npm - nemar-cli - Versions diffs - 0.8.73-PR876.33fe2cd → 0.8.73-PR877.fbd19b5 - Mend

nemar-cli 0.8.73-PR876.33fe2cd → 0.8.73-PR877.fbd19b5

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Files changed (2) hide show

package/dist/index.js +6 -6
package/package.json +1 -1

package/dist/index.js CHANGED Viewed

@@ -95,7 +95,7 @@ ${W.dim(`eta:  ${D.eta}`)}`:"";process.stderr.write(`${F}
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Run: nemar auth login")),process.exit(1);let F=O("Fetching email preferences...").start();try{let $=await lg(D.user),J=$.username?`${$.username}'s`:"Your";F.succeed(`${J} email notification preferences:`),console.log();let Q=[{key:"user_approval",label:"User approval notifications"},{key:"publication_request",label:"Publication request notifications"},{key:"announcements",label:"Announcement emails"}];for(let Y of Q){let X=$[Y.key]?W.green("enabled"):W.dim("disabled");console.log(`  ${Y.label.padEnd(40)} ${X}`)}console.log(),console.log(W.dim("  Use 'nemar admin email-preferences update' to change settings."))}catch($){F.fail("Failed to fetch preferences"),console.error(W.red(L0($)))}});fH.command("update").description("Update email notification preferences").option("--user-approval <bool>","Enable/disable user approval notifications").option("--publication-request <bool>","Enable/disable publication request notifications").option("--announcements <bool>","Enable/disable announcement emails").option("--all <bool>","Enable/disable all notifications").option("--user <username>","(owner only) update another user's preferences").action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);function F(Q){if(Q===void 0)return;let Y=Q.toLowerCase();if(Y==="true"||Y==="1"||Y==="on"||Y==="yes")return!0;if(Y==="false"||Y==="0"||Y==="off"||Y==="no")return!1;console.error(W.red(`Invalid boolean value: "${Q}". Use true/false, on/off, yes/no.`)),process.exit(1)}let $={};if(D.all!==void 0){let Q=F(D.all);$.user_approval=Q,$.publication_request=Q,$.announcements=Q}else{let Q=F(D.userApproval),Y=F(D.publicationRequest),B=F(D.announcements);if(Q===void 0&&Y===void 0&&B===void 0)console.error(W.red("No preferences specified.")),console.log("  --user-approval <bool>        User approval notifications"),console.log("  --publication-request <bool>   Publication request notifications"),console.log("  --announcements <bool>         Announcement emails"),console.log("  --all <bool>                   All notifications"),process.exit(1);if(Q!==void 0)$.user_approval=Q;if(Y!==void 0)$.publication_request=Y;if(B!==void 0)$.announcements=B}let J=O("Updating email preferences...").start();try{let Q=await pg($,D.user),Y=Q.username?`${Q.username}'s`:"Your";J.succeed(`${Y} email preferences updated:`),console.log(),console.log(`  User approval:        ${Q.user_approval?W.green("enabled"):W.dim("disabled")}`),console.log(`  Publication request:   ${Q.publication_request?W.green("enabled"):W.dim("disabled")}`),console.log(`  Announcements:         ${Q.announcements?W.green("enabled"):W.dim("disabled")}`)}catch(Q){J.fail("Failed to update preferences"),console.error(W.red(L0(Q)))}});b0.addCommand(fH);var OQ=new I0("notice").description("Manage system notices displayed to CLI users");OQ.command("list").description("List all notices (including expired)").action(async()=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);let D=O("Fetching notices...").start();try{let{notices:F}=await cg();if(F.length===0){D.succeed("No notices found.");return}D.succeed(`${F.length} notice(s):`),console.log();for(let $ of F){let Q={critical:W.red.bold,warning:W.yellow,info:W.blue}[$.level]||W.white,Y=$.expires_at&&new Date($.expires_at)<new Date?W.dim(" (expired)"):"";if(console.log(`  ${W.dim(`#${$.id}`)} ${Q(`[${$.level.toUpperCase()}]`)} ${W.dim(`scope:${$.scope}`)}${Y}`),console.log(`     ${$.message}`),console.log(`     ${W.dim(`Created: ${$.created_at}`)}`),$.expires_at)console.log(`     ${W.dim(`Expires: ${$.expires_at}`)}`);console.log()}}catch(F){i0(F,D,"Failed to fetch notices")}});OQ.command("set").description("Create a new system notice").requiredOption("-m, --message <text>","Notice message text").option("-l, --level <level>","Notice level: info, warning, critical","info").option("-s, --scope <scope>","Target scope: all, admins, members","all").option("-e, --expires <datetime>","Expiry datetime (ISO 8601)").action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);if(!["info","warning","critical"].includes(D.level))console.error(W.red(`Invalid level: ${D.level}. Use info, warning, or critical.`)),process.exit(1);if(!["all","admins","members"].includes(D.scope))console.error(W.red(`Invalid scope: ${D.scope}. Use all, admins, or members.`)),process.exit(1);let F=O("Creating notice...").start();try{let $=await ng({message:D.message,level:D.level,scope:D.scope,expires_at:D.expires});if(F.succeed(`Notice created (ID: ${$.id})`),console.log(`  Level: ${$.level}`),console.log(`  Scope: ${$.scope}`),console.log(`  Message: ${$.message}`),$.expires_at)console.log(`  Expires: ${$.expires_at}`)}catch($){i0($,F,"Failed to create notice")}});OQ.command("clear <id>").description("Delete a notice by ID").option(j0,w0).option(g0,v0).action(async(D,F)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);let $=Number.parseInt(D,10);if(Number.isNaN($))console.error(W.red("Invalid notice ID")),process.exit(1);if(!await P0(`Delete notice #${$}?`,F,!1))return;let Q=O("Deleting notice...").start();try{await ig($),Q.succeed(`Notice #${$} deleted`)}catch(Y){i0(Y,Q,"Failed to delete notice")}});b0.addCommand(OQ);b0.command("notify").description("Send an email to a group or a single user").option("--to <group>","Recipient group: all, admins, members").option("--user <username>","Send to a single user by username").requiredOption("--subject <text>","Email subject line").option("--body <text>","Email body (markdown)").option("--body-file <path>","Read email body from file (markdown)").option("--dry-run","Preview recipients without sending").option(j0,w0).option(g0,v0).action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);if(D.to&&D.user)console.error(W.red("--to and --user are mutually exclusive. Provide exactly one.")),process.exit(1);if(!D.to&&!D.user)console.error(W.red("Provide either --to <group> or --user <username>.")),process.exit(1);if(D.to&&!["all","admins","members"].includes(D.to))console.error(W.red(`Invalid group: ${D.to}. Use all, admins, or members.`)),process.exit(1);let F;if(D.bodyFile){if(!ah(D.bodyFile))console.error(W.red(`File not found: ${D.bodyFile}`)),process.exit(1);F=JZ0(D.bodyFile,"utf-8")}else if(D.body)F=D.body;else console.error(W.red("Email body required. Use --body or --body-file.")),process.exit(1);let $=D.user?`user:${D.user}`:D.to,J=D.user?{user:D.user,subject:D.subject,body:F}:{to:D.to,subject:D.subject,body:F};if(D.dryRun){let X=O("Checking recipients...").start();try{let G=await lW({...J,dry_run:!0});if("dry_run"in G){X.succeed(`Dry run: ${G.recipient_count} recipient(s) for "${G.recipient_group}"`),console.log();for(let H of G.recipients)console.log(`  ${H}`)}}catch(G){i0(G,X,"Failed to check recipients")}return}console.log(W.bold("Email preview:")),console.log(`  To: ${W.cyan($)}`),console.log(`  Subject: ${D.subject}`),console.log(`  Body: ${F.length>100?