Nanopub #281
Nanopub #281
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…e simplifiedTitle
WalkthroughThis update introduces comprehensive support for nanopublications ("nanopubs") within the discourse graph system. It adds UI components for configuring, previewing, and publishing nanopubs, integrates contributor and source management, and extends export and query capabilities. Supporting utilities, settings extraction, and type definitions are included, along with new configuration panels and command palette entries. Changes
Sequence Diagram(s)sequenceDiagram
participant User
participant ExportDialog
participant ExportNanopub
participant NanopubDialog
participant ContributorManager
participant RoamAPI
User->>ExportDialog: Select "Publish as Nanopub" and click Export
ExportDialog->>ExportNanopub: Open dialog with results
ExportNanopub->>User: Display nodes and publishing options
User->>ExportNanopub: Configure settings, manage contributors
ExportNanopub->>ContributorManager: Manage contributors for node
ContributorManager->>RoamAPI: Update contributors in Roam
User->>ExportNanopub: Click Publish
ExportNanopub->>NanopubDialog: Open nanopub dialog for node
NanopubDialog->>User: Show preview, signing, publishing tools
User->>NanopubDialog: Sign and publish nanopub
NanopubDialog->>RoamAPI: Update node with published URL
NanopubDialog->>User: Show success or error message
Poem
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Actionable comments posted: 20
🧹 Nitpick comments (15)
src/utils/getExportSettings.ts (1)
70-76: Consider error handling for missing configuration.The function assumes the "roam/js/discourse-graph" page and "export" subtree exist. Consider adding error handling for missing configuration.
export const getExportSettingsAndUids = (): ExportConfigWithUids => { + const pageUid = getPageUidByPageTitle("roam/js/discourse-graph"); + if (!pageUid) { + throw new Error("discourse-graph configuration page not found"); + } + const configTree = getBasicTreeByParentUid(pageUid); - const configTree = getBasicTreeByParentUid( - getPageUidByPageTitle("roam/js/discourse-graph") - ); const exportNode = getSubTree({ tree: configTree, key: "export" }); + if (!exportNode) { + throw new Error("export configuration not found"); + }src/components/QueryEditor.tsx (1)
901-904: Improve template literal formatting for better readability.The className template literal is functional but could be formatted more clearly.
- className={` - ${disabledMessage ? "bp3-disabled" : ""} - ${hideQueryButton ? "hidden" : ""} - `} + className={[ + disabledMessage && "bp3-disabled", + hideQueryButton && "hidden" + ].filter(Boolean).join(" ")}Alternatively, use a more readable template literal format:
- className={` - ${disabledMessage ? "bp3-disabled" : ""} - ${hideQueryButton ? "hidden" : ""} - `} + className={`${disabledMessage ? "bp3-disabled" : ""} ${hideQueryButton ? "hidden" : ""}`.trim()}src/utils/findDiscourseNode.ts (1)
6-6: Consider implementing the TODO suggestion.The TODO comment suggests integrating cache management with
refreshConfigTree. This could improve cache invalidation and consistency across the system.Would you like me to help design an implementation that ties the cache lifecycle to
refreshConfigTree?src/data/defaultNanopubTemplates.ts (1)
9-11: Consider expanding source requirements if needed.The
requiresSourceobject currently only specifies that evidence nodes require sources. Consider whether other node types might also benefit from source requirements in certain contexts.For example:
export const requiresSource = { evidence: true, + claim: false, // optional: claims might sometimes need sources };src/components/nanopub/SourceManager.tsx (2)
21-21: Improve type safety for nanopubProps.The type assertion
as NanopubPagecould be unsafe if the nanopub property doesn't exist or has an unexpected structure.Consider adding a type guard or default value:
- const nanopubProps = props["nanopub"] as NanopubPage; + const nanopubProps = (props["nanopub"] as NanopubPage) || { contributors: [] };
41-43: Potential infinite loop with useEffect dependency.The
updateSourcePropsfunction is included in the dependency array, which could cause unnecessary re-renders since it's recreated whenever its dependencies change.Remove
updateSourcePropsfrom the dependency array sincesourcechanges will trigger the effect:useEffect(() => { updateSourceProps(source); - }, [source, updateSourceProps]); + }, [source]);Or better yet, move the logic directly into the useEffect to eliminate the need for useCallback.
src/components/Export.tsx (1)
821-831: Consider moving the helper function closer to its usage.The
handleNanopubExportfunction is defined far from where it's used (line 659), which affects code readability.Consider moving the function definition closer to its usage or to the top of the component for better organization.
