diff --git a/app/accessibility/page.js b/app/accessibility/page.js
index b6704d6..000355e 100644
--- a/app/accessibility/page.js
+++ b/app/accessibility/page.js
@@ -34,15 +34,19 @@ export default function AccessibilityPage() {
+ The service is built to meet the following, and each is checked automatically on every
+ change — see “How we tested this service” below.
+
+ We would rather say what has not been checked than imply that it has. The following are
+ outstanding, and we expect to complete them before the service is publicly launched:
+ What We Do to Ensure Accessibility
+
-
@@ -53,6 +57,31 @@ export default function AccessibilityPage() {
+ What We Have Not Yet Tested
+
+
+ Every page of this service — the chat interface, this statement, the privacy + notice and the terms of use — is tested automatically against WCAG 2.2 Level AA + using axe-core, driven through a real browser. The chat interface is tested twice: once + as it first loads, and once with an answer displayed, so that the answer text, result + tables, image gallery, citations, response identifier and feedback controls are covered + rather than only the empty page. The test runs on every proposed change to the service + and a change is not accepted while any violation is outstanding. +
++ Automated testing of this kind detects somewhere between a third and a half of WCAG + issues. It is a floor rather than a certificate: judgements about focus order, + meaningful sequence, error identification and the usefulness of alternative text still + require a person, which is why the section above says what has not yet been tested. + Testing was carried out by the Virtual Fly Brain team at the University of Edinburgh. +
+- This statement was prepared on 26 March 2026. It was last reviewed on 26 March 2026. + This statement was first prepared on 26 March 2026 and was last reviewed on 19 August + 2026. We review it at least every 12 months, and whenever the service changes in a way + that affects the statements made here.
{responseId}
@@ -774,7 +776,11 @@ const ChatMessage = memo(function ChatMessage({
{r.name}
{Array.isArray(r.tags) && r.tags.length > 0 && (
- {r.tags.join(' · ')}
+ // #8a8a8a, not #777: these tags render at about 11px
+ // inside a table row, so they are small text and
+ // #777 measured 4.42:1 — just under the 4.5:1 that
+ // WCAG 2.2 AA requires.
+ {r.tags.join(' · ')}
)}
diff --git a/scripts/a11y-audit.mjs b/scripts/a11y-audit.mjs
index f797aca..1f1f54c 100644
--- a/scripts/a11y-audit.mjs
+++ b/scripts/a11y-audit.mjs
@@ -29,6 +29,84 @@ const PAGES = ['/', '/privacy', '/accessibility', '/terms']
// requirement and must not be mixed into a compliance number.
const CONFORMANCE_TAGS = ['wcag2a', 'wcag2aa', 'wcag21a', 'wcag21aa', 'wcag22aa']
+// ── The answered state ───────────────────────────────────────────────────────
+//
+// Auditing `/` on load tests an empty shell: a heading, an input and a send
+// button. Everything a reader actually spends time in — the answer bubble, the
+// result table, the image gallery and its data-derived alt text, the inline
+// citations, the response identifier and its copy button, the feedback controls
+// — exists only after a question has been answered, and none of it was covered.
+// That is also the surface most likely to be wrong, because it is assembled from
+// model output rather than written by hand.
+//
+// The response is STUBBED rather than live, for two reasons. CI has no ELM
+// credential on every run, so a real question would skip or fail there and the
+// audit would quietly stop covering the answered state. And an accessibility
+// check wants a fixed DOM: a live answer varies run to run, so a violation would
+// appear and disappear without the interface having changed. The stub is served
+// through the real SSE parser and the real renderers, so what axe sees is the
+// production DOM — only the words are fixed.
+//
+// Keep this fixture representative. If a new element type starts appearing in
+// answers, add it here or it goes untested.
+const ANSWERED_FIXTURE = {
+ response: [
+ 'The **medulla** (FBbt_00003748) is the second optic neuropil of the adult brain.',
+ '',
+ 'It receives input from the lamina and projects to the lobula complex.',
+ '',
+ 'See [Fischbach & Dittrich, 1989](https://doi.org/10.1007/BF00218858) for the classical description.'
+ ].join('\n'),
+ tables: [{
+ title: 'Neurons with synaptic terminals in the medulla',
+ rows: [
+ { name: 'Tm3 (FlyWire)', thumbnail: 'https://www.virtualflybrain.org/data/VFB/i/0000/0001/thumbnail.png', reportUrl: 'https://www.virtualflybrain.org/reports/VFB_00000001', tags: ['Tm3', 'FlyWire'] },
+ { name: 'Mi1 (FlyWire)', thumbnail: 'https://www.virtualflybrain.org/data/VFB/i/0000/0002/thumbnail.png', reportUrl: 'https://www.virtualflybrain.org/reports/VFB_00000002', tags: ['Mi1', 'FlyWire'] }
+ ],
+ queryUrl: 'https://www.virtualflybrain.org/reports/FBbt_00003748'
+ }],
+ images: [
+ { id: 'VFB_00000001', label: 'Tm3 neuron aligned to JRC2018Unisex', thumbnail: 'https://www.virtualflybrain.org/data/VFB/i/0000/0001/thumbnail.png' }
+ ],
+ followOns: [
+ { kind: 'ask', text: 'Which neurons receive output from the medulla?' },
+ { kind: 'vfb', text: 'Open medulla in VFB', url: 'https://www.virtualflybrain.org/reports/FBbt_00003748', title: 'Open in Virtual Fly Brain' }
+ ],
+ sources: [{ title: 'Fischbach & Dittrich 1989', url: 'https://doi.org/10.1007/BF00218858' }],
+ terms: [{ id: 'FBbt_00003748', label: 'medulla' }],
+ requestId: 'a11y-audit-request',
+ responseId: 'a11y-audit-response'
+}
+
+const SSE_FIXTURE =
+ `event: status\ndata: ${JSON.stringify({ message: 'Resolving terms' })}\n\n` +
+ `event: delta\ndata: ${JSON.stringify({ text: 'The medulla is the second optic neuropil.' })}\n\n` +
+ `event: result\ndata: ${JSON.stringify(ANSWERED_FIXTURE)}\n\n`
+
+// Drive the real UI to the answered state: intercept the chat call, type a
+// question, send it, and wait for the response identifier — which is rendered
+// only once a `result` event has been applied, so it is the honest signal that
+// the finished DOM is present.
+async function renderAnsweredState(page) {
+ await page.route('**/api/chat', route => route.fulfill({
+ status: 200,
+ headers: { 'content-type': 'text/event-stream', 'cache-control': 'no-cache' },
+ body: SSE_FIXTURE
+ }))
+ // The rate-limit poll fires after a result and is irrelevant here; stub it so
+ // a missing backend cannot leave the page in an error state mid-audit.
+ await page.route('**/api/rate-info', route => route.fulfill({
+ status: 200, headers: { 'content-type': 'application/json' },
+ body: JSON.stringify({ used: 1, limit: 50, remaining: 49 })
+ }))
+
+ await page.goto(`${BASE}/`, { waitUntil: 'networkidle', timeout: 45000 })
+ await page.getByPlaceholder('Ask about Drosophila neuroanatomy...').fill('What is the medulla?')
+ await page.getByLabel('Send message').click()
+ await page.getByText('Response ID:').waitFor({ timeout: 20000 })
+ await page.waitForTimeout(400)
+}
+
const results = []
// The sandbox ships Chromium at a fixed path and blocks the download step, so
// point at it rather than letting Playwright fetch its own.
@@ -38,13 +116,25 @@ const browser = await chromium.launch(executablePath ? { executablePath } : {})
const context = await browser.newContext({ viewport: { width: 1280, height: 900 } })
-for (const path of PAGES) {
+// Each target is a label plus how to get the page into the state being audited.
+// The four plain loads are the shell states; the last is the answered state.
+const TARGETS = [
+ ...PAGES.map(path => ({
+ path,
+ prepare: async page => {
+ await page.goto(`${BASE}${path}`, { waitUntil: 'networkidle', timeout: 45000 })
+ // The chat page renders its shell immediately but settles a moment later.
+ await page.waitForTimeout(1200)
+ }
+ })),
+ { path: '/ (answered)', prepare: renderAnsweredState }
+]
+
+for (const { path, prepare } of TARGETS) {
const page = await context.newPage()
let error = null
try {
- await page.goto(`${BASE}${path}`, { waitUntil: 'networkidle', timeout: 45000 })
- // The chat page renders its shell immediately but settles a moment later.