`${F.substring(0,100)}...`:F}`),console.log();let Q=D.user?`Send this email to ${D.user}?`:"Send this broadcast email?";if(!await P0(Q,D,!1))return;let B=O(D.user?`Sending to ${D.user}...`:"Sending broadcast...").start();try{let X=await lW(J);if("broadcast_id"in X)if(X.failure_count>0){B.warn(`Email send: ${X.recipient_count} delivered, ${X.failure_count} failed`);for(let G of X.failed_recipients)console.log(W.red(`  Failed: ${G}`))}else{let G=D.user?`Email sent to ${D.user}`:`Broadcast sent to ${X.recipient_count} recipient(s)`;B.succeed(`${G} (ID: ${X.broadcast_id})`)}}catch(X){i0(X,B,"Failed to send email")}});var XZ0=1500;function GZ0(D){switch(D.kind){case"ok":return W.green(`ok    ${D.schema_version}`);case"stale":return W.yellow(`stale ${D.schema_version}`);case"missing":return W.red("missing");case"error":return W.red(`error ${D.status||"?"}: ${D.message}`)}}function WZ0(D){return D.kind==="stale"||D.kind==="missing"}function HZ0(D){let $=D.replace(/[.+^${}()|[\]\\]/g,"\\$&").replace(/\*/g,".*").replace(/\?/g,".");return new RegExp(`^${$}$`)}var eh=new I0("summary").description("summary.json coverage across published dataset versions");eh.command("check").description("Report which (dataset_id, version) pairs have stale or missing summary.json").option("--fix","Dispatch generate-manifest for every stale/missing version").option("--id <id>","Limit to a single dataset_id (exact match)").option("--match <glob>","Limit to dataset_ids matching a glob pattern: `*` matches any run of chars, `?` matches one char. Examples: `on*`, `nm00010?`, `*99999`. Can be combined with --id (id wins if both passed).").option("--only-stale","Print only rows that are not ok (suppresses ok rows)").option("--json","Emit the full report as JSON instead of a table").option(j0,w0).option(g0,v0).action(async(D)=>{if(!T0())return;let F=O("Building coverage report...").start(),$;try{$=await ag()}catch(V){i0(V,F,"Failed to fetch coverage report");return}F.succeed(`Coverage: target=schema ${$.target_schema}, versions=${$.totals.versions}`);let J=$.versions,Q=null;if(D.id){if(J=J.filter((V)=>V.dataset_id===D.id),Q=`dataset_id=${D.id}`,J.length===0){console.log(W.yellow(`No rows for ${Q}`));return}}else if(D.match){let V=HZ0(D.match);if(J=J.filter((z)=>V.test(z.dataset_id)),Q=`--match ${D.match}`,J.length===0){console.log(W.yellow(`No rows match ${Q}`));return}console.log(W.dim(`Scoped to ${J.length} version(s) matching ${D.match}`))}if(D.json){console.log(JSON.stringify(Q?{...$,versions:J,totals:ih(J)}:$,null,2));return}let Y=D.onlyStale?J.filter((V)=>V.state.kind!=="ok"):J;if(Y.length===0)console.log(W.green("All versions at target schema \u2014 no drift."));else{let V=Math.max(...Y.map((Z)=>Z.dataset_id.length),10),z=Math.max(...Y.map((Z)=>Z.version.length),7);for(let Z of Y)console.log(`  ${Z.dataset_id.padEnd(V)}  ${Z.version.padEnd(z)}  ${GZ0(Z.state)}`)}let B=Q?ih(J):$.totals;if(console.log(),console.log(`  Total: ${B.versions}  ${W.green(`ok=${B.ok}`)}  ${W.yellow(`stale=${B.stale}`)}  ${W.red(`missing=${B.missing}`)}  ${W.red(`error=${B.error}`)}`),!D.fix){if(B.stale+B.missing>0)console.log(W.dim(`
+`),Q.length===0){console.log(W.dim("  No import jobs match."));return}console.log(W.dim(`  ${"ID".padEnd(12)} ${"Source".padEnd(12)} ${"Stage".padEnd(10)} ${"Status".padEnd(12)} ${"Updated".padEnd(20)}`)),console.log(W.dim(`  ${"\u2500".repeat(70)}`));for(let B of Q){let X=B.status==="complete"?W.green:B.status==="failed"||B.status==="quarantined"?W.red:B.status==="rolled_back"?W.dim:W.yellow,G=B.updated_at?new Date(B.updated_at).toLocaleString():"-";if(console.log(`  ${B.dataset_id.padEnd(12)} ${(B.source_id||"-").padEnd(12)} ${B.stage.padEnd(10)} ${X(B.status.padEnd(12))} ${G}`),B.last_error)console.log(W.red(`    ${B.last_error}`));if(B.workflow_run_url)console.log(W.dim(`    run: ${B.workflow_run_url}`))}}catch(J){$.fail("Failed to fetch import status"),console.error(W.red(L0(J)))}});RQ.command("rollback").description("Roll back a failed/quarantined import (deletes repo + S3 + D1)").argument("<dataset-id>","NEMAR dataset id (e.g., on007523)").action(async(D)=>{if(!T0())return;let{proceed:F}=await D0.prompt([{type:"confirm",name:"proceed",message:W.red(`Roll back import ${D}? This deletes the GitHub repo, S3 objects, and D1 records. This cannot be undone.`),default:!1}]);if(!F){console.log(W.dim("Cancelled."));return}let $=O(`Rolling back ${D}...`).start();try{let J=await xg(D);if(!J.rolled_back){$.fail(`Rollback incomplete for ${D} (kept quarantined); retry after fixing:`);for(let Q of J.warnings)console.log(W.red(`  - ${Q}`))}else if(J.warnings.length>0){$.warn(`Rolled back ${D} with warnings`);for(let Q of J.warnings)console.log(W.yellow(`  - ${Q}`))}else $.succeed(`Rolled back ${D}`)}catch(J){$.fail(`Failed to roll back ${D}`),console.error(W.red(L0(J)))}});RQ.command("retry").description("Reset a failed/quarantined import to 'preparing' for re-dispatch").argument("<dataset-id>","NEMAR dataset id (e.g., on007523)").action(async(D)=>{if(!T0())return;let F=O(`Resetting ${D}...`).start();try{await _g(D),F.succeed(`${D} reset to 'preparing'. Re-run the onboard-openneuro workflow to retry.`)}catch($){F.fail(`Failed to reset ${D}`),console.error(W.red(L0($)))}});b0.addCommand(RQ);function nh(D,F){let $=D.enrichment.status,J=$==="ok"?W.green("enrich:ok"):$==="failed"?W.red("enrich:failed"):W.dim("enrich:skipped"),Q=D.sync.status,Y=Q==="ok"?W.green("sync:ok"):Q==="failed"?W.red("sync:failed"):W.dim("sync:skipped"),B=D.sync.metadata_columns_written===!0?W.green("cols:written"):D.sync.metadata_columns_error?W.red("cols:failed"):"",X=F?.showRef&&D.enrichment.ref?W.dim(`@${D.enrichment.ref}`):"";if(console.log(`  ${D.dataset_id.padEnd(12)} ${J}${X}  ${Y}  ${B}`),D.enrichment.error)console.log(W.red(`    enrichment: ${D.enrichment.error}`));if(D.sync.metadata_columns_error)console.log(W.red(`    metadata columns: ${D.sync.metadata_columns_error}`))}var CQ=new I0("fleet").description("Governance drift reporting and enforcement (epic #713)");CQ.command("drift").description("Report dataset repos that are off the governance spec").option("--prefix <prefix>","Filter datasets by id prefix (e.g. nm, on)").option("--visibility <vis>","Filter by visibility: public or private").option("--limit <n>","Max repos to scan (default 25, max 50)","25").option("--json","Output raw JSON").action(async(D)=>{if(!H0())console.log(W.red("Error: Not authenticated")),process.exit(1);if(D.visibility&&!["public","private"].includes(D.visibility))console.log(W.red("Error: --visibility must be public or private")),process.exit(1);let F=O("Scanning fleet for drift...").start();try{let $=await bg({prefix:D.prefix,visibility:D.visibility,limit:Number.parseInt(D.limit,10)||25});if(F.stop(),D.json){console.log(JSON.stringify($,null,2));return}console.log(),console.log(W.bold(`Fleet drift (scanned ${$.scanned}):`));let J=["PUBLIC_UNPROTECTED","RED_REQUIRED_CHECK","CONTEXT_NAME_MISMATCH","MISSING_REQUIRED_WORKFLOW","PRIVATE_WITH_STRAY_READ","DEFAULT_BRANCH_OUTLIER","DEPRECATED_WORKFLOW_PRESENT","COMPLIANT"];for(let Q of J){let Y=$.buckets[Q];if(!Y||Y.length===0)continue;let B=Q==="COMPLIANT"?W.green:W.yellow;if(console.log(`  ${B(Q.padEnd(28))} ${Y.length}`),Q!