src/components/nanopub/NanopubBodySpecification.tsx (1)
94-96: Potential infinite loop in useEffect dependencies.The dependency array includes
initialQueryArgswhich is a memoized object that could cause unnecessary re-renders.Consider extracting only the specific properties needed:
useEffect(() => { if (!showQuery && !hidden) createInitialQueryblocks(); - }, [customBodyDefinitionUid, initialQueryArgs, showQuery, hidden]); + }, [customBodyDefinitionUid, initialQueryArgs.conditionsNodesUid, showQuery, hidden]);Or better yet, use a more specific dependency that indicates when the query structure changes.
src/index.ts (2)
215-215: Remove redundant double-negation.The
!!operator is unnecessary here as the condition will already be coerced to a boolean.- if (!!extensionAPI.settings.get("show-page-metadata")) { + if (extensionAPI.settings.get("show-page-metadata")) {🧰 Tools
🪛 Biome (1.9.4)
[error] 215-215: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation(lint/complexity/noExtraBooleanCast)
881-886: Consider removing or making the toast notification more specific.This generic "Successfully loaded" toast seems unrelated to the nanopub feature. If it's intended for nanopub loading, make the message more specific. Otherwise, consider moving it to a separate PR.
src/components/nanopub/NanopubMainConfig.tsx (1)
51-51: Use optional chaining for cleaner code.- if (title && title.startsWith("Anonymous") && email) { + if (title?.startsWith("Anonymous") && email) {🧰 Tools
🪛 Biome (1.9.4)
[error] 51-51: Change to an optional chain.
Unsafe fix: Change to an optional chain.
(lint/complexity/useOptionalChain)
src/components/nanopub/PreviewNanopub.tsx (1)
131-131: Pass children as JSX elements instead of props.- children={discourseNode?.text || ""} + >{discourseNode?.text || ""}</Text>- children={triple.predicate} + >{triple.predicate}</Text>Also applies to: 136-136
🧰 Tools
🪛 Biome (1.9.4)
[error] 131-131: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
src/components/nanopub/NanopubNodeConfig.tsx (2)
531-531: Remove redundant double-negation.- if (!!triples.length) { + if (triples.length) {🧰 Tools
🪛 Biome (1.9.4)
[error] 531-531: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation(lint/complexity/noExtraBooleanCast)
217-720: Consider refactoring for better maintainability.This component is quite complex with many state variables and nested logic. Consider:
- Using
useReducerinstead of multipleuseStatecalls for related state- Extracting the triple type sections into separate components
- Creating custom hooks for triple management logic
🧰 Tools
🪛 Biome (1.9.4)
[error] 531-531: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation(lint/complexity/noExtraBooleanCast)
src/components/nanopub/ExportNanopub.tsx (1)
338-343: Missing publish implementation.The publish functionality is not yet implemented. This is a critical feature for the nanopub export dialog.
Would you like me to help implement the batch publishing logic or create an issue to track this TODO?
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⛔ Files ignored due to path filters (1)
package-lock.jsonis excluded by!**/package-lock.json
📒 Files selected for processing (24)
package.json(1 hunks)src/components/Export.tsx(5 hunks)src/components/QueryEditor.tsx(3 hunks)src/components/SettingsDialog.tsx(1 hunks)src/components/nanopub/ContributorManager.tsx(1 hunks)src/components/nanopub/ExportNanopub.tsx(1 hunks)src/components/nanopub/Nanopub.tsx(1 hunks)src/components/nanopub/NanopubBodySpecification.tsx(1 hunks)src/components/nanopub/NanopubMainConfig.tsx(1 hunks)src/components/nanopub/NanopubNodeConfig.tsx(1 hunks)src/components/nanopub/PreviewNanopub.tsx(1 hunks)src/components/nanopub/SourceManager.tsx(1 hunks)src/data/defaultNanopubTemplates.ts(1 hunks)src/discourseGraphsMode.ts(3 hunks)src/index.ts(8 hunks)src/utils/conditionToDatalog.ts(1 hunks)src/utils/findDiscourseNode.ts(1 hunks)src/utils/getDiscourseNode.ts(1 hunks)src/utils/getDiscourseNodes.ts(6 hunks)src/utils/getExportSettings.ts(1 hunks)src/utils/getExportTypes.ts(8 hunks)src/utils/handleTitleAdditions.ts(1 hunks)src/utils/types.ts(1 hunks)tailwind.config.ts(1 hunks)
🧰 Additional context used
🧬 Code Graph Analysis (10)
src/components/Export.tsx (1)
src/utils/types.ts (1)
Result(55-59)
src/data/defaultNanopubTemplates.ts (1)
src/utils/getDiscourseNodes.ts (1)
NanopubConfig(85-93)
src/components/nanopub/NanopubBodySpecification.tsx (1)
src/utils/parseQuery.ts (2)
DEFAULT_RETURN_NODE(56-56)parseQuery(58-118)
src/index.ts (4)
src/utils/handleTitleAdditions.ts (2)
handleTitleAdditions(6-47)removeTitleAdditions(49-57)src/components/nanopub/Nanopub.tsx (2)