- await page.waitForTimeout(1200)
+ await prepare(page)
} catch (e) {
error = e.message
}
diff --git a/test-results/task-battery/latest.json b/test-results/task-battery/latest.json
index e20c189..6258ed2 100644
--- a/test-results/task-battery/latest.json
+++ b/test-results/task-battery/latest.json
@@ -1,9 +1,9 @@
{
"metadata": {
- "run_id": "task-battery-2026-08-16T07-48-02-668Z",
- "started_at": "2026-08-16T07:48:02.668Z",
- "completed_at": "2026-08-16T07:58:25.976Z",
- "git_sha": "5be963d72feb4ae8c597580f519c624c60bd49ae",
+ "run_id": "task-battery-2026-08-19T00-46-22-388Z",
+ "started_at": "2026-08-19T00:46:22.388Z",
+ "completed_at": "2026-08-19T01:00:33.471Z",
+ "git_sha": "e644e6ef61b059649e3e1202f7d4ee0d99e695d0",
"task_file": "/home/runner/work/VFBchat/VFBchat/VFBchat/tests/task-battery/tasks.json",
"base_url": "http://127.0.0.1:3210",
"started_server": true,
@@ -17,8 +17,8 @@
},
"summary": {
"total": 64,
- "ok": 64,
- "errors": 0,
+ "ok": 63,
+ "errors": 1,
"by_tier": {
"T1": {
"total": 8,
@@ -32,8 +32,8 @@
},
"T3": {
"total": 8,
- "ok": 8,
- "errors": 0
+ "ok": 7,
+ "errors": 1
},
"T4": {
"total": 6,
@@ -108,7 +108,7 @@
"slow_followup_turn": {
"count": 1,
"task_ids": [
- "C3"
+ "C5"
]
}
},
@@ -117,10 +117,10 @@
"ok": 12,
"turns": 27,
"followup_turns": 15,
- "followup_median_ms": 10633,
- "followup_max_ms": 192357
+ "followup_median_ms": 12450,
+ "followup_max_ms": 201677
},
- "mean_duration_ms": 33375
+ "mean_duration_ms": 43102
},
"results": [
{
@@ -133,7 +133,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 75475,
+ "duration_ms": 77544,
"status_messages": [
{
"message": "Thinking...",
@@ -160,13 +160,13 @@
"phase": "llm"
}
],
- "event_count": 76,
+ "event_count": 78,
"ok": true,
- "request_id": "e057c674-435f-4273-b81c-5443ce6f2eae",
- "response_id": "chatcmpl-a4bfd4269915ea0f5bc21a6bc7a4cc97",
+ "request_id": "6b34a989-e272-40a9-8414-32d846f3f313",
+ "response_id": "chatcmpl-8fbdf9c3a384689295e849667bd2ef37",
"images_count": 8,
"graphs_count": 0,
- "response": "The major subdivisions of the Drosophila [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are the calyx, pedunculus, and mushroom body lobe system. The mushroom body lobe system consists of a vertical branch and a medial branch, which have different structures at different life stages. The lobes are further divided into compartments such as α, β, and γ.",
+ "response": "The major subdivisions of the Drosophila [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are the calyx, pedunculus, and mushroom body lobe system. The mushroom body lobe system consists of a vertical branch and a medial branch, which have different structures at different life stages. Additionally, the lobes are further divided into compartments such as α, β, and γ.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -177,7 +177,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 419,
+ "response_chars": 433,
"status_count": 6
}
},
@@ -191,7 +191,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 74872,
+ "duration_ms": 76506,
"status_messages": [
{
"message": "Thinking...",
@@ -220,8 +220,8 @@
],
"event_count": 83,
"ok": true,
- "request_id": "cce52fbb-e231-4db4-8bfa-dc45ad50f0c8",
- "response_id": "chatcmpl-bff16ea6a53e34aa773aeb5263a9b144",
+ "request_id": "fd6e0e4a-1e88-4889-89cd-e0fb5d79ee7e",
+ "response_id": "chatcmpl-85baa9c65dfbbce891fd01aa237dec70",
"images_count": 8,
"graphs_count": 0,
"response": "There are several types of Kenyon cells in the adult Drosophila brain, including alpha/beta, alpha'/beta', and gamma Kenyon cells, which can be further subdivided into core/surface/posterior, anterior-posterior/middle, dorsal/main/gamma-s/gamma-t, and claw-count classes. VFB holds [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\").",
@@ -249,7 +249,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 74809,
+ "duration_ms": 77125,
"status_messages": [
{
"message": "Thinking...",
@@ -296,13 +296,13 @@
"phase": "llm"
}
],
- "event_count": 77,
+ "event_count": 74,
"ok": true,
- "request_id": "ec631bd6-c14d-4054-a617-f216eac926d3",
- "response_id": "chatcmpl-95549058456fc99bbfc75b2330ad146b",
+ "request_id": "a2cdb017-83a8-4761-823c-3ee60d127021",
+ "response_id": "chatcmpl-07bf98f6c7e70fff15249893155e2d1c",
"images_count": 8,
"graphs_count": 1,
- "response": "The main input neurons to the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are sensory interneuron afferents to the calyx. VFB records show that there are [366](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in mushroom body\") neurons with presynaptic terminals in mushroom body, including larval uniglomerular projection neurons and larval antennal lobe multiglomerular projection neurons.",
+ "response": "The main input neurons to the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are sensory interneuron afferents to the calyx. VFB records show [366](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in mushroom body\") neurons with presynaptic terminals in mushroom body, including larval uniglomerular projection neurons and larval antennal lobe multiglomerular projection neurons.",
"graphs": [
{
"type": "basic_graph",
@@ -463,7 +463,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 560,
+ "response_chars": 545,
"status_count": 11
}
},
@@ -477,7 +477,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 74835,
+ "duration_ms": 76122,
"status_messages": [
{
"message": "Thinking...",
@@ -506,11 +506,11 @@
],
"event_count": 24,
"ok": true,
- "request_id": "58c481b5-7f13-4b0c-b1e6-8e50eda0b511",
- "response_id": "chatcmpl-ba7b9edf417adb17b3f60885adbe1ee2",
+ "request_id": "f117884f-3246-4cd9-a2cb-2a00df54dd5b",
+ "response_id": "chatcmpl-c7ee64885db19025e82cc6ecd5b05754",
"images_count": 6,
"graphs_count": 0,
- "response": "Mushroom body Kenyon cells use acetylcholine as a neurotransmitter.",
+ "response": "The primary neurotransmitter used by mushroom body Kenyon cells is acetylcholine.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -521,7 +521,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 67,
+ "response_chars": 81,
"status_count": 6
}
},
@@ -535,7 +535,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 16726,
+ "duration_ms": 17080,
"status_messages": [
{
"message": "Thinking...",
@@ -545,6 +545,10 @@
"message": "Planning the answer",
"phase": "llm"
},
+ {
+ "phase": "plan",
+ "message": "The plan is contested — sampling again before committing."
+ },
{
"message": "Resolving 1 term in VFB",
"phase": "mcp"
@@ -570,10 +574,10 @@
"phase": "llm"
}
],
- "event_count": 140,
+ "event_count": 141,
"ok": true,
- "request_id": "48696f2b-1950-4af6-824f-d0d7d3990e28",
- "response_id": "chatcmpl-c783b538a309fa31e65b74979bcc9978",
+ "request_id": "3f2b33b2-8c4d-4f16-9ef8-a2b89456489e",
+ "response_id": "chatcmpl-daa80353e381fe9f32cd3bd83443ae64",
"images_count": 6,
"graphs_count": 1,
"response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") connects to various brain regions through neurons with presynaptic and postsynaptic terminals. Neurons with presynaptic terminals in the antennal lobe include [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), and adult olfactory receptor neurons such as Ir75d ac1 and Or35a ac3I. Neurons with postsynaptic terminals in the antennal lobe include [AMMC-Bi16](https://www.virtualflybrain.org/reports/FBbt_00111480 \"Open AMMC-Bi16 in Virtual Fly Brain\"), adult antennal lobe projection neurons like DL5 and VA1d, and adult multiglomerular antennal lobe projection neuron L1 adPN.",
@@ -743,7 +747,7 @@
"missing_required_graph": false,
"used_data_resource": false,
"response_chars": 974,
- "status_count": 8
+ "status_count": 9
}
},
{
@@ -756,7 +760,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 11485,
+ "duration_ms": 14903,
"status_messages": [
{
"message": "Thinking...",
@@ -783,13 +787,13 @@
"phase": "llm"
}
],
- "event_count": 42,
+ "event_count": 25,
"ok": true,
- "request_id": "809ee8f8-8e59-4997-a2b7-6af4ee8c2bef",
- "response_id": "chatcmpl-0559dd0db6680a056d130eea85495556",
+ "request_id": "fe46a85e-1902-4d63-ab29-71c00e978e7c",
+ "response_id": "chatcmpl-b0d5a612fd4b8c9421a17c44dfa5d57a",
"images_count": 8,
"graphs_count": 0,
- "response": "The [adult central brain](https://www.virtualflybrain.org/reports/FBbt_00047887 \"Open adult central brain in Virtual Fly Brain\") contains approximately 32,388 neurons, according to FlyWire. VFB has annotated [9413](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047887,NeuronsPartHere \"Run in VFB: Neurons with some part in adult central brain\") neuron types with some part in the adult central brain.\n\n**Published neuron-count estimates — adult central brain** (from the literature):\n\n- ~32,388 neurons (Whole adult brain, both optic lobes and ocellar ganglia included. Ventral nerve cord NOT included; neurons crossing the neck connective are truncated at the brain boundary. Subcount: fully in central brain. One female adult. Dataset: FlyWire connectome neurons, v783.) — [Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518](https://doi.org/10.1038/s41586-024-07558-y \"Open Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518 via DOI (new tab)\")\n\n_FlyWire reports 32,388 neurons FULLY CONTAINED in the central brain out of 139,255 in the whole brain. Neurons that arborise in the central brain but also elsewhere are not in that subcount, so it is a lower bound on 'neurons in the central brain', not a census of them._\n\n_VFB has annotated 9,413 neuron types with some part in adult central brain — a curated annotation count, not the biological total._\n\nReference: [How many neurons are in the fly brain?](https://www.virtualflybrain.org/docs/concepts/neuron-counts/ \"Open “How many neurons are in the fly brain?” — Virtual Fly Brain documentation (new tab)\")",
+ "response": "Approximately 139,255 neurons are in the adult Drosophila central brain.\n\n**Published neuron-count estimates — adult central brain** (from the literature):\n\n- ~32,388 neurons (Whole adult brain, both optic lobes and ocellar ganglia included. Ventral nerve cord NOT included; neurons crossing the neck connective are truncated at the brain boundary. Subcount: fully in central brain. One female adult. Dataset: FlyWire connectome neurons, v783.) — [Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518](https://doi.org/10.1038/s41586-024-07558-y \"Open Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518 via DOI (new tab)\")\n\n_FlyWire reports 32,388 neurons FULLY CONTAINED in the central brain out of 139,255 in the whole brain. Neurons that arborise in the central brain but also elsewhere are not in that subcount, so it is a lower bound on 'neurons in the central brain', not a census of them._\n\n_VFB has annotated 9,413 neuron types with some part in adult central brain — a curated annotation count, not the biological total._\n\nReference: [How many neurons are in the fly brain?](https://www.virtualflybrain.org/docs/concepts/neuron-counts/ \"Open “How many neurons are in the fly brain?” — Virtual Fly Brain documentation (new tab)\")",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -800,7 +804,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1621,
+ "response_chars": 1268,
"status_count": 6
}
},
@@ -814,7 +818,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 20527,
+ "duration_ms": 20550,
"status_messages": [
{
"message": "Thinking...",
@@ -841,13 +845,13 @@
"phase": "llm"
}
],
- "event_count": 102,
+ "event_count": 103,
"ok": true,
- "request_id": "36f258c9-3a61-43f5-9d27-fd8fd702d80f",
- "response_id": "chatcmpl-d57601cfefb17fb42a20768ef66c88d2",
+ "request_id": "cba1c6f4-2330-418a-88d8-dd3d9dea2e63",
+ "response_id": "chatcmpl-429a619b99e251525707f38ffb76c5e9",
"images_count": 8,
"graphs_count": 1,
- "response": "The main components of the Drosophila central complex are the ellipsoid body, the fan-shaped body, the three paired noduli, the asymmetrical bodies, and the protocerebral bridge. These components are associated with functions including navigation and orientation, locomotor control, and sleep/arousal and memory-related behaviours. VFB holds [363](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsPartHere \"Run in VFB: Neurons with some part in adult central complex\") records of neurons with some part in [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") and [362](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult central complex\") records of neurons with synaptic terminals in adult central complex.",
+ "response": "The main components of the Drosophila central complex include the ellipsoid body, the fan-shaped body, the three paired noduli, the asymmetrical bodies, and the protocerebral bridge. These components are associated with functions such as navigation and orientation, locomotor control, and sleep/arousal and memory-related behaviours. VFB holds [363](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsPartHere \"Run in VFB: Neurons with some part in adult central complex\") records of neurons with some part in [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") and [362](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult central complex\") records of neurons with synaptic terminals in adult central complex.",
"graphs": [
{
"type": "basic_graph",
@@ -973,7 +977,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 915,
+ "response_chars": 917,
"status_count": 6
}
},
@@ -987,7 +991,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 15309,
+ "duration_ms": 75331,
"status_messages": [
{
"message": "Thinking...",
@@ -1014,13 +1018,13 @@
"phase": "llm"
}
],
- "event_count": 70,
+ "event_count": 44,
"ok": true,
- "request_id": "fff98ed6-25a4-4397-ad2c-f7f1ea4712f1",
- "response_id": "chatcmpl-944e2462085bf411cead75e52205c7ce",
+ "request_id": "6d67ee9e-9c8c-4d29-9cff-6657e5839013",
+ "response_id": "chatcmpl-d29a07d1013dcc83698dfd6e79cc5c48",
"images_count": 8,
"graphs_count": 0,