=="COMPLIANT"){let X=Y.slice(0,20).join(", ");console.log(W.dim(`    ${X}${Y.length>20?` ... +${Y.length-20}`:""}`))}}console.log()}catch($){if($ instanceof f)F.fail($.message);else F.fail("Failed to scan fleet"),console.log(W.red(`  ${$.message}`));process.exit(1)}});CQ.command("enforce").description("Bring dataset repos to the governance spec (single or --all). Dry-run by default.").argument("[dataset-id]","Dataset to enforce (omit when using --all)").option("--all","Bulk enforce across a filtered set (owner-only)").option("--apply","Actually apply changes (default is a dry run)").option("--prefix <prefix>","Bulk: filter by id prefix").option("--visibility <vis>","Bulk: filter by visibility (public|private)").option("--limit <n>","Bulk: max repos (default 25, max 50)","25").option("--json","Output raw JSON").action(async(D,F)=>{if(!H0())console.log(W.red("Error: Not authenticated")),process.exit(1);if(!D&&!F.all)console.log(W.red("Error: provide a dataset-id or use --all")),process.exit(1);if(D&&F.all)console.log(W.red("Error: provide a dataset-id OR --all, not both")),process.exit(1);let $=!F.apply,J=$?"[dry-run] ":"",Q=O(`${J}Enforcing spec...`).start();try{if(D){let Y=await IF(D,$);if(Q.succeed(`${J}${D} (${Y.result.visibility})`),F.json){console.log(JSON.stringify(Y,null,2));return}for(let[B,X]of Object.entries(Y.result.steps)){let G=X.status==="ok"?W.green:X.status==="skipped"?W.yellow:W.red;console.log(`  ${G(X.status.padEnd(8))} ${B}${X.detail?W.dim(` (${X.detail})`):""}`)}}else{let Y=await ug({prefix:F.prefix,visibility:F.visibility,limit:Number.parseInt(F.limit,10)||25,dryRun:$});if(Q.succeed(`${J}processed ${Y.count} repo(s)`),F.json){console.log(JSON.stringify(Y,null,2));return}for(let B of Y.results){if(B.error){console.log(`  ${W.red("error")}  ${B.dataset_id}: ${B.error}`);continue}let X=Object.entries(B.steps??{}).filter(([,H])=>H.status!=="ok").map(([H,q])=>`${H}=${q.status}`),G=X.length?W.yellow("drift"):W.green("ok");console.log(`  ${G}    ${B.dataset_id}${X.length?W.dim(` (${X.join(", ")})`):""}`)}}}catch(Y){if(Y instanceof f)Q.fail(Y.message);else Q.fail("Enforcement failed"),console.log(W.red(`  ${Y.message}`));process.exit(1)}});var MQ=(D)=>new Promise((F)=>setTimeout(F,D));async function BZ0(D,F,$){let J=Date.now()+F,Q="no probe completed";while(Date.now()<J){try{let Y=(await IF(D,!0)).result?.steps?.branch_ruleset;if(Y?.status==="ok")return{status:"green"};if(Y?.detail)Q=Y.detail}catch(Y){Q=Y instanceof f?Y.message:String(Y)}await MQ($)}return{status:"timeout",detail:Q}}CQ.command("revalidate").description("Re-run BIDS validation on main HEAD for unprotected datasets, then optionally enforce (epic #713)").argument("[dataset-id]","Dataset to revalidate (omit when using --all/--prefix)").option("--all","Revalidate across unprotected public datasets").option("--prefix <prefix>","Filter by id prefix (with --all), e.g. nm000 / on").option("--enforce","After a dataset goes green, run enforce (dry-run unless --apply)").option("--apply","With --enforce, actually apply the ruleset (default is a dry run)").option("--force","Override the live-dataset guard (nm000103-107)").option("--limit <n>","Max repos for --all/--prefix (default 25)","25").option("--json","Output raw JSON").action(async(D,F)=>{if(!H0())console.log(W.red("Error: Not authenticated")),process.exit(1);let $=Boolean(F.all||!D&&F.prefix);if(!D&&!$)console.log(W.red("Error: provide a dataset-id, or --all/--prefix")),process.exit(1);let J;if(D)J=[D];else{let q=O("Fetching dataset list...").start();try{let K=[];for(let z=0;;z+=200){let Z=await PF({limit:200,offset:z});if(K.push(...Z.datasets),Z.datasets.length<200||K.length>=Z.total_count)break}let V=Number.parseInt(F.limit,10)||25;J=rg(K,{prefix:F.prefix}).slice(0,V),q.succeed(`${J.length} target(s) (from ${K.length} datasets)`)}catch(K){i0(K,q,"Failed to fetch datasets");return}}let Q=Boolean(F.enforce),Y=Boolean(F.apply),B={revalidated:0,green:0,locked:0,stillRed:0,skipped:0,errors:0},X=[],G=[],H=0;for(let q of J){if(H++,pW.has(q)&&!F.force){console.log(`  [${H}/${J.length}] ${W.dim(`${q}: skip (live; use --force)`)}`),B.skipped++;continue}try{let K=await mg(q,F.force);if(X.push(K),K.skipped)console.log(`  [${H}/${J.length}] ${q}: ${W.dim(`skipped (${K.skipped})`)}`),B.skipped++;else B.revalidated++,G.push(q),console.log(`  [${H}/${J.length}] ${q}: ${W.cyan(`revalidating (${K.triggered_by})`)}`)}catch(K){B.errors++,console.log(`  [${H}/${J.length}] ${q}: ${W.red(K instanceof f?K.message:String(K))}`)}if(H<J.length)await MQ(4000)}if(Q&&G.length>0)if(D){let q=G[0],K=O(`Waiting for ${q} validation to land...`).start(),V=await BZ0(q,300000,15000);if(V.status!=="green")K.warn(`${q}: not green within 5m \u2014 last: ${V.detail} (real errors or still running)`),B.stillRed++;else if(B.green++,!Y)K.succeed(`${q}: green (would lock; pass --apply)`);else{let z=await IF(q,!1);if(z.result?.steps?.branch_ruleset?.status==="ok")K.succeed(`${q}: LOCKED`),B.locked++;else K.warn(`${q}: enforce ${z.result?.steps?.branch_ruleset?.status??"?"}`)}}else{let q=O("Waiting ~90s for validations to drain...").start();await MQ(90000),q.text="Enforcing green datasets...";for(let K of G)try{if((await IF(K,!0)).result?.steps?.branch_ruleset?.status!=="ok"){B.stillRed++;continue}if(B.green++,Y){if((await IF(K,!1)).result?.steps?.branch_ruleset?.status==="ok")B.locked++}}catch{B.errors++}q.stop()}if(F.json){console.log(JSON.stringify({tally:B,raw:X},null,2));return}console.log(),console.log(W.cyan(`Done: revalidated=${B.revalidated} green=${B.green} locked=${B.locked} still-red=${B.stillRed} skipped=${B.skipped} errors=${B.errors}`))});b0.addCommand(CQ);var rh=new I0("reindex").description("Refresh dataset metadata: enrichment + nemar.org sync + first-class D1 columns");rh.argument("[dataset-id]","Dataset ID to reindex (e.g., nm000103)").option("--all","Reindex every dataset with a GitHub repo").option("--missing-metadata","Reindex only datasets with NULL metadata columns").option("--stale","Reindex only datasets whose metadata is older than --older-than days").option("--older-than <days>","Threshold in days. Default 30 for --stale, 1 (24h) for --missing-metadata recency guard.").option("--skip-enrichment","Skip the LLM enrichment step").option("--skip-sync","Skip the nemar.org sync + D1 column refresh step").option("--ref <ref>","Ref to enrich from (single-dataset only; default: main)").option("--dry-run","List matched datasets without firing the reindex (bulk only)").action(async(D,F)=>{if(!T0())return;let $=[F.all,F.missingMetadata,F.stale].filter(Boolean).length;if(D&&$>0)console.error(W.red("Provide either a dataset-id OR a bulk flag (--all/--missing-metadata/--stale), not both")),process.exit(1);if(!D&&$===0)console.error(W.red("Provide a dataset-id or one of: --all, --missing-metadata, --stale")),process.exit(1);if($>1)console.error(W.red("Use only one of --all, --missing-metadata, --stale")),process.exit(1);if(F.skipEnrichment&&F.skipSync)console.error(W.red("--skip-enrichment and --skip-sync cannot both be set")),process.exit(1);if(D){let K=O(`Reindexing ${D}...`).start();try{let V={skip_enrichment:F.skipEnrichment===!0,skip_sync:F.skipSync===!0,...F.ref&&{ref:F.ref}},z=await WQ(D,V),Z=z.enrichment.status!