NanoPubTitleButtons(70-90)NanopubPage(54-58)src/utils/getBlockProps.ts (1)
normalizeProps(9-25)src/components/SettingsDialog.tsx (1)
renderSelectDialog(84-85)
src/components/nanopub/SourceManager.tsx (1)
src/components/nanopub/Nanopub.tsx (1)
NanopubPage(54-58)
src/components/nanopub/ExportNanopub.tsx (4)
src/utils/getDiscourseNodes.ts (1)
DiscourseNode(15-28)src/components/nanopub/Nanopub.tsx (3)
NanopubPage(54-58)Contributor(59-64)render(920-921)src/utils/types.ts (1)
Result(55-59)src/components/Export.tsx (1)
render(860-861)
src/components/nanopub/PreviewNanopub.tsx (4)
src/components/nanopub/Nanopub.tsx (3)
Contributor(59-64)updateObjectPlaceholders(148-188)NanopubTriple(92-118)src/components/nanopub/NanopubNodeConfig.tsx (1)
NanopubTripleType(77-82)src/utils/getDiscourseNodes.ts (1)
DiscourseNode(15-28)src/components/nanopub/ContributorManager.tsx (2)
creditRoles(21-92)getCurrentUserOrcid(112-117)
src/components/nanopub/ContributorManager.tsx (2)
src/components/nanopub/NanopubMainConfig.tsx (1)
PossibleContributor(17-21)src/components/nanopub/Nanopub.tsx (2)
Contributor(59-64)NanopubPage(54-58)
src/components/nanopub/NanopubNodeConfig.tsx (2)
src/utils/getDiscourseNodes.ts (1)
DiscourseNode(15-28)src/data/defaultNanopubTemplates.ts (3)
defaultNanopubTemplate(12-57)nodeTypes(3-8)requiresSource(9-11)
src/utils/getDiscourseNodes.ts (1)
src/components/nanopub/NanopubNodeConfig.tsx (3)
NanopubTripleType(77-82)PredicateKey(73-73)TripleType(75-75)
🪛 Biome (1.9.4)
src/index.ts
[error] 215-215: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation
(lint/complexity/noExtraBooleanCast)
src/components/nanopub/ExportNanopub.tsx
[error] 291-291: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation
(lint/complexity/noExtraBooleanCast)
src/components/nanopub/NanopubMainConfig.tsx
[error] 51-51: Change to an optional chain.
Unsafe fix: Change to an optional chain.
(lint/complexity/useOptionalChain)
src/components/nanopub/PreviewNanopub.tsx
[error] 107-107: Avoid passing content using the dangerouslySetInnerHTML prop.
Setting content using code can expose users to cross-site scripting (XSS) attacks
(lint/security/noDangerouslySetInnerHtml)
[error] 131-131: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
[error] 136-136: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
src/components/nanopub/NanopubNodeConfig.tsx
[error] 531-531: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation
(lint/complexity/noExtraBooleanCast)
src/components/nanopub/Nanopub.tsx
[error] 105-105: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
[error] 110-110: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
[error] 115-115: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
🔇 Additional comments (26)
src/components/SettingsDialog.tsx (3)
47-54: Excellent accessibility implementation.The visually hidden focus button is a great accessibility pattern that allows proper keyboard navigation when the dialog is opened via command palette. This ensures screen readers and keyboard users can navigate the dialog properly.
66-69: Good UX pattern: auto-close on selection.Automatically closing the dialog after item selection provides a smooth user experience and prevents the need for manual dialog dismissal.
73-77: Robust fallback for empty states.The fallback message handling for empty items list with optional error message provides good user feedback for various scenarios.
src/utils/getExportSettings.ts (1)
83-85: Good default value handling.The default value of 64 for max filename length is sensible and prevents issues with undefined values.
src/utils/getDiscourseNode.ts (1)
4-16: Clean and well-structured utility function.The function provides a simple, focused interface for retrieving discourse nodes with good parameter defaults and proper null handling. The cache parameter provides flexibility for different use cases.
src/components/QueryEditor.tsx (1)
440-440: LGTM! Prop added correctly.The optional
hideQueryButtonprop is properly typed and provides clean UI control for hiding the query button when needed.src/utils/findDiscourseNode.ts (1)
8-16: Enhanced cache control implemented correctly.The addition of the optional
cacheparameter provides explicit control over caching behavior while maintaining backward compatibility through the default value. The logic correctly bypasses cache whencacheis false and uses cached results when true.src/utils/types.ts (2)
33-42: Well-designed export settings type.The
ExportSettingstype provides comprehensive configuration options for export functionality. All properties are appropriately typed with meaningful names that clearly indicate their purpose.