- "response": "Genetic tools such as PBac{544.SVS-1}Bsg[CPTI100062] and PBac{602.P.SVS-1}Fas2[CPTI000483] are used to label neurons. VFB holds [92](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,TransgeneExpressionHere \"Run in VFB: Transgene expression in Kenyon cell\") records of transgene expression in [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\").",
+ "response": "Genetic tools to label mushroom body neurons, such as [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\"), include GAL4 drivers and expression patterns. VFB holds [92](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,TransgeneExpressionHere \"Run in VFB: Transgene expression in Kenyon cell\") transgene expression reports for Kenyon cell.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1031,7 +1035,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 430,
+ "response_chars": 423,
"status_count": 6
}
},
@@ -1045,7 +1049,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 25739,
+ "duration_ms": 82170,
"status_messages": [
{
"message": "Thinking...",
@@ -1084,13 +1088,13 @@
"phase": "llm"
}
],
- "event_count": 135,
+ "event_count": 91,
"ok": true,
- "request_id": "2b2ec229-9b91-4b89-a662-2bdb12913752",
- "response_id": "chatcmpl-4ae2d2915d279ff7d3b885020d48e183",
+ "request_id": "3ca620b4-6ed6-48ab-bc08-a000c1cd9ec7",
+ "response_id": "chatcmpl-405102d732924f18ff4713d3a4b2cd5d",
"images_count": 8,
"graphs_count": 1,
- "response": "Dopaminergic input to mushroom body output neurons (MBONs) comes from specific dopaminergic neuron types. The connectome data indicates that dopaminergic PPL1 neurons and dopaminergic PAM neurons are among the types that provide input to MBONs. VFB found 84 upstream class-connectivity partners matching \"dopaminergic neuron\" for MBON, with dopaminergic PPL1 neuron being one of the top mapped pairs. However, the specific connections between different DAN types and MBON types are not detailed in VFB evidence. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of MBON.",
+ "response": "Dopaminergic input to mushroom body output neurons comes from specific types of dopaminergic neurons, including dopaminergic PPL1 neurons and dopaminergic PAM neurons. The connectivity data indicates that dopaminergic PPL1 neurons connect to adult mushroom body output neurons with a total weight of 17270 and 567 pairwise connections. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\").",
"graphs": [
{
"type": "basic_graph",
@@ -1316,7 +1320,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 671,
+ "response_chars": 631,
"status_count": 9
}
},
@@ -1330,7 +1334,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 75453,
+ "duration_ms": 14188,
"status_messages": [
{
"message": "Thinking...",
@@ -1369,13 +1373,13 @@
"phase": "llm"
}
],
- "event_count": 168,
+ "event_count": 128,
"ok": true,
- "request_id": "05d47b06-ac4e-4ff3-b9cf-403f7e6717ba",
- "response_id": "chatcmpl-c3179cf4f877f1905b207558b2ece3e4",
+ "request_id": "b5621c5a-b855-443e-afe1-3e889cb0f7b1",
+ "response_id": "chatcmpl-2f5bb5b0fdf696bf60340dd8dd2f2d97",
"images_count": 5,
"graphs_count": 0,
- "response": "The connectivity of olfactory projection neurons is not directly compared between the Hemibrain and FAFB connectome datasets in VFB evidence. VFB holds data on downstream and upstream connectivity classes for [olfactory projection neuron](https://www.virtualflybrain.org/reports/FBbt_00051298 \"Open olfactory projection neuron in Virtual Fly Brain\"). The downstream connectivity table for olfactory projection neuron lists 60,114 downstream classes, with the strongest specific targets including [sNPF neuron](https://www.virtualflybrain.org/reports/FBbt_00048378 \"Open sNPF neuron in Virtual Fly Brain\"), [adult Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00049825 \"Open adult Kenyon cell in Virtual Fly Brain\"), [local neuron](https://www.virtualflybrain.org/reports/FBbt_00051493 \"Open local neuron in Virtual Fly Brain\"), and [adult lateral horn neuron](https://www.virtualflybrain.org/reports/FBbt_00048293 \"Open adult lateral horn neuron in Virtual Fly Brain\"). The upstream connectivity table for olfactory projection neuron lists 37,427 upstream classes, with the strongest specific inputs including [PNS neuron](https://www.virtualflybrain.org/reports/FBbt_00059272 \"Open PNS neuron in Virtual Fly Brain\"), [sensory neuron](https://www.virtualflybrain.org/reports/FBbt_00005124 \"Open sensory neuron in Virtual Fly Brain\"), [olfactory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007697 \"Open olfactory system neuron in Virtual Fly Brain\"), [chemosensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007696 \"Open chemosensory system neuron in Virtual Fly Brain\"), [sensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007693 \"Open sensory system neuron in Virtual Fly Brain\"), [adult antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00007390 \"Open adult antennal lobe local neuron in Virtual Fly Brain\"), [antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00052874 \"Open antennal lobe local neuron in Virtual Fly Brain\"), and [adult antennal lobe local neuron lLN](https://www.virtualflybrain.org/reports/FBbt_00051502 \"Open adult antennal lobe local neuron lLN in Virtual Fly Brain\").",
+ "response": "The connectivity of olfactory projection neurons is not directly compared between the Hemibrain and FAFB connectome datasets in VFB evidence. VFB's class-level connectivity tables for [olfactory projection neuron](https://www.virtualflybrain.org/reports/FBbt_00051298 \"Open olfactory projection neuron in Virtual Fly Brain\") list downstream and upstream classes, ranked by total synaptic weight and mean synaptic weight per connected pair. The strongest specific targets of olfactory projection neuron include [sNPF neuron](https://www.virtualflybrain.org/reports/FBbt_00048378 \"Open sNPF neuron in Virtual Fly Brain\"), [adult Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00049825 \"Open adult Kenyon cell in Virtual Fly Brain\"), [local neuron](https://www.virtualflybrain.org/reports/FBbt_00051493 \"Open local neuron in Virtual Fly Brain\"), and [adult lateral horn neuron](https://www.virtualflybrain.org/reports/FBbt_00048293 \"Open adult lateral horn neuron in Virtual Fly Brain\"). The strongest specific inputs to olfactory projection neuron include [PNS neuron](https://www.virtualflybrain.org/reports/FBbt_00059272 \"Open PNS neuron in Virtual Fly Brain\"), [sensory neuron](https://www.virtualflybrain.org/reports/FBbt_00005124 \"Open sensory neuron in Virtual Fly Brain\"), [olfactory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007697 \"Open olfactory system neuron in Virtual Fly Brain\"), and [chemosensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007696 \"Open chemosensory system neuron in Virtual Fly Brain\").",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1386,7 +1390,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 2205,
+ "response_chars": 1566,
"status_count": 9
}
},
@@ -1400,7 +1404,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 17167,
+ "duration_ms": 20382,
"status_messages": [
{
"message": "Thinking...",
@@ -1434,18 +1438,42 @@
"message": "Checking the answer is covered",
"phase": "llm"
},
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ },
+ {
+ "message": "Checking before saying VFB has no data",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
{
"message": "Writing the answer",
"phase": "llm"
}
],
- "event_count": 162,
+ "event_count": 178,
"ok": true,
- "request_id": "3b835448-8c53-4d7b-b2e1-5db4afc27ab3",
- "response_id": "chatcmpl-a6537d275cbe5fc8217f02506913ad2f",
+ "request_id": "055dc4bd-749a-43cb-ac8a-916ccd129b9a",
+ "response_id": "chatcmpl-89109ef0fe27e838875ff5cfaee2fb4e",
"images_count": 8,
"graphs_count": 0,
- "response": "There are split-GAL4 driver lines available that target lateral horn neuron types. VFB records show that there are [4](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00048293,SplitsTargeting \"Run in VFB: Splits targeting LHN\") split-GAL4 combinations that target lateral horn neurons, specifically: [P{R23C06-GAL4.DBD} ∩ P{VT004984-p65.AD} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0099468FBtp0119463 \"Open P{R23C06-GAL4.DBD} ∩ P{VT004984-p65.AD} expression pattern in Virtual Fly Brain\"); [P{VT008489-GAL4.DBD} ∩ P{VT006486-p65.AD} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0122916FBtp0119497 \"Open P{VT008489-GAL4.DBD} ∩ P{VT006486-p65.AD} expression pattern in Virtual Fly Brain\"); [P{VT026953-GAL4.DBD} ∩ P{R45B08-p65.AD} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0123770FBtp0118765 \"Open P{VT026953-GAL4.DBD} ∩ P{R45B08-p65.AD} expression pattern in Virtual Fly Brain\"); and [P{VT033629-GAL4.DBD} ∩ P{VT037488-p65.AD} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0124008FBtp0149648 \"Open P{VT033629-GAL4.DBD} ∩ P{VT037488-p65.AD} expression pattern in Virtual Fly Brain\"). VFB holds [175](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00048293,TransgeneExpressionHere \"Run in VFB: Transgene expression in LHN\") transgene expression reports for [adult lateral horn neuron](https://www.virtualflybrain.org/reports/FBbt_00048293 \"Open adult lateral horn neuron in Virtual Fly Brain\").",
+ "response": "VFB holds 1924 transgene expression reports for [adult lateral horn](https://www.virtualflybrain.org/reports/FBbt_00007053 \"Open adult lateral horn in Virtual Fly Brain\"), including driver lines such as P{GMR11B09-GAL4} and PBac{566.P.SVS-1}IA-2[CPTI100013].",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1456,8 +1484,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1544,
- "status_count": 9
+ "response_chars": 258,
+ "status_count": 15
}
},
{
@@ -1470,7 +1498,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 17624,
+ "duration_ms": 148208,
"status_messages": [
{
"message": "Thinking...",
@@ -1501,13 +1529,13 @@
"phase": "llm"
}
],
- "event_count": 64,
+ "event_count": 178,
"ok": true,
- "request_id": "cb276f8e-2e15-44c6-a97a-41af74173945",
- "response_id": "chatcmpl-36ede0651365c31b0a2b505b1d9a7987",
+ "request_id": "bc058599-8481-40a5-acc7-e9fc791c752f",
+ "response_id": "chatcmpl-6776dfeac5dfcf7019c293a23eeb65d4",
"images_count": 7,
"graphs_count": 0,
- "response": "The [lobula plate-lobula columnar neuron LPLC2](https://www.virtualflybrain.org/reports/FBbt_00111763 \"Open lobula plate-lobula columnar neuron LPLC2 in Virtual Fly Brain\") is located in the dorsal area of the lateral cell body rind and has distinct dendritic arbors in each lobula plate layer. It detects looming stimuli, and its activity elicits a jump escape response.",
+ "response": "The [lobula plate-lobula columnar neuron LPLC2](https://www.virtualflybrain.org/reports/FBbt_00111763 \"Open lobula plate-lobula columnar neuron LPLC2 in Virtual Fly Brain\") is located in the dorsal area of the lateral cell body rind and has distinct dendritic arbors in each lobula plate layer. It detects looming stimuli, which elicits a jump escape response. The LPLC2 neuron has its main dendritic arbors in layers 4 and 5B of the lobula, with minor processes in layer 5A, and presynaptic sites in layer 4. Its arbors span approximately 25 lobula optic columns, overlapping with other LPLC2 cells. The LPLC2 neuron projects to an optic glomerulus of the PVLP, anterior to LPLC1 and dorsal to LC4. There are approximately 80 of these cells per optic lobe, and they are cholinergic.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1518,7 +1546,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 371,
+ "response_chars": 783,
"status_count": 7
}
},
@@ -1532,7 +1560,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 11372,
+ "duration_ms": 17985,
"status_messages": [
{
"message": "Thinking...",
@@ -1554,18 +1582,42 @@
"message": "Checking the answer is covered",
"phase": "llm"
},
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ },
+ {
+ "message": "Checking before saying VFB has no data",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
{
"message": "Writing the answer",
"phase": "llm"
}
],
- "event_count": 49,
+ "event_count": 194,
"ok": true,
- "request_id": "30aad0f3-e99c-4a4f-aa39-1a2ab5402c28",
- "response_id": "chatcmpl-f4edf184a8e7ad452f946523e184cc85",
+ "request_id": "93e11588-7cd8-45a7-b645-b563965bb55c",
+ "response_id": "chatcmpl-73859b4e2fecb1681ac58f639b270f15",
"images_count": 6,
"graphs_count": 0,
- "response": "The adult [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is represented as the more elaborated glomerular neuropil with approximately 50 glomeruli, whereas the larval antennal lobe has around 22 glomeruli.",
+ "response": "The adult [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is represented as the more elaborated glomerular neuropil with approximately 50 glomeruli, whereas the larval antennal lobe has around 22 glomeruli. VFB holds [6](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,ListAllAvailableImages \"Run in VFB: List all available images of antennal lobe\") available images of antennal lobe. There are [676](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPartHere \"Run in VFB: Neurons with some part in antennal lobe\") neurons with some part in antennal lobe and [673](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in antennal lobe\") neurons with synaptic terminals in antennal lobe.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1576,8 +1628,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 271,
- "status_count": 6
+ "response_chars": 902,
+ "status_count": 12
}
},
{
@@ -1590,7 +1642,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 22009,
+ "duration_ms": 18942,
"status_messages": [
{
"message": "Thinking...",
@@ -1600,10 +1652,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "phase": "plan",
- "message": "The plan is contested — sampling again before committing."