=="failed"&&z.sync.status!=="failed";if(Z)K.succeed(`${D} reindexed`);else K.warn(`${D} reindexed with errors`);if(console.log(),nh(z,{showRef:!0}),!Z)process.exit(1)}catch(V){K.fail(`Failed to reindex ${D}`),console.error(W.red(L0(V))),process.exit(1)}return}let J=F.all?"all":F.missingMetadata?"missing-metadata":"stale",Q={skip_enrichment:F.skipEnrichment===!0,skip_sync:F.skipSync===!0,dry_run:F.dryRun===!0};if(F.olderThan!==void 0){let K=Number.parseInt(F.olderThan,10);if(!Number.isFinite(K)||K<0)console.error(W.red(`Invalid --older-than: "${F.olderThan}"`)),process.exit(1);Q.older_than_days=K}else if(J==="missing-metadata")Q.older_than_days=1;else if(J==="stale")Q.older_than_days=30;let Y=F.dryRun?`Listing ${J} datasets...`:`Reindexing ${J} datasets...`,B=O(Y).start(),X;try{X=await fg(J,Q)}catch(K){B.fail("Bulk reindex failed"),console.error(W.red(L0(K))),process.exit(1)}if(X.dry_run){if(B.succeed(`${X.total} datasets match filter=${J} (dry run, no changes)`),X.datasets)for(let K of X.datasets)console.log(W.dim(`  - ${K}`));return}let G=X.results??[],H=G.filter((K)=>K.enrichment.status!=="failed"&&K.sync.status!=="failed").length,q=G.length-H;if(q===0)B.succeed(`${G.length}/${G.length} datasets reindexed in ${(X.elapsed_ms/1000).toFixed(1)}s`);else B.warn(`${H}/${G.length} ok; ${q} failed in ${(X.elapsed_ms/1000).toFixed(1)}s`);console.log();for(let K of G)nh(K);if(q>0)process.exit(1)});b0.addCommand(rh);var th=new I0("hed-sweep").description("Backfill HED detection (has_hed / hed_version) for existing datasets (#869)");th.option("--limit <n>","Datasets per batch (server clamps to [1,30])","15").option("--reset","Clear every probed HED row so a corrected detector can re-sweep").option("--verbose","Print per-batch progress").option("--json","Output raw JSON instead of the human summary").action(async(D)=>{if(!T0())return;if(D.reset){let X=O("Resetting HED sweep state...").start();try{let G=await hg();if(X.succeed(`Cleared ${G.reset} probed HED row(s); eligible datasets are candidates again`),D.json)console.log(JSON.stringify(G,null,2))}catch(G){X.fail("Reset failed"),console.error(W.red(L0(G))),process.exit(1)}return}let F=Number.parseInt(D.limit??"15",10)||15,$={processed:0,withHed:0,withoutHed:0,unknown:0,errors:0},J=O("Sweeping datasets for HED...").start(),Q=0,Y=null,B=null;try{let X;do{if(X=await gg({limit:F}),Q++,$.processed+=X.processed,$.withHed+=X.withHed,$.withoutHed+=X.withoutHed,$.unknown+=X.unknown,$.errors+=X.errors.length,Y=X.remaining,D.verbose){J.stop(),console.log(`  [batch ${Q}] processed=${X.processed} hed=${X.withHed} no-hed=${X.withoutHed} unknown=${X.unknown} errors=${X.errors.length} remaining=${Y??"?"}`);for(let G of X.errors)console.log(`    ${W.red(G.dataset_id)}: ${G.error}`);J.start("Sweeping datasets for HED...")}else J.text=`Sweeping datasets for HED... ${$.processed} processed, ${Y??"?"} remaining`;if(Y!=null&&B!=null&&Y>=B){J.warn(`No progress (remaining stuck at ${Y}); stopping - see errors`);break}if(B=Y,(Y??0)>0)await MQ(1000)}while((Y??0)>0);J.stop()}catch(X){J.fail("HED sweep failed"),console.error(W.red(L0(X))),process.exit(1)}if(D.json)console.log(JSON.stringify({...$,batches:Q,remaining:Y},null,2));else{if(console.log(),Y===null)console.log(W.yellow("Warning: backend returned a null remaining count; the sweep may be incomplete - check server logs."));console.log(W.cyan(`Done in ${Q} batch(es): processed=${$.processed} hed=${$.withHed} no-hed=${$.withoutHed} unknown=${$.unknown} errors=${$.errors} remaining=${Y??"unknown"}`))}if($.errors>0||Y===null)process.exit(1)});b0.addCommand(th);var fH=new I0("email-preferences").description("Manage email notification preferences");fH.command("show").description("Show email notification preferences").option("--user <username>","(owner only) show another user's preferences").action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);let F=O("Fetching email preferences...").start();try{let $=await lg(D.user),J=$.username?`${$.username}'s`:"Your";F.succeed(`${J} email notification preferences:`),console.log();let Q=[{key:"user_approval",label:"User approval notifications"},{key:"publication_request",label:"Publication request notifications"},{key:"announcements",label:"Announcement emails"}];for(let Y of Q){let X=$[Y.key]?W.green("enabled"):W.dim("disabled");console.log(`  ${Y.label.padEnd(40)} ${X}`)}console.log(),console.log(W.dim("  Use 'nemar admin email-preferences update' to change settings."))}catch($){F.fail("Failed to fetch preferences"),console.error(W.red(L0($)))}});fH.command("update").description("Update email notification preferences").option("--user-approval <bool>","Enable/disable user approval notifications").option("--publication-request <bool>","Enable/disable publication request notifications").option("--announcements <bool>","Enable/disable announcement emails").option("--all <bool>","Enable/disable all notifications").option("--user <username>","(owner only) update another user's preferences").action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);function F(Q){if(Q===void 0)return;let Y=Q.toLowerCase();if(Y==="true"||Y==="1"||Y==="on"||Y==="yes")return!0;if(Y==="false"||Y==="0"||Y==="off"||Y==="no")return!1;console.error(W.red(`Invalid boolean value: "${Q}". Use true/false, on/off, yes/no.`)),process.exit(1)}let $={};if(D.all!==void 0){let Q=F(D.all);$.user_approval=Q,$.publication_request=Q,$.announcements=Q}else{let Q=F(D.userApproval),Y=F(D.publicationRequest),B=F(D.announcements);if(Q===void 0&&Y===void 0&&B===void 0)console.error(W.red("No preferences specified.")),console.log("  --user-approval <bool>        User approval notifications"),console.log("  --publication-request <bool>   Publication request notifications"),console.log("  --announcements <bool>         Announcement emails"),console.log("  --all <bool>                   All notifications"),process.exit(1);if(Q!==void 0)$.user_approval=Q;if(Y!==void 0)$.publication_request=Y;if(B!==void 0)$.announcements=B}let J=O("Updating email preferences...").start();try{let Q=await pg($,D.user),Y=Q.username?`${Q.username}'s`:"Your";J.succeed(`${Y} email preferences updated:`),console.log(),console.log(`  User approval:        ${Q.user_approval?W.green("enabled"):W.dim("disabled")}`),console.log(`  Publication request:   ${Q.publication_request?W.green("enabled"):W.dim("disabled")}`),console.log(`  Announcements:         ${Q.announcements?W.green("enabled"):W.dim("disabled")}`)}catch(Q){J.fail("Failed to update preferences"),console.error(W.red(L0(Q)))}});b0.addCommand(fH);var OQ=new I0("notice").description("Manage system notices displayed to CLI users");OQ.command("list").description("List all notices (including expired)").action(async()=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);let D=O("Fetching notices...").start();try{let{notices:F}=await cg();if(F.length===0){D.succeed("No notices found.");return}D.succeed(`${F.length} notice(s):`),console.log();for(let $ of F){let Q={critical:W.red.bold,warning:W.yellow,info:W.blue}[$.level]||W.white,Y=$.expires_at&&new Date($.expires_at)<new Date?W.dim(" (expired)"):"";if(console.log(`  ${W.dim(`#${$.id}`)} ${Q(`[${$.level.toUpperCase()}]`)} ${W.dim(`scope:${$.scope}`)}${Y}`),console.log(`     ${$.message}`),console.log(`     ${W.dim(`Created: ${$.created_at}`)}`),$.expires_at)console.log(`     ${W.dim(`Expires: ${$.expires_at}`)}`);console.log()}}catch(F){i0(F,D,"Failed to fetch notices")}});OQ.command("set").description("Create a new system notice").requiredOption("-m, --message <text>","Notice message text").option("-l, --level <level>","Notice level: info, warning, critical","info").option("-s, --scope <scope>","Target scope: all, admins, members","all").option("-e, --expires <datetime>","Expiry datetime (ISO 8601)").action(async(D)=>{if(!H0())console.error(W.red("Not authenticated. Run: nemar auth login")),process.exit(1);if(!