51-51: Optional settings parameter maintains backward compatibility.The addition of the optional
settingsparameter to theExportTypescallback signature is well-implemented, maintaining backward compatibility while enabling enhanced export configuration.src/discourseGraphsMode.ts (1)
60-61: Import statements are correctly added.The nanopub-related component imports are properly added and will support the new configuration panels.
src/data/defaultNanopubTemplates.ts (2)
3-8: Well-defined node type mappings with standard URIs.The
nodeTypesmapping uses URIs from what appears to be a legitimate knowledge representation vocabulary (w3id.org/kpxl), providing standard semantic types for different discourse nodes.
12-57: Comprehensive and well-structured default nanopub template.The
defaultNanopubTemplateprovides a complete default configuration with:
- Appropriate triple categorization (assertion, provenance, publication info)
- Intuitive placeholder syntax for dynamic content
- Reasonable default settings for contributors and source requirements
The template structure aligns well with the
NanopubConfiginterface and provides a solid foundation for nanopublication generation.src/components/Export.tsx (2)
531-531: Verify the export type selector disable condition.The condition
activeExportType === "nanopub"disables the export type selector when nanopub is selected, but this might prevent users from changing the export type once nanopub is selected.Please confirm this is the intended behavior. If users should be able to change away from nanopub, consider using
activeExportDestination === "nanopub"instead.
654-661: LGTM! Clean nanopub export integration.The nanopub export handling is well-integrated with the existing export flow. The early return pattern prevents the normal export logic from executing when nanopub is selected.
src/utils/conditionToDatalog.ts (2)
949-1022: Excellent datalog pattern implementation for contributor queries.The "has contributor" translator correctly:
- Resolves
{current user}to the actual display name- Uses proper datalog patterns to navigate the nanopub data structure
- Provides appropriate target options from user display names
- Handles variable bindings correctly
1023-1065: Clean implementation of publication status queries.The "is published" translator is well-designed:
- Uses case-insensitive matching for "as nanopub"
- Returns empty array for unsupported targets (fail-safe behavior)
- Follows consistent datalog pattern structure
- Provides clear user guidance with placeholder text
src/index.ts (3)
259-263: LGTM!The nanopub title button integration is well implemented with proper conditional rendering.
610-635: Well-implemented query function.The
getNanopubPagesfunction correctly queries and transforms nanopub pages with contributors.
906-906: Good cleanup practice.Properly cleaning up title additions on unload prevents memory leaks and DOM pollution.
src/utils/getDiscourseNodes.ts (2)
85-142: Well-structured nanopub configuration parsing.The
NanopubConfigtype andparseNanopubfunction are well implemented with clear structure and proper data extraction from the Roam tree.
167-172: Consistent nanopub configuration integration.Good job ensuring both user-configured nodes and relation-based nodes have nanopub configurations.
Also applies to: 199-207
src/components/nanopub/PreviewNanopub.tsx (1)
32-70: Well-structured triple grouping logic.The
groupTriplesByTypefunction properly categorizes triples and adds source/contributor information as needed.src/utils/getExportTypes.ts (2)
277-279: LGTM! Good defensive programming.The guard clause properly handles both null and empty array cases, preventing potential errors downstream.
873-875: Clean implementation of highlight syntax conversion.The regex pattern correctly handles the conversion from Roam's
^^text^^syntax to HTML<mark>tags with non-greedy matching.src/components/nanopub/Nanopub.tsx (1)
619-646: Excellent error handling and reporting.The error handling is comprehensive with:
- User-friendly error messages
- Detailed logging for debugging
- Error reporting to external API for monitoring
- Proper state management after errors
src/components/nanopub/ContributorManager.tsx (1)
145-164: Well-implemented debounced updates.The debounce logic is properly implemented with:
- Correct use of useRef to persist timer across renders
- Proper cleanup with clearTimeout
- Reasonable 1-second delay for API updates
| "widgets" | ||
| ], | ||
| "dependencies": { | ||
| "@nanopub/sign": "^0.1.4", |
There was a problem hiding this comment.
💡 Verification agent
🧩 Analysis chain
Verify the nanopub package version and security.
The new dependency @nanopub/sign supports the nanopub functionality. Please ensure this version is current and secure.
🌐 Web query:
What is the latest version of @nanopub/sign npm package and are there any known security vulnerabilities?
💡 Result:
The latest version of the @nanopub/sign npm package is 0.1.3, released on March 31, 2024. (libraries.io)
As of now, there are no known security vulnerabilities associated with this package. To ensure your project remains secure, it's advisable to regularly update your dependencies and monitor for any new vulnerabilities.
