
new HttpError(
|
||||
400,
|
||||
err.code === "LIMIT_FILE_SIZE"
|
||||
? "File is too large (max 15 MB)."
|
||||
: err.message,
|
||||
),
|
||||
);
|
||||
return;
|
||||
}
|
||||
next(err);
|
||||
});
|
||||
}
|
||||
|
||||
const linkSchema = z.object({
|
||||
fileNumber: z.string().trim().min(1),
|
||||
labKey: z.string().trim().min(1).optional(),
|
||||
});
|
||||
|
||||
// POST /api/attachments — upload one file linked to a patient (and optionally a
|
||||
// specific lab result). Allowed for clinicians (patient:write) or lab staff
|
||||
// (lab:write).
|
||||
attachmentsRouter.post(
|
||||
"/",
|
||||
requireAuth,
|
||||
requireOrg,
|
||||
requireAnyPermission({ patient: ["write"] }, { lab: ["write"] }),
|
||||
uploadSingle as never,
|
||||
async (req, res, next) => {
|
||||
try {
|
||||
const file = req.file;
|
||||
if (!file) throw new HttpError(400, "No file uploaded.");
|
||||
const parsed = linkSchema.safeParse(req.body);
|
||||
if (!parsed.success) throw new HttpError(400, "A fileNumber is required.");
|
||||
const orgId = req.organizationId!;
|
||||
const attachment = await createAttachment({
|
||||
organizationId: orgId,
|
||||
fileNumber: parsed.data.fileNumber,
|
||||
labKey: parsed.data.labKey ?? null,
|
||||
filename: file.originalname,
|
||||
mimeType: file.mimetype,
|
||||
sizeBytes: file.size,
|
||||
storagePath: path.join(orgId, file.filename),
|
||||
uploadedByUserId: req.user?.id ?? null,
|
||||
});
|
||||
await recordActivity({
|
||||
orgId,
|
||||
actor: { id: req.user?.id, name: req.user?.name },
|
||||
action: "attachment.upload",
|
||||
entityType: "patient",
|
||||
entityId: attachment.id,
|
||||
patientFileNumber: parsed.data.fileNumber,
|
||||
}).catch(() => {});
|
||||
res.status(201).json(attachment);
|
||||
} catch (err) {
|
||||
next(err);
|
||||
}
|
||||
},
|
||||
);
|
||||
|
||||
// GET /api/attachments?fileNumber=… — list a patient's files.
|
||||
attachmentsRouter.get(
|
||||
"/",
|
||||
requireAuth,
|
||||
requireOrg,
|
||||
requireAnyPermission({ patient: ["read"] }, { lab: ["read"] }),
|
||||
async (req, res, next) => {
|
||||
try {
|
||||
const fileNumber = String(req.query.fileNumber ?? "").trim();
|
||||
if (!fileNumber) throw new HttpError(400, "A fileNumber is required.");
|
||||
res.json(await listAttachments(req.organizationId!, fileNumber));
|
||||
} catch (err) {
|
||||
next(err);
|
||||
}
|
||||
},
|
||||
);
|
||||
|
||||
// GET /api/attachments/:id — stream/download a file. Images and PDFs are sent
|
||||
// inline so the client can preview them in a dialog.
|
||||
attachmentsRouter.get(
|
||||
"/:id",
|
||||
requireAuth,
|
||||
requireOrg,
|
||||
requireAnyPermission({ patient: ["read"] }, { lab: ["read"] }),
|
||||
async (req, res, next) => {
|
||||
try {
|
||||
const row = await getAttachmentRow(
|
||||
req.organizationId!,
|
||||
String(req.params.id),
|
||||
);
|
||||
if (!row) throw new HttpError(404, "File not found.");
|
||||
const inline =
|
||||
row.mimeType.startsWith("image/") || row.mimeType === "application/pdf";
|
||||
res.setHeader("Content-Type", row.mimeType);
|
||||
res.setHeader(
|
||||
"Content-Disposition",
|
||||
`${inline ? "inline" : "attachment"}; filename="${encodeURIComponent(
|
||||
row.filename,
|
||||
)}"`,
|
||||
);
|
||||
const stream = openAttachmentStream(row.storagePath);
|
||||
stream.on("error", () => next(new HttpError(404, "File not found.")));
|
||||
stream.pipe(res);
|
||||
} catch (err) {
|
||||
next(err);
|
||||
}
|
||||
},
|
||||
);
|
||||
|
||||
// DELETE /api/attachments/:id — remove a file (row + bytes).