- },
{
"message": "Resolving 1 term in VFB",
"phase": "mcp"
@@ -1629,13 +1677,13 @@
"phase": "llm"
}
],
- "event_count": 66,
+ "event_count": 114,
"ok": true,
- "request_id": "e58dcd72-1b27-44ed-9cb8-a248bae66ef0",
- "response_id": "chatcmpl-087e7ba9dc56e2e249c23b0863732dab",
+ "request_id": "3238a5c2-0bce-4de4-a95d-291b7edcbf94",
+ "response_id": "chatcmpl-33fd7cd328476081e2eaf421bcb65ecc",
"images_count": 8,
"graphs_count": 0,
- "response": "Publications describing the dopaminergic PPL1 neurons and their role in aversive memory include Claridge-Chang et al., 2009, Mao and Davis, 2009, Budnik and White, 1988, and Ren et al., 2016.",
+ "response": "Publications describing the dopaminergic PPL1 neurons and their role in aversive memory include Claridge-Chang et al., 2009, Mao and Davis, 2009, Budnik and White, 1988, and Ren et al., 2016. Additionally, Mao and Davis, 2009, Claridge-Chang et al., 2009, and Ren et al., 2016 are also mentioned as describing PPL1 dopaminergic neurons and their role in aversive memory.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1646,8 +1694,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 191,
- "status_count": 9
+ "response_chars": 370,
+ "status_count": 8
}
},
{
@@ -1660,7 +1708,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 11021,
+ "duration_ms": 191390,
"status_messages": [
{
"message": "Thinking...",
@@ -1689,8 +1737,8 @@
],
"event_count": 31,
"ok": true,
- "request_id": "45c4b943-1c8c-4984-8166-d2e01a7162a5",
- "response_id": "chatcmpl-09d58cfb9d43a6e08afda08056372df8",
+ "request_id": "d98a31e3-843a-4ce0-a1e5-2a2e1457c917",
+ "response_id": "chatcmpl-9e418420cde76702bfa67e7b15706d95",
"images_count": 5,
"graphs_count": 0,
"response": "The Hemibrain dataset contains neurons morphologically similar to the fru+ mAL neurons described in light microscopy studies.",
@@ -1718,7 +1766,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 43376,
+ "duration_ms": 194958,
"status_messages": [
{
"message": "Thinking...",
@@ -1761,13 +1809,13 @@
"phase": "llm"
}
],
- "event_count": 159,
+ "event_count": 151,
"ok": true,
- "request_id": "a3692b74-3c84-4813-82ad-263445d76c54",
- "response_id": "chatcmpl-2646a69544809a53019e3f8cb7d0e847",
+ "request_id": "7404fe7f-0729-4523-b565-2e89ac155e16",
+ "response_id": "chatcmpl-cf3ceb0c5fdf1179a1edcc3c4e527f76",
"images_count": 8,
"graphs_count": 0,
- "response": "Sensory neurons that provide input to the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include those with presynaptic terminals in the fan-shaped body. VFB records show [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neuron types with presynaptic terminals in the fan-shaped body, including [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"), [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), and adult ExR1 neuron of DM4 lineage.",
+ "response": "The [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") receives input from various sensory neurons. VFB records show [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neuron types with presynaptic terminals in the fan-shaped body. The first 12 of these include [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"), [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), and adult ExR1 neuron of DM4 lineage.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1778,7 +1826,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1508,
+ "response_chars": 1470,
"status_count": 10
}
},
@@ -1792,7 +1840,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 27106,
+ "duration_ms": 24639,
"status_messages": [
{
"message": "Thinking...",
@@ -1826,42 +1874,18 @@
"message": "Checking the answer is covered",
"phase": "llm"
},
- {
- "message": "Writing the answer",
- "phase": "llm"
- },
- {
- "message": "Checking before saying VFB has no data",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Checking the answer is covered",
- "phase": "llm"
- },
{
"message": "Writing the answer",
"phase": "llm"
}
],
- "event_count": 244,
+ "event_count": 58,
"ok": true,
- "request_id": "935c88ca-a052-4509-8b24-13b1205e26bb",
- "response_id": "chatcmpl-f84f8fcb2c61bc54613b1433c8aab87f",
+ "request_id": "3f7e689b-7870-4b05-b271-c5d46d6754a2",
+ "response_id": "chatcmpl-41800db593023735b8d6a4ba72b9e15f",
"images_count": 8,
"graphs_count": 0,
- "response": "There are reciprocal connections between mushroom body output neurons and dopaminergic neurons. VFB found 5 reciprocal class-level pairs between [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\") and [dopaminergic neuron](https://www.virtualflybrain.org/reports/FBbt_00005131 \"Open dopaminergic neuron in Virtual Fly Brain\"). The strongest specific targets of mushroom body output neuron are [primary interneuron](https://www.virtualflybrain.org/reports/FBbt_00052517 \"Open primary interneuron in Virtual Fly Brain\"), [primary neuron](https://www.virtualflybrain.org/reports/FBbt_00047097 \"Open primary neuron in Virtual Fly Brain\"), [adult GABAergic neuron](https://www.virtualflybrain.org/reports/FBbt_00058207 \"Open adult GABAergic neuron in Virtual Fly Brain\"), [GABAergic neuron](https://www.virtualflybrain.org/reports/FBbt_00007228 \"Open GABAergic neuron in Virtual Fly Brain\"), [adult glutamatergic neuron](https://www.virtualflybrain.org/reports/FBbt_00058208 \"Open adult glutamatergic neuron in Virtual Fly Brain\"), [glutamatergic neuron](https://www.virtualflybrain.org/reports/FBbt_00100291 \"Open glutamatergic neuron in Virtual Fly Brain\"), [adult lateral horn neuron](https://www.virtualflybrain.org/reports/FBbt_00048293 \"Open adult lateral horn neuron in Virtual Fly Brain\"), and [adult cholinergic neuron](https://www.virtualflybrain.org/reports/FBbt_00058205 \"Open adult cholinergic neuron in Virtual Fly Brain\"). The strongest specific targets of dopaminergic neuron are adult cholinergic neuron and [adult Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00049825 \"Open adult Kenyon cell in Virtual Fly Brain\").",
+ "response": "There are reciprocal connections between mushroom body output neurons and dopaminergic neurons. VFB found 5 reciprocal class-level pairs between [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\") and [dopaminergic neuron](https://www.virtualflybrain.org/reports/FBbt_00005131 \"Open dopaminergic neuron in Virtual Fly Brain\").",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1872,8 +1896,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1730,
- "status_count": 15
+ "response_chars": 415,
+ "status_count": 9
}
},
{
@@ -1886,7 +1910,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 22384,
+ "duration_ms": 21147,
"status_messages": [
{
"message": "Thinking...",
@@ -1925,13 +1949,13 @@
"phase": "llm"
}
],
- "event_count": 135,
+ "event_count": 168,
"ok": true,
- "request_id": "655c4633-4fa8-4c08-a255-c3fb2b2e99ec",
- "response_id": "chatcmpl-4ec496a88c41c4a93ea5751f118cc7e5",
+ "request_id": "4c571bd9-da20-4a08-933e-016c39deefd5",
+ "response_id": "chatcmpl-803cfe4e4430ef4353b724510de29e6e",
"images_count": 8,
"graphs_count": 0,
- "response": "The pathway from olfactory receptor neurons to the lateral horn involves projection neurons that reach the lateral horn through four antennal-lobe tracts. Antennal lobe projection neurons are intermediate neurons between olfactory receptor neurons and the lateral horn. The strongest specific inputs to olfactory receptor neurons include [adult antennal lobe local neuron lLN](https://www.virtualflybrain.org/reports/FBbt_00051502 \"Open adult antennal lobe local neuron lLN in Virtual Fly Brain\"), [adult local interneuron of the lateral ALl1 neuroblast](https://www.virtualflybrain.org/reports/FBbt_00007394 \"Open adult local interneuron of the lateral ALl1 neuroblast in Virtual Fly Brain\"), [antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00052874 \"Open antennal lobe local neuron in Virtual Fly Brain\"), and [adult antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00007390 \"Open adult antennal lobe local neuron in Virtual Fly Brain\"). VFB holds [1661](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsPartHere \"Run in VFB: Neurons with some part in adult lateral horn\") neurons with some part in [adult lateral horn](https://www.virtualflybrain.org/reports/FBbt_00007053 \"Open adult lateral horn in Virtual Fly Brain\") and [1658](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult lateral horn\") neurons with synaptic terminals in adult lateral horn.",
+ "response": "The pathway from olfactory receptor neurons to the lateral horn involves projection neurons that reach the lateral horn through four antennal-lobe tracts. Antennal lobe projection neurons are intermediate neurons that connect olfactory receptor neurons to the lateral horn. VFB records show that the strongest specific inputs to [olfactory receptor neuron](https://www.virtualflybrain.org/reports/FBbt_00005926 \"Open olfactory receptor neuron in Virtual Fly Brain\") are from [adult antennal lobe local neuron lLN](https://www.virtualflybrain.org/reports/FBbt_00051502 \"Open adult antennal lobe local neuron lLN in Virtual Fly Brain\"), [adult local interneuron of the lateral ALl1 neuroblast](https://www.virtualflybrain.org/reports/FBbt_00007394 \"Open adult local interneuron of the lateral ALl1 neuroblast in Virtual Fly Brain\"), [antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00052874 \"Open antennal lobe local neuron in Virtual Fly Brain\"), [adult antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00007390 \"Open adult antennal lobe local neuron in Virtual Fly Brain\"), and [olfactory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007697 \"Open olfactory system neuron in Virtual Fly Brain\"). VFB does not currently hold data on downstream connectivity classes for olfactory receptor neuron. VFB holds [1661](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsPartHere \"Run in VFB: Neurons with some part in adult lateral horn\") records of neurons with some part in [adult lateral horn](https://www.virtualflybrain.org/reports/FBbt_00007053 \"Open adult lateral horn in Virtual Fly Brain\") and [1658](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult lateral horn\") records of neurons with synaptic terminals in adult lateral horn.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -1942,7 +1966,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1538,
+ "response_chars": 1930,
"status_count": 9
}
},
@@ -1956,7 +1980,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 194771,
+ "duration_ms": 59360,
"status_messages": [
{
"message": "Thinking...",
@@ -1995,13 +2019,13 @@
"phase": "llm"
}
],
- "event_count": 95,
+ "event_count": 102,
"ok": true,
- "request_id": "c3a1424b-25a7-47f5-b70f-151f99cf7996",
- "response_id": "chatcmpl-59a273e975a81020ccd0bba755aca2bb",
+ "request_id": "307027a3-b428-4057-b9df-0910c80d3e0b",
+ "response_id": "chatcmpl-927e6a592855d97389589d7897e5c9e1",
"images_count": 5,
"graphs_count": 0,