You can use the npm audit command to scan your project for known vulnerabilities and the npm audit fix command to automatically update packages to their latest secure versions. (geeksforgeeks.org)
Additionally, consider using automated tools like Snyk or WhiteSource Bolt to continuously monitor your project's dependencies for security issues. (geeksforgeeks.org)
By following these practices, you can help maintain the security and integrity of your project.
Citations:
- 1: https://libraries.io/pypi/nanopub-sign?utm_source=openai
- 2: https://www.geeksforgeeks.org/how-to-fix-security-vulnerabilities-with-npm/?utm_source=openai
- 3: https://www.geeksforgeeks.org/how-to-fix-security-vulnerabilities-with-npm/?utm_source=openai
Update @nanopub/sign to a valid published version
It looks like you’ve added
"@nanopub/sign": "^0.1.4"but the latest published release is 0.1.3 (Mar 31, 2024). Please update to:
- "@nanopub/sign": "^0.1.4",
+ "@nanopub/sign": "^0.1.3",There are currently no known security vulnerabilities for this package. To keep dependencies safe, consider running npm audit (and npm audit fix) or integrating tools like Snyk or WhiteSource Bolt for continuous monitoring.
- File: package.json
- Line: 29
🤖 Prompt for AI Agents
In package.json at line 29, the dependency "@nanopub/sign" is set to version
"^0.1.4" which is not a published version. Update this version to the latest
valid published release "0.1.3" to ensure the dependency is correctly resolved
and avoid potential installation errors. Additionally, consider running `npm
audit` and integrating security monitoring tools to maintain dependency
security.
| export const getUidAndBooleanSetting = (props: Props): BooleanSetting => { | ||
| const node = props.tree.find((node) => node.text === props.text); | ||
| return { | ||
| uid: node?.uid, | ||
| value: !!node?.uid, | ||
| }; | ||
| }; |
There was a problem hiding this comment.
Fix boolean setting logic.
The boolean setting logic is incorrect. It returns true whenever a UID exists, regardless of the actual boolean value. This will always return true for any configured setting.
export const getUidAndBooleanSetting = (props: Props): BooleanSetting => {
const node = props.tree.find((node) => node.text === props.text);
+ const childText = node?.children[0]?.text?.toLowerCase();
+ const boolValue = childText === "true" || childText === "yes" || !!node?.uid && !childText;
return {
uid: node?.uid,
- value: !!node?.uid,
+ value: boolValue,
};
};📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| export const getUidAndBooleanSetting = (props: Props): BooleanSetting => { | |
| const node = props.tree.find((node) => node.text === props.text); | |
| return { | |
| uid: node?.uid, | |
| value: !!node?.uid, | |
| }; | |
| }; | |
| export const getUidAndBooleanSetting = (props: Props): BooleanSetting => { | |
| const node = props.tree.find((node) => node.text === props.text); | |
| const childText = node?.children[0]?.text?.toLowerCase(); | |
| const boolValue = | |
| childText === "true" || | |
| childText === "yes" || | |
| (!!node?.uid && !childText); | |
| return { | |
| uid: node?.uid, | |
| value: boolValue, | |
| }; | |
| }; |
🤖 Prompt for AI Agents
In src/utils/getExportSettings.ts around lines 55 to 61, the boolean setting
logic incorrectly returns true whenever a UID exists, ignoring the actual
boolean value. Update the function to retrieve and return the correct boolean
value associated with the setting instead of coercing the UID presence to a
boolean. Ensure the returned value reflects the intended boolean setting from
the node's data.
| @@ -0,0 +1,8 @@ | |||
| /** @type {import('tailwindcss').Config} */ | |||
| module.exports = { | |||
| content: [], | |||
There was a problem hiding this comment.
🛠️ Refactor suggestion
Configure content paths for CSS purging.
The empty content array will prevent Tailwind from purging unused styles in production, resulting in a much larger CSS bundle. Add paths to your source files that use Tailwind classes.
module.exports = {
- content: [],
+ content: [
+ "./src/**/*.{js,ts,jsx,tsx}",
+ "./build/**/*.html"
+ ],
theme: {
extend: {},
},
plugins: [],
};📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| content: [], | |
| module.exports = { | |
| content: [ | |
| "./src/**/*.{js,ts,jsx,tsx}", | |
| "./build/**/*.html" | |
| ], | |
| theme: { | |
| extend: {}, | |
| }, | |
| plugins: [], | |
| }; |
🤖 Prompt for AI Agents
In tailwind.config.ts at line 3, the content array is empty, which disables
Tailwind's CSS purging and leads to larger CSS bundles. Fix this by adding the
appropriate file paths (e.g., all your source files like .tsx, .js, .html) that
contain Tailwind classes to the content array so Tailwind can properly purge
unused styles in production.
| // @ts-ignore | ||
| { | ||
| title: "Nanopub", | ||
| description: "Nanopub settings", | ||
| Panel: CustomPanel, | ||
| options: { | ||
| component: (props) => | ||
| React.createElement(NanopubMainConfig, { | ||
| ...props, | ||
| parentUid: pageUid, | ||
| onloadArgs: args, | ||
| }), | ||
| }, | ||
| } as Field<CustomField>, |
There was a problem hiding this comment.