|
||||
attachmentsRouter.delete(
|
||||
"/:id",
|
||||
requireAuth,
|
||||
requireOrg,
|
||||
requireAnyPermission({ patient: ["write"] }, { lab: ["write"] }),
|
||||
async (req, res, next) => {
|
||||
try {
|
||||
const row = await getAttachmentRow(
|
||||
req.organizationId!,
|
||||
String(req.params.id),
|
||||
);
|
||||
if (!row) throw new HttpError(404, "File not found.");
|
||||
await deleteAttachment(req.organizationId!, row);
|
||||
res.status(204).end();
|
||||
} catch (err) {
|
||||
next(err);
|
||||
}
|
||||
},
|
||||
);
|
||||
@@ -0,0 +1,122 @@
|
||||
import { createReadStream } from "node:fs";
|
||||
import { mkdir, unlink } from "node:fs/promises";
|
||||
import path from "node:path";
|
||||
|
||||
import { and, desc, eq } from "drizzle-orm";
|
||||
|
||||
import { db } from "../db/index.js";
|
||||
import { attachments } from "../db/schema/attachments.js";
|
||||
import { user } from "../db/schema/auth.js";
|
||||
import { env } from "../env.js";
|
||||
|
||||
type AttachmentRow = typeof attachments.$inferSelect;
|
||||
|
||||
// API shape returned to the client (no on-disk path leaked).
|
||||
export type Attachment = {
|
||||
id: string;
|
||||
fileNumber: string | null;
|
||||
labKey: string | null;
|
||||
filename: string;
|
||||
mimeType: string;
|
||||
sizeBytes: number;
|
||||
uploadedByName: string | null;
|
||||
createdAt: string;
|
||||
};
|
||||
|
||||
const UUID_RE =
|
||||
/^[0-9a-f]{8}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{4}-[0-9a-f]{12}$/i;
|
||||
|
||||
// Absolute path on disk for a stored file's relative `storagePath`.
|
||||
export function absolutePath(storagePath: string): string {
|
||||
return path.resolve(env.UPLOAD_DIR, storagePath);
|
||||
}
|
||||
|
||||
// The directory new uploads for a clinic are written to (created on demand).
|
||||
export async function ensureUploadDir(orgId: string): Promise<string> {
|
||||
const dir = path.resolve(env.UPLOAD_DIR, orgId);
|
||||
await mkdir(dir, { recursive: true });
|
||||
return dir;
|
||||
}
|
||||
|
||||
function toAttachment(
|
||||
row: AttachmentRow,
|
||||
uploadedByName: string | null,
|
||||
): Attachment {
|
||||
return {
|
||||
id: row.id,
|
||||
fileNumber: row.fileNumber,
|
||||
labKey: row.labKey,
|
||||
filename: row.filename,
|
||||
mimeType: row.mimeType,
|
||||
sizeBytes: row.sizeBytes,
|
||||
uploadedByName,
|
||||
createdAt: row.createdAt.toISOString(),
|
||||
};
|
||||
}
|
||||
|
||||
export async function createAttachment(input: {
|
||||
organizationId: string;
|
||||
fileNumber: string | null;
|
||||
labKey: string | null;
|
||||
filename: string;
|
||||
mimeType: string;
|
||||
sizeBytes: number;
|
||||
storagePath: string;
|
||||
uploadedByUserId: string | null;
|
||||
}): Promise<Attachment> {
|
||||
const [row] = await db.insert(attachments).values(input).returning();
|
||||
if (!row) throw new Error("Failed to create attachment.");
|
||||
return toAttachment(row, null);
|
||||
}
|
||||
|
||||
export async function listAttachments(
|
||||
orgId: string,
|
||||
fileNumber: string,
|
||||
): Promise<Attachment[]> {
|
||||
const rows = await db
|
||||
.select({ a: attachments, uploaderName: user.name })
|
||||
.from(attachments)
|
||||
.leftJoin(user, eq(attachments.uploadedByUserId, user.id))
|
||||
.where(
|
||||
and(
|
||||
eq(attachments.organizationId, orgId),
|
||||
eq(attachments.fileNumber, fileNumber),
|
||||
),
|
||||
)
|
||||
.orderBy(desc(attachments.createdAt));
|
||||
return rows.map((r) => toAttachment(r.a, r.uploaderName));
|
||||
}
|
||||
|
||||
// The raw row (incl. storagePath), scoped to the clinic — for download/delete.
|
||||
export async function getAttachmentRow(
|
||||
orgId: string,
|
||||
id: string,
|
||||
): Promise<AttachmentRow | null> {
|
||||
if (!UUID_RE.test(id)) return null;
|
||||
const [row] = await db
|
||||
.select()
|
||||
.from(attachments)
|
||||
.where(and(eq(attachments.organizationId, orgId), eq(attachments.id, id)))
|
||||
.limit(1);
|
||||
return row ?? null;
|
||||
}
|
||||
|
||||
// Stream a stored file's bytes from disk.
|
||||
export function openAttachmentStream(storagePath: string) {
|
||||
return createReadStream(absolutePath(storagePath));
|
||||
}
|
||||
|
||||
// Remove the DB row and best-effort delete the file from disk.
|
||||
export async function deleteAttachment(
|
||||
orgId: string,
|
||||
row: AttachmentRow,
|
||||
): Promise<void> {
|
||||
await db
|
||||
.delete(attachments)
|
||||
.where(
|
||||
and(eq(attachments.organizationId, orgId), eq(attachments.id, row.id)),
|
||||
);
|
||||
await unlink(absolutePath(row.storagePath)).catch(() => {
|
||||
/* file already gone — ignore */
|
||||
});
|
||||
}
|
||||
Reference in New Issue
Block a user