- "response": "The adult Drosophila visual system contains [950](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047736,SubclassesOf \"Run in VFB: Subclasses of visual system neuron\") distinct neuron types that are classified as subclasses of [visual system neuron](https://www.virtualflybrain.org/reports/FBbt_00047736 \"Open visual system neuron in Virtual Fly Brain\"). These include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [PS070](https://www.virtualflybrain.org/reports/FBbt_20001825 \"Open PS070 in Virtual Fly Brain\"), PS071, PS073, adult visual neuropil intrinsic neuron, lamina wide-field neuron, medulla intrinsic neuron vGlutMinew1a, TmY27, and Mi10b.",
+ "response": "The adult Drosophila visual system contains [950](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047736,SubclassesOf \"Run in VFB: Subclasses of visual system neuron\") distinct neuron types that are classified as subclasses of [visual system neuron](https://www.virtualflybrain.org/reports/FBbt_00047736 \"Open visual system neuron in Virtual Fly Brain\"). These include, but are not limited to, [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [PS070](https://www.virtualflybrain.org/reports/FBbt_20001825 \"Open PS070 in Virtual Fly Brain\"), PS071, PS073, adult visual neuropil intrinsic neuron, lamina wide-field neuron, medulla intrinsic neuron vGlutMinew1a, TmY27, and Mi10b.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -2012,7 +2036,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1016,
+ "response_chars": 1041,
"status_count": 9
}
},
@@ -2026,7 +2050,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 19583,
+ "duration_ms": 14220,
"status_messages": [
{
"message": "Thinking...",
@@ -2060,42 +2084,18 @@
"message": "Checking the answer is covered",
"phase": "llm"
},
- {
- "message": "Writing the answer",
- "phase": "llm"
- },
- {
- "message": "Checking before saying VFB has no data",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Checking the answer is covered",
- "phase": "llm"
- },
{
"message": "Writing the answer",
"phase": "llm"
}
],
- "event_count": 142,
+ "event_count": 51,
"ok": true,
- "request_id": "26722bc1-f394-453f-bddd-d39d8f79298e",
- "response_id": "chatcmpl-e04938424f36586db6aa1dab88c12aa2",
+ "request_id": "d079f7ea-f307-43cf-a5b0-1b942855fe24",
+ "response_id": "chatcmpl-038dae6628c7f7f8a7f4db008dd86e15",
"images_count": 8,
"graphs_count": 0,
- "response": "The strongest synaptic input to the MBON-gamma1pedc>a/b neuron is not specified in VFB evidence.",
+ "response": "The strongest synaptic input to the MBON-gamma1pedc>a/b neuron is not specified. VFB holds upstream connectivity classes for [mushroom body output neuron 11](https://www.virtualflybrain.org/reports/FBbt_00100246 \"Open mushroom body output neuron 11 in Virtual Fly Brain\"), but the lookup did not complete.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -2106,8 +2106,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 96,
- "status_count": 15
+ "response_chars": 305,
+ "status_count": 9
}
},
{
@@ -2120,7 +2120,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 17706,
+ "duration_ms": 18560,
"status_messages": [
{
"message": "Thinking...",
@@ -2150,6 +2150,10 @@
"message": "Querying VFB",
"phase": "mcp"
},
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
{
"message": "Checking the answer is covered",
"phase": "llm"
@@ -2159,13 +2163,13 @@
"phase": "llm"
}
],
- "event_count": 93,
+ "event_count": 128,
"ok": true,
- "request_id": "4e6e0034-981a-4bae-910a-706b78723f8f",
- "response_id": "chatcmpl-365a0c5ad1bc8ce6c9289acd0701c415",
+ "request_id": "92b671cb-26c7-4873-8cfb-38887b8c4cb5",
+ "response_id": "chatcmpl-04f5a6dd7395a8c2043a5fbd28556180",
"images_count": 8,
"graphs_count": 0,
- "response": "The connectome data indicates that [alpha/beta Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100248 \"Open alpha/beta Kenyon cell in Virtual Fly Brain\") and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\") have downstream targets that include [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\"). VFB returned matching entries including [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\") and gamma Kenyon cell. VFB does not currently hold data on the downstream connectivity classes for gamma Kenyon cell. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of mushroom body output neuron and [6](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00100248,SubclassesOf \"Run in VFB: Subclasses of KCab\") subclasses of alpha/beta Kenyon cell.",
+ "response": "The literature does not provide a clear answer to whether alpha/beta and gamma Kenyon cells converge on the same downstream [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\") types. VFB returned matching entries including [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\") and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"), but does not provide information on their downstream targets. VFB's class-level connectivity table for mushroom body output neuron lists [29,859](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,DownstreamClassConnectivity \"Run in VFB: Downstream connectivity classes for MBON\") downstream classes, but does not specify which of these are targeted by both alpha/beta and gamma Kenyon cells. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of mushroom body output neuron and [6](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00100248,SubclassesOf \"Run in VFB: Subclasses of KCab\") subclasses of [alpha/beta Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100248 \"Open alpha/beta Kenyon cell in Virtual Fly Brain\").",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -2176,8 +2180,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1079,
- "status_count": 9
+ "response_chars": 1417,
+ "status_count": 10
}
},
{
@@ -2190,7 +2194,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 12154,
+ "duration_ms": 13410,
"status_messages": [
{
"message": "Thinking...",
@@ -2223,8 +2227,8 @@
],
"event_count": 91,
"ok": true,
- "request_id": "d7a2bb29-ff1b-476d-bc1f-02d21c35641f",
- "response_id": "chatcmpl-26a253e38cf1ed31dfc2ce0a35217c69",
+ "request_id": "092e2c64-6df0-4cd5-872d-1fabd0c4bdec",
+ "response_id": "chatcmpl-075211341c0ee93d23d2e450a3b94f8d",
"images_count": 0,
"graphs_count": 0,
"response": "The anatomical containment hierarchy from the DA1 glomerulus up to the top-level brain structure is: DA1 glomerulus -> adult olfactory antennal lobe glomerulus -> adult antennal lobe -> adult deutocerebrum -> adult cerebrum -> adult central brain -> adult brain. VFB does not currently hold data on parts of [antennal lobe glomerulus DA1](https://www.virtualflybrain.org/reports/FBbt_00003932 \"Open antennal lobe glomerulus DA1 in Virtual Fly Brain\").",
@@ -2252,7 +2256,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 21510,
+ "duration_ms": 18657,
"status_messages": [
{
"message": "Thinking...",
@@ -2299,13 +2303,13 @@
"phase": "llm"
}
],
- "event_count": 133,
+ "event_count": 95,
"ok": true,
- "request_id": "73438ecc-4d91-4a9c-830f-5da751c17f70",
- "response_id": "chatcmpl-dd0af62ba024ff9a31a2afa91cd91faa",
+ "request_id": "c9ad058f-e98f-4f5b-9827-c0f2e0b6cfc0",
+ "response_id": "chatcmpl-3d769ce2319b04f6bb6b3cf811258cb5",
"images_count": 8,
"graphs_count": 0,
- "response": "Neurons that connect the [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") to the lateral accessory lobe include [PFL1](https://www.virtualflybrain.org/reports/FBbt_00111433 \"Open PFL1 in Virtual Fly Brain\"), [PFL2_PB4](https://www.virtualflybrain.org/reports/FBbt_00111453 \"Open PFL2_PB4 in Virtual Fly Brain\"), [PFL3_PB7](https://www.virtualflybrain.org/reports/FBbt_00111450 \"Open PFL3_PB7 in Virtual Fly Brain\"), [PFL1_PB1](https://www.virtualflybrain.org/reports/FBbt_00111434 \"Open PFL1_PB1 in Virtual Fly Brain\"), [PFL1_PB7](https://www.virtualflybrain.org/reports/FBbt_00111440 \"Open PFL1_PB7 in Virtual Fly Brain\"), and [PFL1_PB2](https://www.virtualflybrain.org/reports/FBbt_00111435 \"Open PFL1_PB2 in Virtual Fly Brain\"). VFB does not currently hold data on neurons with some part in embryonic/larval lateral accessory lobe, neurons with presynaptic terminals in embryonic/larval lateral accessory lobe, or neurons with postsynaptic terminals in embryonic/larval lateral accessory lobe.",
+ "response": "PFL1, PFL2_PB4, and PFL3_PB7 are neuron types connecting the [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") to the [lateral accessory lobe on L3 CNS template, Wood2018](https://www.virtualflybrain.org/reports/VFB_00050314 \"Open lateral accessory lobe on L3 CNS template, Wood2018 in Virtual Fly Brain\"). VFB does not currently hold data on neurons with presynaptic or postsynaptic terminals in the embryonic/larval lateral accessory lobe.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -2316,7 +2320,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1076,
+ "response_chars": 520,
"status_count": 11
}
},
@@ -2330,62 +2334,11 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 85034,
- "status_messages": [
- {
- "message": "Thinking...",
- "phase": "llm"
- },
- {
- "message": "Planning the answer",
- "phase": "llm"
- },
- {
- "message": "Resolving 1 term in VFB",
- "phase": "mcp"
- },
- {
- "message": "Reading VFB term info",
- "phase": "mcp"
- },
- {
- "message": "Finding genetic tools",
- "phase": "mcp"
- },
- {
- "message": "Checking the answer is covered",
- "phase": "llm"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Checking the answer is covered",
- "phase": "llm"
- },
- {
- "message": "Writing the answer",
- "phase": "llm"
- }
- ],
- "event_count": 166,
- "ok": true,
- "request_id": "d7a4cbbf-1758-42e2-9663-06daea08cc3b",
- "response_id": "chatcmpl-82c95030754fcbdf2ad2fd650497a522",
- "images_count": 8,
- "graphs_count": 0,
- "response": "Data for [descending neuron of the anterior dorsal brain DNa02](https://www.virtualflybrain.org/reports/FBbt_00047573 \"Open descending neuron of the anterior dorsal brain DNa02 in Virtual Fly Brain\") is available in VFB, including light microscopy images and driver lines. VFB holds [18](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047573,ListAllAvailableImages \"Run in VFB: List all available images of DNa02\") individual images of DNa02 and [2](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047573,SplitsTargeting \"Run in VFB: Splits targeting DNa02\") split-GAL4 combinations that target DNa02. There are also 2 transgene expression reports for DNa02. The genetic tools available to label DNa02 descending neurons include split-GAL4/intersectional expression patterns such as P{R87D07-GAL4.DBD} ∩ P{R75C10-p65.AD} and P{VT025718-GAL4.DBD} ∩ P{R22C05-p65.AD}. Some of the images are from the FlyEM-HB dataset and some are from MaleCNS.",
+ "ok": false,
+ "duration_ms": null,
+ "error": "Timed out after 240000 ms",
"quality_flags": {
- "has_tool_status": true,
+ "has_tool_status": false,