["info","warning","critical"].includes(D.level))console.error(W.red(`Invalid level: ${D.level}. Use info, warning, or critical.`)),process.exit(1);if(!["all","admins","members"].includes(D.scope))console.error(W.red(`Invalid scope: ${D.scope}. Use all, admins, or members.`)),process.exit(1);let F=O("Creating notice...").start();try{let $=await ng({message:D.message,level:D.level,scope:D.scope,expires_at:D.expires});if(F.succeed(`Notice created (ID: ${$.id})`),console.log(`  Level: ${$.level}`),console.log(`  Scope: ${$.scope}`),console.log(`  Message: ${$.message}`),$.expires_at)console.log(`  Expires: ${$.expires_at}`)}catch($){i0($,F,"Failed to create notice")}});OQ.command("clear <id>").description("Delete a notice by ID").option(j0,w0).option(g0,v0).action(async(D,F)=>{if(!H0())console.error(W.red("Not authenticated. 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Provide exactly one.")),process.exit(1);if(!D.to&&!D.user)console.error(W.red("Provide either --to <group> or --user <username>.")),process.exit(1);if(D.to&&!["all","admins","members"].includes(D.to))console.error(W.red(`Invalid group: ${D.to}. Use all, admins, or members.`)),process.exit(1);let F;if(D.bodyFile){if(!ah(D.bodyFile))console.error(W.red(`File not found: ${D.bodyFile}`)),process.exit(1);F=JZ0(D.bodyFile,"utf-8")}else if(D.body)F=D.body;else console.error(W.red("Email body required. Use --body or --body-file.")),process.exit(1);let $=D.user?`user:${D.user}`:D.to,J=D.user?{user:D.user,subject:D.subject,body:F}:{to:D.to,subject:D.subject,body:F};if(D.dryRun){let X=O("Checking recipients...").start();try{let G=await lW({...J,dry_run:!0});if("dry_run"in G){X.succeed(`Dry run: ${G.recipient_count} recipient(s) for "${G.recipient_group}"`),console.log();for(let H of G.recipients)console.log(`  ${H}`)}}catch(G){i0(G,X,"Failed to check recipients")}return}console.log(W.bold("Email preview:")),console.log(`  To: ${W.cyan($)}`),console.log(`  Subject: ${D.subject}`),console.log(`  Body: ${F.length>100?`${F.substring(0,100)}...`:F}`),console.log();let Q=D.user?`Send this email to ${D.user}?`:"Send this broadcast email?";if(!await P0(Q,D,!1))return;let B=O(D.user?`Sending to ${D.user}...`:"Sending broadcast...").start();try{let X=await lW(J);if("broadcast_id"in X)if(X.failure_count>0){B.warn(`Email send: ${X.recipient_count} delivered, ${X.failure_count} failed`);for(let G of X.failed_recipients)console.log(W.red(`  Failed: ${G}`))}else{let G=D.user?`Email sent to ${D.user}`:`Broadcast sent to ${X.recipient_count} recipient(s)`;B.succeed(`${G} (ID: ${X.broadcast_id})`)}}catch(X){i0(X,B,"Failed to send email")}});var XZ0=1500;function GZ0(D){switch(D.kind){case"ok":return W.green(`ok    ${D.schema_version}`);case"stale":return W.yellow(`stale ${D.schema_version}`);case"missing":return W.red("missing");case"error":return W.red(`error ${D.status||"?"}: ${D.message}`)}}function WZ0(D){return D.kind==="stale"||D.kind==="missing"}function HZ0(D){let $=D.replace(/[.+^${}()|[\]\\]/g,"\\$&").replace(/\*/g,".*").replace(/\?/g,".");return new RegExp(`^${$}$`)}var eh=new I0("summary").description("summary.json coverage across published dataset versions");eh.command("check").description("Report which (dataset_id, version) pairs have stale or missing summary.json").option("--fix","Dispatch generate-manifest for every stale/missing version").option("--id <id>","Limit to a single dataset_id (exact match)").option("--match <glob>","Limit to dataset_ids matching a glob pattern: `*` matches any run of chars, `?` matches one char. Examples: `on*`, `nm00010?`, `*99999`. Can be combined with --id (id wins if both passed).").option("--only-stale","Print only rows that are not ok (suppresses ok rows)").option("--json","Emit the full report as JSON instead of a table").option(j0,w0).option(g0,v0).action(async(D)=>{if(!T0())return;let F=O("Building coverage report...").start(),$;try{$=await ag()}catch(V){i0(V,F,"Failed to fetch coverage report");return}F.succeed(`Coverage: target=schema ${$.target_schema}, versions=${$.totals.versions}`);let J=$.versions,Q=null;if(D.id){if(J=J.filter((V)=>V.dataset_id===D.id),Q=`dataset_id=${D.id}`,J.length===0){console.log(W.yellow(`No rows for ${Q}`));return}}else if(D.match){let V=HZ0(D.match);if(J=J.filter((z)=>V.test(z.dataset_id)),Q=`--match ${D.match}`,J.length===0){console.log(W.yellow(`No rows match ${Q}`));return}console.log(W.dim(`Scoped to ${J.length} version(s) matching ${D.match}`))}if(D.json){console.log(JSON.stringify(Q?{...$,versions:J,totals:ih(J)}:$,null,2));return}let Y=D.onlyStale?J.filter((V)=>V.state.kind!=="ok"):J;if(Y.length===0)console.log(W.green("All versions at target schema \u2014 no drift."));else{let V=Math.max(...Y.map((Z)=>Z.dataset_id.length),10),z=Math.max(...Y.map((Z)=>Z.version.length),7);for(let Z of Y)console.log(`  ${Z.dataset_id.padEnd(V)}  ${Z.version.padEnd(z)}  ${GZ0(Z.state)}`)}let B=Q?ih(J):$.totals;if(console.log(),console.log(`  Total: ${B.versions}  ${W.green(`ok=${B.ok}`)}  ${W.yellow(`stale=${B.stale}`)}  ${W.red(`missing=${B.missing}`)}  ${W.red(`error=${B.error}`)}`),!D.fix){if(B.stale+B.missing>0)console.log(W.dim(`
 Run with --fix to dispatch generate-manifest for the ${B.stale+B.missing} drifted version(s).`));return}let X=J.filter((V)=>WZ0(V.state));if(X.length===0){console.log(W.green(`
 Nothing to dispatch.`));return}let G=Q?` (scoped to ${Q})`:"",H=await P0(`Dispatch generate-manifest for ${X.length} version(s)${G}? Each dispatch queues a runner job on nemarDatasets/.github.`,D);if(H!=="confirmed"){console.log(W.dim(H==="declined"?"Skipped":"Cancelled"));return}let q=0,K=0;console.log();for(let[V,z]of X.entries()){let Z=`${z.dataset_id}@${z.version}`,U=O(`[${V+1}/${X.length}] dispatching ${Z}...`).start();try{await og(z.dataset_id,z.version),U.succeed(`[${V+1}/${X.length}] dispatched ${Z}`),q++}catch(M){U.fail(`[${V+1}/${X.length}] ${Z}: ${L0(M)}`),K++}if(V<X.length-1)await new Promise((M)=>setTimeout(M,XZ0))}if(console.log(),console.log(K===0?W.green(`All ${q} dispatches succeeded.`):W.yellow(`${q} succeeded, ${K} failed.