🛠️ Refactor suggestion
Address TypeScript issues instead of using @ts-ignore.
Similar to the node-specific panel, the main nanopub configuration panel should have proper TypeScript support rather than suppression.
Apply the same TypeScript improvement as suggested for the node-specific panel above.
🤖 Prompt for AI Agents
In src/discourseGraphsMode.ts around lines 558 to 571, the use of @ts-ignore to
suppress TypeScript errors for the Nanopub configuration panel should be
removed. Instead, properly type the object by ensuring it conforms to the
Field<CustomField> interface without ignoring errors. This involves adjusting
the types of the properties, especially the component function, to match
expected types and importing or defining any missing types so that TypeScript
validation passes cleanly.
| // @ts-ignore | ||
| { | ||
| title: "Nanopub", | ||
| description: | ||
| "Configure the Nanopub triple template for this node type", | ||
| Panel: CustomPanel, | ||
| options: { | ||
| component: (props) => | ||
| React.createElement(NanopubConfigPanel, { | ||
| ...props, | ||
| node, | ||
| onloadArgs, | ||
| }), | ||
| }, | ||
| } as Field<CustomField>, |
There was a problem hiding this comment.
🛠️ Refactor suggestion
Address TypeScript issues instead of using @ts-ignore.
The nanopub configuration panel is well-integrated, but the @ts-ignore annotation suggests TypeScript compatibility issues that should be resolved.
Consider updating the type definitions to properly support the CustomField configuration or cast the object to the appropriate type instead of suppressing TypeScript checks:
- // @ts-ignore
{
title: "Nanopub",
description:
"Configure the Nanopub triple template for this node type",
Panel: CustomPanel,
options: {
component: (props) =>
React.createElement(NanopubConfigPanel, {
...props,
node,
onloadArgs,
}),
},
- } as Field<CustomField>,
+ } as Field<CustomField>,Committable suggestion skipped: line range outside the PR's diff.
🤖 Prompt for AI Agents
In src/discourseGraphsMode.ts around lines 254 to 268, the use of @ts-ignore to
suppress TypeScript errors on the Nanopub configuration panel indicates type
incompatibility. To fix this, update or extend the type definitions to correctly
represent the CustomField configuration object, or explicitly cast the object to
the correct type instead of ignoring the error. This ensures proper type
checking and compatibility without suppressing TypeScript warnings.
| const highlightText = (content: string): string => { | ||
| return content.replace(/\^\^([\s\S]+?)\^\^/g, "<mark>$1</mark>"); | ||
| }; |
There was a problem hiding this comment.
💡 Verification agent
🧩 Analysis chain
Verify XSS protection when converting markdown to HTML.
While the marked library typically handles XSS protection, ensure that user-generated content in markdown doesn't contain malicious scripts that could execute in the HTML output.
🌐 Web query:
Does the marked library automatically sanitize HTML to prevent XSS attacks? What are the best practices for using marked.js securely?
💡 Result:
The popular JavaScript library marked.js is a markdown parser and compiler, but by default, marked.js does not automatically sanitize HTML embedded in markdown to prevent XSS (Cross-Site Scripting) attacks. This means if you pass untrusted user input through marked.js, and that input contains HTML tags with malicious scripts, those scripts could be executed in the browser.
Does marked.js automatically sanitize HTML?
- No, marked.js itself does not provide HTML sanitization.
- It parses markdown and can allow embedded HTML as is.
- The library leaves sanitization responsibility to the developer.
Best practices for using marked.js securely
-
Sanitize Input Before or After Parsing
Use a dedicated HTML sanitizer library such as:- DOMPurify (highly recommended and widely used)
- sanitize-html
- xss
These libraries clean the HTML output generated by marked.js or sanitize the input before processing it.
-
Disable HTML Parsing in marked.js (optional)
You can configure marked.js to ignore HTML input entirely:marked.setOptions({ sanitize: false, // Deprecated, better to use external sanitizer mangle: false, // To prevent email address mangling, optional headerIds: false, smartLists: true, smartypants: false, breaks: true, gfm: true, // Disable raw HTML parsing: renderer: { html: () => '' // Override HTML rendering to output empty strings } });
Or simply use:
marked.setOptions({ renderer: new marked.Renderer() }); marked.use({ renderer: { html: () => '' } });
This means any raw HTML in the markdown input will be ignored, greatly reducing the attack surface.