"no_tool_factual_answer": false,
"tool_claim_without_tool": false,
"disambiguation_only_answer": false,
@@ -2394,8 +2347,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 988,
- "status_count": 11
+ "response_chars": 25,
+ "status_count": 0
}
},
{
@@ -2408,7 +2361,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 11243,
+ "duration_ms": 191568,
"status_messages": [
{
"message": "Thinking...",
@@ -2439,13 +2392,13 @@
"phase": "llm"
}
],
- "event_count": 69,
+ "event_count": 56,
"ok": true,
- "request_id": "9af30db2-7b16-461d-b11c-beb45ef55a53",
- "response_id": "chatcmpl-578153acad6d6313fe7a0acac054c746",
+ "request_id": "9aaa17ff-a1d9-4fdf-b5b5-e2928be8911e",
+ "response_id": "chatcmpl-28692739ecd698bd802422f5eea6c043",
"images_count": 0,
"graphs_count": 0,
- "response": "Neurons involved in the detection of carbon dioxide include carbon dioxide sensitive neurons. These connect to downstream classes such as GABAergic local interneuron of the adult antennal lobe and adult antennal lobe local neuron lLN2P. The question about genetic tools to access these neurons remains unanswered.",
+ "response": "The neurons involved in the detection of carbon dioxide are carbon dioxide sensitive neurons. These neurons are involved in the detection of carbon dioxide.\n\nThe question of how these neurons are connected and what genetic tools can be used to access them remains unanswered.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -2456,7 +2409,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 313,
+ "response_chars": 275,
"status_count": 7
}
},
@@ -2470,7 +2423,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 220438,
+ "duration_ms": 26836,
"status_messages": [
{
"message": "Thinking...",
@@ -2509,13 +2462,13 @@
"phase": "llm"
}
],
- "event_count": 410,
+ "event_count": 228,
"ok": true,
- "request_id": "fa7c341c-41e7-4e9c-b709-431080b85e32",
- "response_id": "chatcmpl-cde2df88e1b465c53ebf2e783b6e70ef",
+ "request_id": "57d0d4d5-9bdf-439b-8892-1cbe8b31a437",
+ "response_id": "chatcmpl-8ff8430aa374ef6ec663620ab50f0756",
"images_count": 8,
"graphs_count": 1,
- "response": "The [giant fiber neuron](https://www.virtualflybrain.org/reports/FBbt_00004020 \"Open giant fiber neuron in Virtual Fly Brain\") is a large adult descending neuron that controls jump escape behavior. It has a large cell body located posterior to the lower protocerebrum and a large descending axon that enters the cervical connective via the posterior cerebro-cervical fascicle and descends on the ipsilateral side in the dorsal cervical fasciculus. The neuron has dendritic arborization in the ipsilateral zones A and B of the antennal mechanosensory and motor center, where it receives substantial input from zone A and B Johnston organ neurons, and also arborizes in the posterior ventrolateral protocerebrum and gorget. In the ventral nerve cord, it forms electrical synapses with downstream motor and premotor neurons at the inframedial bridge and at the axonal lateral bend.\n\nThe giant fiber neuron has downstream connectivity classes, including adult neuron, neuron, CNS neuron, and adult CNS neuron, and upstream connectivity classes, including giant fiber neuron, adult neuron, neuron, CNS neuron, and adult CNS neuron.\n\nAvailable genetic tools for the giant fiber neuron include GAL4 drivers and split-GAL4/intersectional expression patterns, such as P{GMR78G07-GAL4} and P{R48A11-GAL4.DBD} ∩ P{R30C01-p65.AD}. VFB records show [10](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,TransgeneExpressionHere \"Run in VFB: Transgene expression in DNp01\") transgene expression patterns for the giant fiber neuron, including [P{GMR78G07-GAL4} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0062972 \"Open P{GMR78G07-GAL4} expression pattern in Virtual Fly Brain\"), [P{GMR79D08-GAL4} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0063022 \"Open P{GMR79D08-GAL4} expression pattern in Virtual Fly Brain\"), and [P{R48A11-GAL4.DBD} ∩ P{R30C01-p65.AD} expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBtp0121835FBtp0118557 \"Open P{R48A11-GAL4.DBD} ∩ P{R30C01-p65.AD} expression pattern in Virtual Fly Brain\").\n\nThe neuron is associated with several publications, including 'The Drosophila connectome reveals axo-axonic synapses on descending neurons' by Ceballos C, Lopez J, Roachford T, Sanchez D, Jara S, 2026.",
+ "response": "The [giant fiber neuron](https://www.virtualflybrain.org/reports/FBbt_00004020 \"Open giant fiber neuron in Virtual Fly Brain\") is a large adult descending neuron that controls jump escape behavior. Its downstream connectivity classes for DNp01 include [389](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,DownstreamClassConnectivity \"Run in VFB: Downstream connectivity classes for DNp01\") entries, and its upstream connectivity classes for DNp01 include [472](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,UpstreamClassConnectivity \"Run in VFB: Upstream connectivity classes for DNp01\") entries. The giant fiber neuron has been found to express in several transgenic lines, with [10](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,TransgeneExpressionHere \"Run in VFB: Transgene expression in DNp01\") results returned for transgene expression in DNp01, including expression patterns for P{GMR78G07-GAL4}, P{GMR79D08-GAL4}, and P{GMR91H05-GAL4}.\n\nConnectivity partners of the giant fiber neuron include [adult VNC neuron](https://www.virtualflybrain.org/reports/FBbt_00059289 \"Open adult VNC neuron in Virtual Fly Brain\"), [thoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001983 \"Open thoracic neuron in Virtual Fly Brain\"), [mesothoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001985 \"Open mesothoracic neuron in Virtual Fly Brain\"), [primary neuron](https://www.virtualflybrain.org/reports/FBbt_00047097 \"Open primary neuron in Virtual Fly Brain\"), [Notch OFF hemilineage secondary neuron](https://www.virtualflybrain.org/reports/FBbt_00049542 \"Open Notch OFF hemilineage secondary neuron in Virtual Fly Brain\"), [prothoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001984 \"Open prothoracic neuron in Virtual Fly Brain\"), [Notch ON hemilineage secondary neuron](https://www.virtualflybrain.org/reports/FBbt_00049541 \"Open Notch ON hemilineage secondary neuron in Virtual Fly Brain\"), [adult ascending neuron](https://www.virtualflybrain.org/reports/FBbt_00048301 \"Open adult ascending neuron in Virtual Fly Brain\"), [sensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007693 \"Open sensory system neuron in Virtual Fly Brain\"), [projection neuron](https://www.virtualflybrain.org/reports/FBbt_00007392 \"Open projection neuron in Virtual Fly Brain\"), [Notch OFF hemilineage primary neuron](https://www.virtualflybrain.org/reports/FBbt_00047105 \"Open Notch OFF hemilineage primary neuron in Virtual Fly Brain\"), and [adult visual projection neuron](https://www.virtualflybrain.org/reports/FBbt_00048286 \"Open adult visual projection neuron in Virtual Fly Brain\").\n\nThe giant fiber neuron's role in controlling jump escape behavior is noted in the literature, as referenced by Thomas and Wyman, 1984.",
"graphs": [
{
"type": "basic_graph",
@@ -2741,7 +2694,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 2304,
+ "response_chars": 2857,
"status_count": 9
}
},
@@ -2755,7 +2708,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 22370,
+ "duration_ms": 25128,
"status_messages": [
{
"message": "Thinking...",
@@ -2789,10 +2742,6 @@
"message": "Querying VFB",
"phase": "mcp"
},
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
{
"message": "Checking the answer is covered",
"phase": "llm"
@@ -2802,13 +2751,13 @@
"phase": "llm"
}
],
- "event_count": 180,
+ "event_count": 149,
"ok": true,
- "request_id": "6ad6ff8f-5c5e-4722-8f11-09653506705f",
- "response_id": "chatcmpl-c08d3e696fb360479c4145882614237f",
+ "request_id": "479a7a76-d078-49a6-9ec3-4c9155970716",
+ "response_id": "chatcmpl-cc32eeab405b00347867029f8b9cd424",
"images_count": 8,
"graphs_count": 1,
- "response": "Based on connectivity data, adult visual projection neurons might mediate the connection between the visual system and the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"), as they have presynaptic terminals in the mushroom body. Projection neurons are also suggested to mediate this connection. The strongest specific inputs to [visual system neuron](https://www.virtualflybrain.org/reports/FBbt_00047736 \"Open visual system neuron in Virtual Fly Brain\") include [optic lobe narrow field columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00110136 \"Open optic lobe narrow field columnar neuron in Virtual Fly Brain\"), [optic lobe intrinsic columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00007578 \"Open optic lobe intrinsic columnar neuron in Virtual Fly Brain\"), [adult optic lobe neuron](https://www.virtualflybrain.org/reports/FBbt_00003702 \"Open adult optic lobe neuron in Virtual Fly Brain\"), [adult optic lobe columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00005129 \"Open adult optic lobe columnar neuron in Virtual Fly Brain\"), [transmedullary neuron](https://www.virtualflybrain.org/reports/FBbt_00003788 \"Open transmedullary neuron in Virtual Fly Brain\"), and [optic lobe wide-field columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00110137 \"Open optic lobe wide-field columnar neuron in Virtual Fly Brain\"). The strongest specific targets of visual system neuron are adult optic lobe neuron, optic lobe wide-field columnar neuron, adult optic lobe columnar neuron, optic lobe intrinsic columnar neuron, [adult visual projection neuron](https://www.virtualflybrain.org/reports/FBbt_00048286 \"Open adult visual projection neuron in Virtual Fly Brain\"), and transmedullary neuron. VFB lists [602](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPartHere \"Run in VFB: Neurons with some part in mushroom body\") neurons with some part in the mushroom body.",
+ "response": "Based on connectivity data, adult visual projection neurons and projection neurons might mediate a connection between the visual system and the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"). The connectome data indicates that adult visual projection neurons have presynaptic terminals in the mushroom body. VFB records show that the strongest specific inputs to [visual system neuron](https://www.virtualflybrain.org/reports/FBbt_00047736 \"Open visual system neuron in Virtual Fly Brain\") include [optic lobe narrow field columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00110136 \"Open optic lobe narrow field columnar neuron in Virtual Fly Brain\"), [optic lobe intrinsic columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00007578 \"Open optic lobe intrinsic columnar neuron in Virtual Fly Brain\"), and [adult optic lobe neuron](https://www.virtualflybrain.org/reports/FBbt_00003702 \"Open adult optic lobe neuron in Virtual Fly Brain\"), while the strongest specific targets of visual system neuron include adult optic lobe neuron, [optic lobe wide-field columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00110137 \"Open optic lobe wide-field columnar neuron in Virtual Fly Brain\"), and [adult visual projection neuron](https://www.virtualflybrain.org/reports/FBbt_00048286 \"Open adult visual projection neuron in Virtual Fly Brain\"). VFB holds [602](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPartHere \"Run in VFB: Neurons with some part in mushroom body\") neurons with some part in mushroom body and [601](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in mushroom body\") neurons with synaptic terminals in mushroom body.",