`)),console.log(W.dim("Workflow runs will appear on https://github.com/nemarDatasets/.github/actions. Re-run `nemar admin summary check` once they complete to verify drift cleared.")),K>0)process.exitCode=1});function ih(D){return{versions:D.length,ok:D.filter((F)=>F.state.kind==="ok").length,stale:D.filter((F)=>F.state.kind==="stale").length,missing:D.filter((F)=>F.state.kind==="missing").length,error:D.filter((F)=>F.state.kind==="error").length}}b0.addCommand(eh);ND();k6();c3();n8();x4();r8();var Db={git:{name:"git",purpose:"version control for dataset metadata",cmd:["git","--version"],required:!0,installInstructions:{macos:"brew install git  (or install Xcode Command Line Tools)",linux:"sudo apt-get install git  OR  sudo dnf install git",windows:"winget install Git.Git  (or https://git-scm.com/download/win)"}},"git-annex":{name:"git-annex",purpose:"large-file data transfer (upload/download)",cmd:["git-annex","version"],required:!0,installInstructions:{macos:"brew install git-annex",linux:"sudo apt-get install git-annex  OR  sudo dnf install git-annex",windows:"Download the installer from https://git-annex.branchable.com/install/Windows/"}},gh:{name:"GitHub CLI (gh)",purpose:"GitHub authentication + repository operations",cmd:["gh","--version"],required:!0,installInstructions:{macos:"brew install gh",linux:"See https://cli.github.com/manual/installation",windows:"winget install GitHub.cli  (or: scoop install gh)"}},aws:{name:"AWS CLI",purpose:"S3 data upload/download",cmd:["aws","--version"],required:!0,installInstructions:{macos:"brew install awscli",linux:"pip install awscli  OR  sudo snap install aws-cli --classic",windows:"winget install Amazon.AWSCLI  (or the MSI from https://aws.amazon.com/cli/)"}},deno:{name:"Deno",purpose:"BIDS validation",cmd:["deno","--version"],required:!0,installInstructions:{macos:"brew install deno  (or: curl -fsSL https://deno.land/install.sh | sh)",linux:"curl -fsSL https://deno.land/install.sh | sh",windows:"winget install DenoLand.Deno  (or: irm https://deno.land/install.ps1 | iex)"}}},qZ0={upload:["git-annex","gh","aws","deno"],download:["gh"],clone:["git","gh"],push:["git-annex","gh"],publish:["gh","aws"],update:["git","gh"],release:["git","gh"]};function KZ0(){if(process.platform==="darwin")return"macos";if(process.platform==="win32")return"windows";return"linux"}function Fb(D,F=KZ0()){return D.installInstructions[F]}function zZ0(D){let F=D.match(/(\d+\.\d+(?:\.\d+)?)/);return F?F[1]:void 0}async function $b(D){try{let{exitCode:F,stdout:$}=await T(D.cmd);if(F!==0)return{available:!1};return{available:!0,version:zZ0($)}}catch(F){let $=F instanceof Error?F.message:String(F);if(!$.includes("ENOENT")&&!$.includes("not found"))console.error(`  Warning: ${D.name} check failed unexpectedly: ${$}`);return{available:!1}}}async function gH(){let D=Object.entries(Db);return Promise.all(D.map(async([F,$])=>{let{available:J,version:Q}=await $b($);return{key:F,name:$.name,purpose:$.purpose,required:$.required,available:J,version:Q,installInstruction:Fb($)}}))}async function Jb(){let F=(await gH()).filter(($)=>$.required&&!$.available);if(F.length===0)return[];console.warn(`
 Heads up: some tools NEMAR needs for uploading/validating aren't installed yet:`);for(let $ of F)console.warn(`  - ${$.name} (${$.purpose})`),console.warn(`      Install: ${$.installInstruction}`);return console.warn("Run `nemar doctor` anytime to re-check. You can finish signup without them.\n"),F}async function u4(D){let $=qZ0[D].map((B)=>Db[B]).filter(Boolean),Q=(await Promise.all($.map(async(B)=>({check:B,available:(await $b(B)).available})))).filter((B)=>!B.available&&B.check.required).map((B)=>({tool:B.check.name,installInstruction:Fb(B.check)}));if(Q.length===0)return;let Y=[`
@@ -620,7 +620,7 @@ Description:
 Examples:
   $ nemar dataset status nm000104
-  $ nemar dataset status nm000104 --json | jq '.concept_doi'`).action(async(D,F)=>{let $=O(`Fetching dataset info for ${D}...`).start(),J;try{J=await gD(D),$.stop()}catch(Q){if($.fail("Dataset not found"),Q instanceof f)console.log(W.red(`  ${Q.message}`));else console.log(W.red(`  ${Q.message}`));process.exit(1)}if(F.json){console.log(JSON.stringify(J,null,2));return}if(console.log(),console.log(W.bold(`Dataset: ${J.dataset_id}`)),console.log(),console.log(`  Name:        ${J.name}`),console.log(`  Owner:       ${J.owner_username}`),console.log(`  Status:      ${AU0(J.status)}`),console.log(`  Created:     ${new Date(J.created_at).toLocaleDateString()}`),J.description)console.log(`  Description: ${J.description}`);if(J.github_repo)console.log(`  GitHub:      https://github.com/${J.github_repo}`);if(J.concept_doi)console.log(`  DOI:         https://doi.org/${J.concept_doi}`);console.log(),console.log(W.dim("To download this dataset:")),console.log(W.dim(`  nemar dataset download ${D}`))});async function LU0(D){if(!vb(D))return D;let F=null;try{F=await Hg(D)}catch(J){return console.log(W.dim(`Could not check NEMAR availability: ${J.message}`)),null}if(!F?.found||!F.dataset_id)return null;console.log(),console.log(W.green(`This dataset is available on NEMAR as ${W.bold(F.dataset_id)}`)),console.log(W.dim("NEMAR provides git-annex version tracking and selective file download."));let{useNemarBackend:$}=await D0.prompt([{type:"confirm",name:"useNemarBackend",message:`Download from NEMAR (${F.dataset_id}) instead of OpenNeuro?`,default:!0}]);return $?F.dataset_id:null}function AU0(D){switch(D.toLowerCase()){case"published":return W.green(D);case"active":return W.blue(D);case"archived":return W.dim(D);case"pending":return W.yellow(D);default:return D}}function MU0(D,F){let{offset:$,totalCount:J}=F,Q=$+1,Y=$+D.length,B=J>D.length?`${Q}-${Y} of ${J}`:`${J}`;console.log(),console.log(W.bold(`Datasets (${B}):`)),console.log();let X=(Z)=>Z.dataset_id||Z.id||"",G=Math.max(10,...D.map((Z)=>X(Z).length)),H=Math.min(30,Math.max(10,...D.map((Z)=>Z.name.length))),q=10,K=8,V=Math.max(8,...D.map((Z)=>(Z.owner_username||"-").length)),z=["ID".padEnd(G),"Name".padEnd(H),"Modality".padEnd(q),"Subj".padEnd(K),"Owner".padEnd(V),"Status"].join("  ");console.log(W.dim(z)),console.log(W.dim("-".repeat(z.length)));for(let Z of D){let U=X(Z),M=Z.name.length>H?`${Z.name.substring(0,H-3)}...`:Z.name,A=(Z.modalities||"").substring(0,q),C=Z.participants?String(Z.participants):"-",j=Z.owner_username||"-",I=Z.visibility==="public"?W.green("pub"):W.yellow("prv"),R;if(Z.source_type==="catalog")R=W.dim(U.padEnd(G));else R=W.cyan(U.padEnd(G));let w=Z.source_type==="catalog"?W.dim(M):M,v=[R,w.padEnd(H+(Z.source_type==="catalog"?W.dim("").length:0)),A.padEnd(q),C.padEnd(K),j.padEnd(V),I].join("  ");console.log(v)}if(console.log(),J>Y){let Z=Math.floor($/F.limit)+1,U=Math.ceil(J/F.limit);console.log(W.dim(`Page ${Z}/${U}. Next: nemar dataset list --page ${Z+1}`))}console.log(W.dim(`  * = not synced to nemar.org    ${W.dim("dim")} = catalog-only (not on GitHub)`)),console.log(W.dim("For details: nemar dataset status <dataset-id>")),console.log(W.dim("Search: nemar dataset search <query>"))}t0.command("list").description("List datasets on NEMAR (full catalog)").option("--mine","List only your datasets (both private and public)").option("--owner <username>","List datasets owned by a specific user").option("--search <query>","Search by name, description, authors, or tasks").option("--modality <type>","Filter by modality (eeg, emg, meg, etc.)").option("--author <name>","Filter by author name").option("--task <name>","Filter by task name").option("--license <tiers>","Filter by license tier(s), comma-separated: public, attribution, sharealike, noncommercial, noderiv, unknown").option("--doi","Show only datasets with DOIs").option("--recent [days]","Show recently published datasets").option("--sort <order>","Sort: newest, oldest, name, participants, size","newest").option("--json","Output as JSON for scripting").option("-n, --limit <n>","Results per page (default: 20, max: 200)","20").option("--page <n>","Page number (starts at 1)").option("--offset <n>","Skip this many results (alternative to --page)").option("--all","Show all results (up to 200)").addHelpText("after",`
