pathogen/files: Add data use language

static-site/app/pathogens/files/page.tsx

@@ -42,6 +42,26 @@ export default function PathogenWorkflowFiles(): React.ReactElement {
           <br/>
           <br/>
           {`The 'show full history' link details the temporal history of files for a given pathogen.`}
+          <br/>
+          <br/>
+          {`We gratefully acknowledge the authors, originating and submitting laboratories of the genetic sequences`}
+          {` and metadata for sharing their work. This work is made possible by the open sharing of genetic data by`}
+          {` research groups from all over the world. We gratefully acknowledge their contributions.`}
+          <br/>
+          <br/>
+          {`Please note that although data generators have generously shared data in an open fashion,`}
+          {` that does not mean there should be free license to publish on this data.`}
+          {` Data generators should be cited where possible and collaborations should be sought in some circumstances.`}
+          {` Please try to avoid scooping someone else's work. Reach out if uncertain.`}
+          <br/>
+          <br/>
+          {`Some of these files contain Restricted Data from Pathoplexus.`}
+          <br/>
+          {`To use these in your own analysis, please read `}
+          <a href="https://pathoplexus.org/about/terms-of-use/restricted-data" target="_blank" rel="noreferrer">
+            Pathoplexus Restricted Data Terms of Use
+          </a>
+          {`.`}
           </FocusParagraphCentered>
       </FlexCenter>
 

static-site/components/list-resources/icon-container.tsx

@@ -4,6 +4,7 @@ import React, { useState } from "react";
 
 import { IconType } from "react-icons";
 import { MdFormatListBulleted, MdHistory, MdOutlineWarningAmber } from "react-icons/md";
+import { RiErrorWarningLine } from "react-icons/ri";
 
 import { InternalError } from "../error-boundary";
 
@@ -57,6 +58,9 @@ export default function IconContainer({
     case "bullet-list":
       Icon = MdFormatListBulleted;
       break;
+    case "restricted":
+      Icon = RiErrorWarningLine;
+      break;
     case "out-of-date":
       Icon = MdOutlineWarningAmber;
       break;

static-site/components/list-resources/individual-resource.tsx

@@ -70,6 +70,12 @@ export function IndividualResource({
     return null;
   }
 
+  const restricted = resource.restrictedDataWarning ? (
+    <TooltipWrapper description={resource.restrictedDataWarning}>
+      <IconContainer iconName="restricted" text={''}/>
+    </TooltipWrapper>
+  ) : null;
+
   // If an out of date warning exists then show it. Otherwise show cadence information if it's available
   let history: React.JSX.Element | null = null;
   if (resource.outOfDateWarning) {
@@ -115,6 +121,7 @@ export function IndividualResource({
           />
         </TooltipWrapper>
 
+        {restricted}
         {history}
       </div>
     </div>

static-site/components/list-resources/listResourcesApi.tsx

@@ -206,6 +206,10 @@ function groupIntermediatesByPathogen(
           url,
           lastUpdated,
         };
+        if (nameParts.at(-1)?.includes("restricted")) {
+          // "restricted" in filename
+          resourceDetails.restrictedDataWarning = "Warning! This file may contain restricted data. Please refer to Restricted Data Terms of Use linked above.";
+        }
         const nDaysOld = _timeDelta(lastUpdated);
         if (nDaysOld && nDaysOld>365) {
           resourceDetails.outOfDateWarning = `Warning! This file may be over a year old. Last known update on ${lastUpdated}`;

static-site/components/list-resources/resource-group.tsx

@@ -377,6 +377,9 @@ function _getMaxResourceWidth(
     (w: number, r: DisplayNamedResource): number => {
       /* add the pixels for the display name */
       let _w = r.displayName.default.length * namePxPerChar;
+      if (r.restrictedDataWarning) {
+        _w += 40; // icon + padding
+      }
       if (r.outOfDateWarning) {
         _w += 40; // icon + padding
       } else if (r.nVersions && r.updateCadence) {

static-site/components/list-resources/types.ts

@@ -77,6 +77,9 @@ export interface Resource {
   nVersions?: number;
   updateCadence?: UpdateCadence;
 
+  /** Warning is set if the resource potentially uses restricted data. */
+  restrictedDataWarning?: string;
+
   /** If the resource is (potentially) out of date (according to the `lastUpdated` property)
    * the `outOfDateWarning` may be set */
   outOfDateWarning?: string;