"graphs": [
{
"type": "basic_graph",
@@ -3027,8 +2976,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 2015,
- "status_count": 11
+ "response_chars": 1858,
+ "status_count": 10
}
},
{
@@ -3041,7 +2990,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 19897,
+ "duration_ms": 18084,
"status_messages": [
{
"message": "Thinking...",
@@ -3082,8 +3031,8 @@
],
"event_count": 90,
"ok": true,
- "request_id": "5ee55ae9-77fb-4691-b039-fe0128b7e5c5",
- "response_id": "chatcmpl-66950b80642a9db0d388febce7eda953",
+ "request_id": "45fff166-fab0-42d5-854f-305b73e2176f",
+ "response_id": "chatcmpl-2c2c2db306c0142404f83d8fb7f6c3aa",
"images_count": 8,
"graphs_count": 1,
"response": "The downstream targets of [l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00003763 \"Open l-LNv neuron in Virtual Fly Brain\") include [adult visual projection neuron](https://www.virtualflybrain.org/reports/FBbt_00048286 \"Open adult visual projection neuron in Virtual Fly Brain\"), [sensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007693 \"Open sensory system neuron in Virtual Fly Brain\"), [Notch ON hemilineage secondary neuron](https://www.virtualflybrain.org/reports/FBbt_00049541 \"Open Notch ON hemilineage secondary neuron in Virtual Fly Brain\"), [optic lobe narrow field columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00110136 \"Open optic lobe narrow field columnar neuron in Virtual Fly Brain\"), [optic lobe intrinsic columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00007578 \"Open optic lobe intrinsic columnar neuron in Virtual Fly Brain\"), [adult optic lobe neuron](https://www.virtualflybrain.org/reports/FBbt_00003702 \"Open adult optic lobe neuron in Virtual Fly Brain\"), and [adult optic lobe columnar neuron](https://www.virtualflybrain.org/reports/FBbt_00005129 \"Open adult optic lobe columnar neuron in Virtual Fly Brain\"). VFB does not currently hold data on the downstream connectivity classes for [adult s-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00007428 \"Open adult s-LNv neuron in Virtual Fly Brain\").",
@@ -3391,7 +3340,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 23333,
+ "duration_ms": 24855,
"status_messages": [
{
"message": "Thinking...",
@@ -3402,11 +3351,11 @@
"phase": "llm"
},
{
- "message": "Resolving 2 terms in VFB",
- "phase": "mcp"
+ "phase": "plan",
+ "message": "The plan is contested — sampling again before committing."
},
{
- "message": "Tracing the pathway",
+ "message": "Resolving 2 terms in VFB",
"phase": "mcp"
},
{
@@ -3442,228 +3391,13 @@
"phase": "llm"
}
],
- "event_count": 155,
+ "event_count": 209,
"ok": true,
- "request_id": "d6e4d4c9-5807-4e2e-979e-9be54ba1852f",
- "response_id": "chatcmpl-6e0897cb7ef6844148a916526ee228dd",
+ "request_id": "5eaf5a52-368e-4f40-8b32-9be3010fa793",
+ "response_id": "chatcmpl-5870473a8d5f95eaeeb33fe1931f63c1",
"images_count": 8,
- "graphs_count": 1,
- "response": "The connectivity between thermosensory neurons and the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is supported by evidence that thermosensory neurons influence mushroom body memory formation through thermosensory projection neurons. The strongest specific targets of [thermosensory neuron](https://www.virtualflybrain.org/reports/FBbt_00005918 \"Open thermosensory neuron in Virtual Fly Brain\") are projection neurons, including antennal lobe projection neurons, which have a high number of synapses per connected pair and a high percentage of individuals connected. Thermosensory neurons also receive input from adult antennal lobe local neurons. VFB records show that there are [366](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in mushroom body\") neurons with presynaptic terminals in the mushroom body and [304](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in mushroom body\") neurons with postsynaptic terminals in the mushroom body. The connectivity data indicates that temperature information could influence memory formation in the mushroom body.",
- "graphs": [
- {
- "type": "basic_graph",
- "version": 1,
- "title": "Downstream partners of thermosensory neuron",
- "directed": true,
- "layout": "circle",
- "nodes": [
- {
- "id": "FBbt_00005918",
- "label": "thermosensory neuron",
- "group": null,
- "color": null,
- "size": 4
- },
- {
- "id": "FBbt_00005106",
- "label": "neuron",
- "group": null,
- "color": null,
- "size": 1.4
- },
- {
- "id": "FBbt_00047095",
- "label": "adult neuron",
- "group": null,
- "color": null,
- "size": 1.39
- },
- {
- "id": "FBbt_00059271",
- "label": "CNS neuron",
- "group": null,
- "color": null,
- "size": 1.38
- },
- {
- "id": "FBbt_00007392",
- "label": "projection neuron",
- "group": null,
- "color": null,
- "size": 1.22
- },
- {
- "id": "FBbt_00007422",
- "label": "antennal lobe projection neuron",
- "group": null,
- "color": null,
- "size": 1.21
- },
- {
- "id": "FBbt_00067123",
- "label": "adult antennal lobe projection neuron",
- "group": null,
- "color": null,
- "size": 1.21
- },
- {
- "id": "FBbt_00051493",
- "label": "local neuron",
- "group": null,
- "color": null,
- "size": 1.15
- },
- {
- "id": "FBbt_00052874",
- "label": "antennal lobe local neuron",
- "group": null,
- "color": null,
- "size": 1.15
- },
- {
- "id": "FBbt_00007390",
- "label": "adult antennal lobe local neuron",
- "group": null,
- "color": null,
- "size": 1.15
- },
- {
- "id": "FBbt_00007384",
- "label": "multiglomerular antennal lobe projection neuron",
- "group": null,
- "color": null,
- "size": 1.14
- },
- {
- "id": "FBbt_00007441",
- "label": "adult multiglomerular antennal lobe projection neuron",
- "group": null,
- "color": null,
- "size": 1.14
- },
- {
- "id": "FBbt_00049427",
- "label": "adult lateral horn input neuron",
- "group": null,
- "color": null,
- "size": 1.12
- },
- {
- "id": "FBbt_00053398",
- "label": "adult antennal lobe projection neuron to lateral horn",
- "group": null,
- "color": null,
- "size": 1.12
- },
- {
- "id": "FBbt_00053397",
- "label": "antennal lobe projection neuron to mushroom body",
- "group": null,
- "color": null,
- "size": 1.11
- },
- {
- "id": "FBbt_00007394",
- "label": "adult local interneuron of the lateral ALl1 neuroblast",
- "group": null,
- "color": null,
- "size": 1.11
- }
- ],
- "edges": [
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00005106",
- "label": "78601",
- "weight": 78601
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00047095",
- "label": "77005",
- "weight": 77005
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00059271",
- "label": "75663",
- "weight": 75663
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007392",
- "label": "42907",
- "weight": 42907
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007422",
- "label": "41794",
- "weight": 41794
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00067123",
- "label": "41646",
- "weight": 41646
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00051493",
- "label": "30596",
- "weight": 30596
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00052874",
- "label": "30596",
- "weight": 30596
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007390",
- "label": "30271",
- "weight": 30271
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007384",
- "label": "27881",
- "weight": 27881
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007441",
- "label": "27735",
- "weight": 27735
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00049427",
- "label": "24184",
- "weight": 24184
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00053398",
- "label": "24184",
- "weight": 24184
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00053397",
- "label": "22043",
- "weight": 22043
- },
- {
- "source": "FBbt_00005918",
- "target": "FBbt_00007394",
- "label": "21470",
- "weight": 21470
- }
- ]
- }
- ],
+ "graphs_count": 0,
+ "response": "The connectome data indicates that thermosensory neurons have downstream connections to several classes, including [projection neuron](https://www.virtualflybrain.org/reports/FBbt_00007392 \"Open projection neuron in Virtual Fly Brain\"), [adult antennal lobe projection neuron](https://www.virtualflybrain.org/reports/FBbt_00067123 \"Open adult antennal lobe projection neuron in Virtual Fly Brain\"), and [antennal lobe projection neuron](https://www.virtualflybrain.org/reports/FBbt_00007422 \"Open antennal lobe projection neuron in Virtual Fly Brain\"), with mean synaptic weights per connected pair of 18.9, 18.8, and 18.7, respectively. They also have upstream connections from classes such as [adult antennal lobe local neuron lLN2](https://www.virtualflybrain.org/reports/FBbt_00007396 \"Open adult antennal lobe local neuron lLN2 in Virtual Fly Brain\"), [unilateral local interneuron of the adult antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00051503 \"Open unilateral local interneuron of the adult antennal lobe in Virtual Fly Brain\"), and [adult antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00007390 \"Open adult antennal lobe local neuron in Virtual Fly Brain\"), with mean synaptic weights per connected pair of 10.1, 10, and 9.06, respectively.\n\nVFB records show that there are [366](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in mushroom body\") neurons with presynaptic terminals in the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") and [304](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in mushroom body\") neurons with postsynaptic terminals in the mushroom body. The strongest specific targets of thermosensory neurons include projection neurons and adult antennal lobe projection neurons, which could potentially influence memory formation in the mushroom body.",
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@@ -3674,7 +3408,7 @@
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"missing_required_graph": false,
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- "response_chars": 1332,
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}
},
@@ -3688,7 +3422,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 38769,
+ "duration_ms": 217962,
"status_messages": [
{
"message": "Thinking...",
@@ -3735,13 +3469,13 @@
"phase": "llm"
}
],
- "event_count": 224,
+ "event_count": 136,
"ok": true,
- "request_id": "51a46ee2-2d11-4bfb-9e60-1bf4b0fa1e74",