+  $ nemar dataset status nm000104 --json | jq '.concept_doi'`).action(async(D,F)=>{let $=O(`Fetching dataset info for ${D}...`).start(),J;try{J=await gD(D),$.stop()}catch(Q){if($.fail("Dataset not found"),Q instanceof f)console.log(W.red(`  ${Q.message}`));else console.log(W.red(`  ${Q.message}`));process.exit(1)}if(F.json){console.log(JSON.stringify(J,null,2));return}if(console.log(),console.log(W.bold(`Dataset: ${J.dataset_id}`)),console.log(),console.log(`  Name:        ${J.name}`),console.log(`  Owner:       ${J.owner_username}`),console.log(`  Status:      ${AU0(J.status)}`),console.log(`  Created:     ${new Date(J.created_at).toLocaleDateString()}`),J.description)console.log(`  Description: ${J.description}`);if(J.github_repo)console.log(`  GitHub:      https://github.com/${J.github_repo}`);if(J.concept_doi)console.log(`  DOI:         https://doi.org/${J.concept_doi}`);console.log(),console.log(W.dim("To download this dataset:")),console.log(W.dim(`  nemar dataset download ${D}`))});async function LU0(D){if(!vb(D))return D;let F=null;try{F=await Hg(D)}catch(J){return console.log(W.dim(`Could not check NEMAR availability: ${J.message}`)),null}if(!F?.found||!F.dataset_id)return null;console.log(),console.log(W.green(`This dataset is available on NEMAR as ${W.bold(F.dataset_id)}`)),console.log(W.dim("NEMAR provides git-annex version tracking and selective file download."));let{useNemarBackend:$}=await D0.prompt([{type:"confirm",name:"useNemarBackend",message:`Download from NEMAR (${F.dataset_id}) instead of OpenNeuro?`,default:!0}]);return $?F.dataset_id:null}function AU0(D){switch(D.toLowerCase()){case"published":return W.green(D);case"active":return W.blue(D);case"archived":return W.dim(D);case"pending":return W.yellow(D);default:return D}}function MU0(D,F){let{offset:$,totalCount:J}=F,Q=$+1,Y=$+D.length,B=J>D.length?`${Q}-${Y} of ${J}`:`${J}`;console.log(),console.log(W.bold(`Datasets (${B}):`)),console.log();let X=(Z)=>Z.dataset_id||Z.id||"",G=Math.max(10,...D.map((Z)=>X(Z).length)),H=Math.min(30,Math.max(10,...D.map((Z)=>Z.name.length))),q=10,K=8,V=Math.max(8,...D.map((Z)=>(Z.owner_username||"-").length)),z=["ID".padEnd(G),"Name".padEnd(H),"Modality".padEnd(q),"Subj".padEnd(K),"HED".padEnd(3),"Owner".padEnd(V),"Status"].join("  ");console.log(W.dim(z)),console.log(W.dim("-".repeat(z.length)));for(let Z of D){let U=X(Z),M=Z.name.length>H?`${Z.name.substring(0,H-3)}...`:Z.name,A=(Z.modalities||"").substring(0,q),C=Z.participants?String(Z.participants):"-",j=Z.owner_username||"-",I=Z.visibility==="public"?W.green("pub"):W.yellow("prv"),R;if(Z.source_type==="catalog")R=W.dim(U.padEnd(G));else R=W.cyan(U.padEnd(G));let w=Z.source_type==="catalog"?W.dim(M):M,v=[R,w.padEnd(H+(Z.source_type==="catalog"?W.dim("").length:0)),A.padEnd(q),C.padEnd(K),Z.has_hed===1?W.magenta("HED".padEnd(3)):W.dim("-".padEnd(3)),j.padEnd(V),I].join("  ");console.log(v)}if(console.log(),J>Y){let Z=Math.floor($/F.limit)+1,U=Math.ceil(J/F.limit);console.log(W.dim(`Page ${Z}/${U}. Next: nemar dataset list --page ${Z+1}`))}console.log(W.dim(`  * = not synced to nemar.org    ${W.dim("dim")} = catalog-only (not on GitHub)`)),console.log(W.dim("For details: nemar dataset status <dataset-id>")),console.log(W.dim("Search: nemar dataset search <query>"))}t0.command("list").description("List datasets on NEMAR (full catalog)").option("--mine","List only your datasets (both private and public)").option("--owner <username>","List datasets owned by a specific user").option("--search <query>","Search by name, description, authors, or tasks").option("--modality <type>","Filter by modality (eeg, emg, meg, etc.)").option("--author <name>","Filter by author name").option("--task <name>","Filter by task name").option("--license <tiers>","Filter by license tier(s), comma-separated: public, attribution, sharealike, noncommercial, noderiv, unknown").option("--doi","Show only datasets with DOIs").option("--hed","Show only datasets with HED annotations").option("--recent [days]","Show recently published datasets").option("--sort <order>","Sort: newest, oldest, name, participants, size","newest").option("--json","Output as JSON for scripting").option("-n, --limit <n>","Results per page (default: 20, max: 200)","20").option("--page <n>","Page number (starts at 1)").option("--offset <n>","Skip this many results (alternative to --page)").option("--all","Show all results (up to 200)").addHelpText("after",`
 Description:
   Lists the full NEMAR catalog, including legacy datasets from nemar.org
   and datasets managed via nemar-cli. Shows 20 results per page by default.
@@ -651,8 +651,8 @@ Examples:
   $ nemar dataset list --license public,attribution  # Permissive licenses
   $ nemar dataset list --search "motor"        # Search by keyword
   $ nemar dataset list --doi --sort size       # Published, by size
-  $ nemar dataset search "resting state EEG"   # Semantic search`).action(async(D)=>{if(D.mine&&D.owner)console.log(W.red("Error: --mine and --owner cannot be used together")),console.log("Use --mine for your datasets, or --owner <username> for another user's."),process.exit(1);if(D.mine&&!H0())console.log(W.red("Error: Not authenticated")),console.log("Run 'nemar auth login' to see your datasets"),process.exit(1);if(D.license){let X=["public","attribution","sharealike","noncommercial","noderiv","unknown"],G=D.license.split(",").map((H)=>H.trim().toLowerCase()).filter((H)=>H&&!X.includes(H));if(G.length>0)console.log(W.red(`Error: invalid license tier(s): ${G.join(", ")}`)),console.log(`Valid tiers: ${X.join(", ")}`),process.exit(1)}let F=D.all?200:Math.min(Number.parseInt(D.limit,10)||20,200),$=0;if(D.page)$=(Math.max(Number.parseInt(D.page,10)||1,1)-1)*F;else if(D.offset)$=Math.max(Number.parseInt(D.offset,10)||0,0);let J=O("Fetching datasets...").start(),Q;try{Q=await PF({mine:!!D.mine,search:D.search,modality:D.modality,author:D.author,task:D.task,license:D.license,hasDoi:!!D.doi,recent:D.recent?Number.parseInt(D.recent,10)||30:void 0,sort:D.sort,limit:F,offset:$,owner:D.owner}),J.stop()}catch(X){if(J.fail("Failed to fetch datasets"),X instanceof f)console.log(W.red(`  ${X.message}`));else console.log(W.red(`  ${X.message}`));process.exit(1)}let Y=Q.datasets,B=Q.total_count??Q.count;if(D.json){console.log(JSON.stringify({datasets:Y,total_count:B,limit:F,offset:$,fallback:Q.fallback,warning:Q.warning},null,2));return}if(Q.warning)console.log(W.yellow(`
-\u26A0 ${Q.warning}`));if(Y.length===0){if(console.log(),D.mine)console.log(W.yellow("You don't have any datasets yet.")),console.log(W.dim("Create one with: nemar dataset upload <path>"));else if(D.owner)console.log(W.yellow(`No datasets found for user '${D.owner}'.`));else if(D.search||D.modality||D.author)console.log(W.yellow("No datasets match your filters.")),console.log(W.dim("Try broader search terms or remove filters."));else console.log(W.yellow("No datasets found."));return}MU0(Y,{limit:F,offset:$,totalCount:B})});t0.command("search <query>").description("Search datasets using semantic matching").option("--modality <type>","Filter by modality (eeg, emg, meg, etc.)").option("--json","Output as JSON for scripting").option("--limit <n>","Limit results (default: 20)","20").addHelpText("after",`