-
Use Trusted Sources Only
If you control the markdown content or trust the source, sanitization may be less critical, but best practice is always to sanitize. -
Keep Libraries Updated
Ensure you use up-to-date versions of marked.js and any sanitizer libraries to benefit from security patches.
Summary
- Marked.js does not automatically sanitize input.
- Always sanitize the HTML output with a dedicated sanitizer like DOMPurify.
- Consider disabling HTML parsing if raw HTML is not needed.
- Keep dependencies updated.
If you want, I can also help you with example code snippets for securely using marked.js with DOMPurify. Would you like that?
Sanitize HTML output from marked to prevent XSS
marked.js does not strip or escape raw HTML by default, so untrusted markdown can introduce malicious scripts. You should integrate a sanitizer or disable HTML parsing in marked:
• File: src/utils/getExportTypes.ts
– After you call marked(markdownContent), wrap its output in a sanitizer (e.g., DOMPurify) before inserting into your HTML template.
– Or configure marked’s renderer to ignore raw HTML if you don’t need it.
Suggested snippet:
import { marked } from 'marked';
import DOMPurify from 'dompurify';
const rawHtml = marked(markdownContent);
const safeHtml = DOMPurify.sanitize(rawHtml);
// use `safeHtml` in your export instead of rawHtml🤖 Prompt for AI Agents
In src/utils/getExportTypes.ts around lines 873 to 875, the markdown-to-HTML
conversion using marked.js does not sanitize the output, risking XSS attacks
from untrusted input. To fix this, after generating HTML with
marked(markdownContent), pass the result through a sanitizer like DOMPurify by
importing it and calling DOMPurify.sanitize on the raw HTML before using it.
Alternatively, configure marked's renderer to disable raw HTML parsing if you
don't need embedded HTML. This ensures the exported HTML is safe from malicious
scripts.
| <td style={{ verticalAlign: "middle" }}> | ||
| <Tooltip | ||
| content={ | ||
| !!nanopubProps?.published |
There was a problem hiding this comment.
Remove redundant double-negation.
The double-negation is unnecessary since the value will be coerced to boolean in the ternary condition.
- ? "Already Published"
- : !nanopubSettings?.enabled
+ ? "Already Published"
+ : !nanopubSettings?.enabledActually, looking at the full context:
!!nanopubProps?.published
? "Already Published"
- : !nanopubSettings?.enabled
+ : !nanopubSettings?.enabledThe issue is with !!nanopubProps?.published on line 291. Change to:
- !!nanopubProps?.published
+ nanopubProps?.published📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| !!nanopubProps?.published | |
| nanopubProps?.published | |
| ? "Already Published" | |
| : !nanopubSettings?.enabled |
🧰 Tools
🪛 Biome (1.9.4)
[error] 291-291: Avoid redundant double-negation.
It is not necessary to use double-negation when a value will already be coerced to a boolean.
Unsafe fix: Remove redundant double-negation
(lint/complexity/noExtraBooleanCast)
🤖 Prompt for AI Agents
In src/components/nanopub/ExportNanopub.tsx at line 291, remove the redundant
double-negation (!!) before nanopubProps?.published. Replace
`!!nanopubProps?.published` with just `nanopubProps?.published` to rely on the
natural boolean coercion in the ternary condition.
| }) => ( | ||
| <div className="grid grid-cols-12 gap-4 border-0 border-b sm:border-b-0 py-2"> | ||
| <Text | ||
| className="col-span-12 sm:col-span-2 truncate" | ||
| title={subject} | ||
| children={subject} | ||
| /> | ||
| <Text | ||
| className="col-span-12 sm:col-span-2 truncate" | ||
| title={predicate} | ||
| children={predicate} | ||
| /> | ||
| <Text | ||
| className="col-span-12 sm:col-span-8 truncate" | ||
| title={object} | ||
| children={object} | ||
| /> | ||
| </div> |
There was a problem hiding this comment.
Use JSX children instead of children prop.
React's canonical way to pass children is through JSX elements, not as a prop.