+  $ nemar dataset search "resting state EEG"   # Semantic search`).action(async(D)=>{if(D.mine&&D.owner)console.log(W.red("Error: --mine and --owner cannot be used together")),console.log("Use --mine for your datasets, or --owner <username> for another user's."),process.exit(1);if(D.mine&&!H0())console.log(W.red("Error: Not authenticated")),console.log("Run 'nemar auth login' to see your datasets"),process.exit(1);if(D.license){let X=["public","attribution","sharealike","noncommercial","noderiv","unknown"],G=D.license.split(",").map((H)=>H.trim().toLowerCase()).filter((H)=>H&&!X.includes(H));if(G.length>0)console.log(W.red(`Error: invalid license tier(s): ${G.join(", ")}`)),console.log(`Valid tiers: ${X.join(", ")}`),process.exit(1)}let F=D.all?200:Math.min(Number.parseInt(D.limit,10)||20,200),$=0;if(D.page)$=(Math.max(Number.parseInt(D.page,10)||1,1)-1)*F;else if(D.offset)$=Math.max(Number.parseInt(D.offset,10)||0,0);let J=O("Fetching datasets...").start(),Q;try{Q=await PF({mine:!!D.mine,search:D.search,modality:D.modality,author:D.author,task:D.task,license:D.license,hasDoi:!!D.doi,hasHed:!!D.hed,recent:D.recent?Number.parseInt(D.recent,10)||30:void 0,sort:D.sort,limit:F,offset:$,owner:D.owner}),J.stop()}catch(X){if(J.fail("Failed to fetch datasets"),X instanceof f)console.log(W.red(`  ${X.message}`));else console.log(W.red(`  ${X.message}`));process.exit(1)}let Y=Q.datasets,B=Q.total_count??Q.count;if(D.json){console.log(JSON.stringify({datasets:Y,total_count:B,limit:F,offset:$,fallback:Q.fallback,warning:Q.warning},null,2));return}if(Q.warning)console.log(W.yellow(`
+\u26A0 ${Q.warning}`));if(Y.length===0){if(console.log(),D.mine)console.log(W.yellow("You don't have any datasets yet.")),console.log(W.dim("Create one with: nemar dataset upload <path>"));else if(D.owner)console.log(W.yellow(`No datasets found for user '${D.owner}'.`));else if(D.search||D.modality||D.author||D.hed||D.license||D.task)console.log(W.yellow("No datasets match your filters.")),console.log(W.dim("Try broader search terms or remove filters."));else console.log(W.yellow("No datasets found."));return}MU0(Y,{limit:F,offset:$,totalCount:B})});t0.command("search <query>").description("Search datasets using semantic matching").option("--modality <type>","Filter by modality (eeg, emg, meg, etc.)").option("--hed","Show only datasets with HED annotations").option("--json","Output as JSON for scripting").option("--limit <n>","Limit results (default: 20)","20").addHelpText("after",`
 Description:
   Performs semantic search across the NEMAR dataset catalog. Unlike
   --search on the list command (which uses exact text matching), this
@@ -664,7 +664,7 @@ Description:
 Examples:
   $ nemar dataset search "motor imagery EEG"
   $ nemar dataset search "resting state" --modality eeg
-  $ nemar dataset search "sleep spindles" --json`).action(async(D,F)=>{let $=O("Searching datasets...").start();try{let J=await qg(D,{modality:F.modality,limit:Number.parseInt(F.limit,10)});if($.stop(),F.json){console.log(JSON.stringify(J,null,2));return}if(J.results.length===0){console.log(),console.log(W.yellow("No datasets match your search.")),console.log(W.dim("Try different search terms or use 'nemar dataset list' for browsing."));return}console.log(),console.log(W.bold(`Search results for "${D}" (${J.results.length} found, ${J.method}):`)),console.log();let Q=Math.max(10,...J.results.map((H)=>H.id.length)),Y=Math.min(35,Math.max(10,...J.results.map((H)=>H.name.length))),B=10,X=6,G=["Score".padEnd(5),"ID".padEnd(Q),"Name".padEnd(Y),"Modality".padEnd(B),"Subj".padEnd(X)].join("  ");console.log(W.dim(G)),console.log(W.dim("-".repeat(G.length)));for(let H of J.results){let q=H.name.length>Y?`${H.name.substring(0,Y-3)}...`:H.name,V=[(H.score>=0.8?W.green:H.score>=0.5?W.yellow:W.dim)(String(H.score).padEnd(5)),W.cyan(H.id.padEnd(Q)),q.padEnd(Y),(H.modalities||"-").substring(0,B).padEnd(B),(H.participants?String(H.participants):"-").padEnd(X)].join("  ");console.log(V)}console.log(),console.log(W.dim("For details: nemar dataset status <dataset-id>"))}catch(J){if($.fail("Search failed"),J instanceof f)console.log(W.red(`  ${J.message}`));else console.log(W.red(`  ${J.message}`));process.exit(1)}});t0.command("release").description("Create a version bump PR for a dataset").argument("<dataset-id>","Dataset ID (e.g., nm000104)").option("--type <type>","Bump type: patch, minor, or major").option("--version <version>","Explicit version (e.g., 2.0.0)").option("--dir <path>","Use existing local clone instead of cloning").option("--monitor","Watch CI checks and offer to merge").option(j0,w0).addHelpText("after",`
+  $ nemar dataset search "sleep spindles" --json`).action(async(D,F)=>{let $=O("Searching datasets...").start();try{let J=await qg(D,{modality:F.modality,hasHed:!!F.hed,limit:Number.parseInt(F.limit,10)});if($.stop(),F.json){console.log(JSON.stringify(J,null,2));return}if(J.results.length===0){console.log(),console.log(W.yellow("No datasets match your search.")),console.log(W.dim("Try different search terms or use 'nemar dataset list' for browsing."));return}console.log(),console.log(W.bold(`Search results for "${D}" (${J.results.length} found, ${J.method}):`)),console.log();let Q=Math.max(10,...J.results.map((H)=>H.id.length)),Y=Math.min(35,Math.max(10,...J.results.map((H)=>H.name.length))),B=10,X=6,G=["Score".padEnd(5),"ID".padEnd(Q),"Name".padEnd(Y),"Modality".padEnd(B),"Subj".padEnd(X),"HED".padEnd(3)].join("  ");console.log(W.dim(G)),console.log(W.dim("-".repeat(G.length)));for(let H of J.results){let q=H.name.length>Y?`${H.name.substring(0,Y-3)}...`:H.name,V=[(H.score>=0.8?W.green:H.score>=0.5?W.yellow:W.dim)(String(H.score).padEnd(5)),W.cyan(H.id.padEnd(Q)),q.padEnd(Y),(H.modalities||"-").substring(0,B).padEnd(B),(H.participants?String(H.participants):"-").padEnd(X),H.has_hed===1?W.magenta("HED"):W.dim("-")].join("  ");console.log(V)}console.log(),console.log(W.dim("For details: nemar dataset status <dataset-id>"))}catch(J){if($.fail("Search failed"),J instanceof f)console.log(W.red(`  ${J.message}`));else console.log(W.red(`  ${J.message}`));process.exit(1)}});t0.command("release").description("Create a version bump PR for a dataset").argument("<dataset-id>","Dataset ID (e.g., nm000104)").option("--type <type>","Bump type: patch, minor, or major").option("--version <version>","Explicit version (e.g., 2.0.0)").option("--dir <path>","Use existing local clone instead of cloning").option("--monitor","Watch CI checks and offer to merge").option(j0,w0).addHelpText("after",`
 Description:
   Create a pull request that bumps the dataset version in
   dataset_description.json. The PR triggers CI checks (BIDS validation,

package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "nemar-cli",
-  "version": "0.8.73-PR876.33fe2cd",
+  "version": "0.8.73-PR877.fbd19b5",
   "description": "CLI for NEMAR (Neuroelectromagnetic Data Archive and Tools Resource) dataset management",
   "type": "module",
   "main": "dist/index.js",