- <Text
- className="col-span-12 sm:col-span-2 truncate"
- title={subject}
- children={subject}
- />
- <Text
- className="col-span-12 sm:col-span-2 truncate"
- title={predicate}
- children={predicate}
- />
- <Text
- className="col-span-12 sm:col-span-8 truncate"
- title={object}
- children={object}
- />
+ <Text
+ className="col-span-12 sm:col-span-2 truncate"
+ title={subject}
+ >
+ {subject}
+ </Text>
+ <Text
+ className="col-span-12 sm:col-span-2 truncate"
+ title={predicate}
+ >
+ {predicate}
+ </Text>
+ <Text
+ className="col-span-12 sm:col-span-8 truncate"
+ title={object}
+ >
+ {object}
+ </Text>📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| }) => ( | |
| <div className="grid grid-cols-12 gap-4 border-0 border-b sm:border-b-0 py-2"> | |
| <Text | |
| className="col-span-12 sm:col-span-2 truncate" | |
| title={subject} | |
| children={subject} | |
| /> | |
| <Text | |
| className="col-span-12 sm:col-span-2 truncate" | |
| title={predicate} | |
| children={predicate} | |
| /> | |
| <Text | |
| className="col-span-12 sm:col-span-8 truncate" | |
| title={object} | |
| children={object} | |
| /> | |
| </div> | |
| }) => ( | |
| <div className="grid grid-cols-12 gap-4 border-0 border-b sm:border-b-0 py-2"> | |
| <Text | |
| className="col-span-12 sm:col-span-2 truncate" | |
| title={subject} | |
| > | |
| {subject} | |
| </Text> | |
| <Text | |
| className="col-span-12 sm:col-span-2 truncate" | |
| title={predicate} | |
| > | |
| {predicate} | |
| </Text> | |
| <Text | |
| className="col-span-12 sm:col-span-8 truncate" | |
| title={object} | |
| > | |
| {object} | |
| </Text> | |
| </div> | |
| ) |
🧰 Tools
🪛 Biome (1.9.4)
[error] 105-105: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
[error] 110-110: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
[error] 115-115: Avoid passing children using a prop
The canonical way to pass children in React is to use JSX elements
(lint/correctness/noChildrenProp)
🤖 Prompt for AI Agents
In src/components/nanopub/Nanopub.tsx between lines 100 and 117, replace the
usage of the children prop in the Text components with JSX children syntax.
Instead of passing children as a prop, nest the content between the opening and
closing Text tags to follow React's standard practice for passing children.
| // TEMP PRIVATE KEY | ||
| const PRIVATE_KEY = | ||
| "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"; |
There was a problem hiding this comment.
Critical: Remove hardcoded private key.
Hardcoded private keys are a severe security vulnerability. This key should be stored securely and retrieved at runtime.
Consider:
- Store the key in secure environment variables
- Use a key management service
- Generate keys per user/session
- At minimum, move to a configuration file that's not committed to version control
-// TEMP PRIVATE KEY
-const PRIVATE_KEY =
- "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";
+// TODO: Implement secure key management
+const getPrivateKey = () => {
+ // Retrieve from secure storage
+ throw new Error("Private key management not implemented");
+};📝 Committable suggestion
‼️ IMPORTANT
Carefully review the code before committing. Ensure that it accurately replaces the highlighted code, contains no missing lines, and has no issues with indentation. Thoroughly test & benchmark the code to ensure it meets the requirements.
| // TEMP PRIVATE KEY | |
| const PRIVATE_KEY = | |
| "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"; | |
| // TODO: Implement secure key management | |
| const getPrivateKey = () => { | |
| // Retrieve from secure storage | |
| throw new Error("Private key management not implemented"); | |
| }; |
🤖 Prompt for AI Agents
In src/components/nanopub/Nanopub.tsx around lines 66 to 68, the private key is
hardcoded directly in the source code, which is a critical security risk. Remove
the hardcoded private key and instead load it securely at runtime from
environment variables or a secure key management service. If environment
variables are used, update the code to read the key from process.env or a
similar secure source, and ensure the key is not committed to version control by
adding it to .gitignore or equivalent.
| // this is susceptible to duplicate names | ||
| const newOrcid = | ||
| possibleContributors.find((c) => c.name === newName)?.orcid || ""; |
There was a problem hiding this comment.
🛠️ Refactor suggestion
Address the duplicate name vulnerability.
The comment indicates a known issue with duplicate names. This could cause incorrect ORCID assignment if multiple contributors have the same name.
Consider using a unique identifier (like uid) instead of name for contributor lookup:
- // this is susceptible to duplicate names
- const newOrcid =
- possibleContributors.find((c) => c.name === newName)?.orcid || "";
+ // Use the selected contributor's data directly from the menu selection
+ // This would require passing the full contributor object from MenuItemSelect
+ const selectedContributor = possibleContributors.find((c) => c.name === newName);
+ const newOrcid = selectedContributor?.orcid || "";Alternatively, modify the MenuItemSelect to work with the full contributor objects instead of just names.
Committable suggestion skipped: line range outside the PR's diff.
🤖 Prompt for AI Agents
In src/components/nanopub/ContributorManager.tsx around lines 232 to 234, the
code uses contributor names to find ORCID, which risks incorrect matches due to
duplicate names. To fix this, update the lookup to use a unique identifier such
as uid instead of name when searching possibleContributors. Alternatively,
refactor the MenuItemSelect component to handle full contributor objects rather
than just names, ensuring accurate ORCID assignment without relying on
potentially duplicated names.
Publish dgraph nodes to https://nanopub.net/
Summary by CodeRabbit
New Features
Improvements
Chores