- "response_id": "chatcmpl-27494bed95f56408dc5f7641d5828a3a",
+ "request_id": "684cb405-8fdb-4a39-8fad-acb50ba44878",
+ "response_id": "chatcmpl-0b86949ab8c868b5200e7a1b0647c593",
"images_count": 0,
"graphs_count": 0,
- "response": "The subesophageal zone (SEZ) is a well-characterised region in VFB, with annotated neuron types, available connectomics data, and existing genetic tools for SEZ neurons. The [larval subesophageal zone descending SEZ DN neuron](https://www.virtualflybrain.org/reports/FBbt_00111241 \"Open larval subesophageal zone descending SEZ DN neuron in Virtual Fly Brain\") is one of the annotated neuron types, with its soma location in the cell body rind of the larval gnathal ganglion and synaptic IO in the larval central nervous system. This neuron receives synaptic input from the larval A00c neuron and the larval Basin neuron, and sends synaptic output to these cells. Genetic tools exist for SEZ neurons, including GAL4 drivers and binary/intersectional drivers, with 4205 genetic tool/expression pattern rows available for the subesophageal zone. Connectomics data available for the SEZ includes downstream and upstream connectivity classes. VFB holds records of transgene expression in the larval subesophageal zone descending SEZ DN neuron, as well as its downstream and upstream connectivity classes, which can be queried for their counts.",
+ "response": "The subesophageal zone (SEZ) is characterised in VFB with annotated neuron types, including the [larval subesophageal zone descending SEZ DN neuron](https://www.virtualflybrain.org/reports/FBbt_00111241 \"Open larval subesophageal zone descending SEZ DN neuron in Virtual Fly Brain\"). Genetic tools exist for SEZ neurons, including GAL4 drivers and binary/intersectional drivers, with 4205 genetic tool/expression pattern rows available for the subesophageal zone. Connectomics data available for the SEZ includes downstream and upstream connectivity classes, as well as transgene expression reports and split-GAL4 combinations. VFB holds data on splits targeting the larval subesophageal zone descending SEZ DN neuron.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -3752,7 +3486,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1139,
+ "response_chars": 718,
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}
},
@@ -3766,7 +3500,7 @@
"requires_graph": true,
"min_graphs": 1,
"repetition": 1,
- "duration_ms": 24126,
+ "duration_ms": 203851,
"status_messages": [
{
"message": "Thinking...",
@@ -3813,13 +3547,13 @@
"phase": "llm"
}
],
- "event_count": 196,
+ "event_count": 189,
"ok": true,
- "request_id": "35043868-b42d-4545-9afa-eca152972ad2",
- "response_id": "chatcmpl-cf77c76b21716dcf61d44a8de69ced01",
+ "request_id": "7b9bce07-79bf-47bd-8501-d38c84dafeec",
+ "response_id": "chatcmpl-373834964c8ca90d5bd09abead5d4a8d",
"images_count": 8,
"graphs_count": 1,
- "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") has various connections, including [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in it, [464](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in medulla\") neuron types with synaptic terminals, [262](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in medulla\") neuron types with presynaptic terminals, and [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neuron types with postsynaptic terminals. VFB records show that the first 12 neuron types with presynaptic terminals in the medulla are [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18. The first 12 neuron types with postsynaptic terminals in the medulla are CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19.",
+ "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") has various connections, including [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in it, [464](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in medulla\") neuron types with synaptic terminals in it, [262](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in medulla\") neuron types with presynaptic terminals in it, and [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neuron types with postsynaptic terminals in it. Neurons with presynaptic terminals in the medulla include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18. Neurons with postsynaptic terminals in the medulla include CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19.",
"graphs": [
{
"type": "basic_graph",
@@ -3966,7 +3700,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 2016,
+ "response_chars": 1984,
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}
},
@@ -3980,7 +3714,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 8250,
+ "duration_ms": 5760,
"status_messages": [
{
"message": "Thinking...",
@@ -4011,13 +3745,13 @@
"phase": "llm"
}
],
- "event_count": 42,
+ "event_count": 21,
"ok": true,
- "request_id": "adb33af3-596e-4d79-a753-083c8f9cf802",
- "response_id": "chatcmpl-751fdb7f53cca3d87d53bf9ad16f0d59",
+ "request_id": "a3ef8b83-98f3-4995-861b-ff510cc3534d",
+ "response_id": "chatcmpl-051148ae4855e744e91a428f631903ac",
"images_count": 0,
"graphs_count": 0,
- "response": "Virtual Fly Brain is an interactive tool for neurobiologists to explore the detailed neuroanatomy, neuron connectivity, and gene expression of Drosophila melanogaster.",
+ "response": "Virtual Fly Brain is for the Drosophila research community.",
"quality_flags": {
"has_tool_status": true,
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@@ -4028,7 +3762,7 @@
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},
@@ -4042,7 +3776,7 @@
"requires_graph": false,
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- "duration_ms": 11725,
+ "duration_ms": 7739,
"status_messages": [
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"message": "Thinking...",
@@ -4069,13 +3803,13 @@
"phase": "llm"
}
],
- "event_count": 118,
+ "event_count": 63,
"ok": true,
- "request_id": "ad89a1c8-3cf8-4e55-9140-996c6fd00444",
- "response_id": "chatcmpl-d5ccdff4c7e5bad883aaeddcb64324bf",
+ "request_id": "86cf720b-859a-43a5-89f1-b1aaf0916ef4",
+ "response_id": "chatcmpl-ca0a5e4b9d7e0ff82ec18bbbf570096f",
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"graphs_count": 0,
- "response": "To cite Virtual Fly Brain in a publication, use the citation VFB evidence on their website, including APA, MLA, Chicago, and BibTeX formats. If you use Virtual Fly Brain data, tools, or resources in your research, please cite their work using the citation formats below, which include a reference to Court et al., 2023, Virtual Fly Brain—An interactive atlas of the Drosophila nervous system, published in Frontiers in Physiology, https://doi.org/10.3389/fphys.2023.1076533.",
+ "response": "To cite Virtual Fly Brain in a publication, use the citation VFB evidence on the website, including APA, MLA, Chicago, and BibTeX formats. If you use Virtual Fly Brain data, tools, or resources in your research, please cite their work using the citation formats provided.",
"quality_flags": {
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@@ -4086,7 +3820,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
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- "response_chars": 474,
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}
},
@@ -4100,7 +3834,7 @@
"requires_graph": false,
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"repetition": 1,
- "duration_ms": 6803,
+ "duration_ms": 6575,
"status_messages": [
{
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@@ -4127,13 +3861,13 @@
"phase": "llm"
}
],
- "event_count": 28,
+ "event_count": 25,
"ok": true,
- "request_id": "b3c10524-a31c-421a-b6c1-6b66136e7f52",
- "response_id": "chatcmpl-d65046822657c4617f31632586217ffa",
+ "request_id": "87acd82d-ee18-46ce-bac2-bb821f570a6c",
+ "response_id": "chatcmpl-48f368bcb67f04ef1d46b98f67ef372c",
"images_count": 0,
"graphs_count": 0,
- "response": "Virtual Fly Brain has been supported by grants from multiple UK research councils and charitable foundations since 2009.",
+ "response": "Virtual Fly Brain is funded by multiple UK research councils and charitable foundations since 2009.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4144,7 +3878,7 @@
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},
@@ -4158,7 +3892,7 @@
"requires_graph": false,
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"repetition": 1,
- "duration_ms": 10590,
+ "duration_ms": 6344,
"status_messages": [
{
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@@ -4189,13 +3923,13 @@
"phase": "llm"
}
],
- "event_count": 116,
+ "event_count": 60,
"ok": true,
- "request_id": "7121ef09-767d-4a32-a545-cecc240c760c",
- "response_id": "chatcmpl-c8161dad7a15eec16ed808e2f37601bf",
+ "request_id": "1edfbdb9-af1c-4d87-b2d2-6b9b22076568",
+ "response_id": "chatcmpl-08fc63f19fde739f936fa75df4d20f85",
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- "response": "Virtual Fly Brain's accessibility statement is in line with the Public Sector Bodies (Websites and Mobile Applications) (No. 2) Accessibility Regulations 2018. The University of Edinburgh is committed to making its websites and applications accessible, and Virtual Fly Brain is partially compliant with the Web Content Accessibility Guidelines (WCAG) 2.2 AA standard. The website is designed to be accessible, but some features, such as 3D image stacks, neuron skeletons, and connectivity diagrams, cannot be made fully accessible without losing scientific meaning.",
+ "response": "The Virtual Fly Brain website is partially compliant with the Web Content Accessibility Guidelines (WCAG) 2.2 AA standard, with non-compliances listed, and the University of Edinburgh is committed to making its websites and applications accessible in line with the regulations.",
"quality_flags": {
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"no_tool_factual_answer": false,
@@ -4206,7 +3940,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 565,
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}
},
@@ -4220,7 +3954,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 10234,
+ "duration_ms": 11190,
"status_messages": [
{
"message": "Thinking...",
@@ -4247,13 +3981,13 @@
"phase": "llm"
}
],
- "event_count": 110,
+ "event_count": 120,
"ok": true,
- "request_id": "ae2875e0-94bb-4d02-b378-c989584e0f03",
- "response_id": "chatcmpl-f523e01c7ae01aa571dc0c44f5eddff7",
+ "request_id": "a168ed37-bb21-4ed0-88cc-dd8326d3f60d",
+ "response_id": "chatcmpl-87ad36bd57a1f37ee29535b16d4bc3f6",
"images_count": 0,
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- "response": "To report a problem or contribute data to Virtual Fly Brain, you can get in touch with the Virtual Fly Brain team through their contact page. Alternatively, you can follow the contribution guidelines. For help with using Virtual Fly Brain, you can use the public support forum at support@virtualflybrain.org. To report technical issues, bugs, or request new features, you can use GitHub Issues. For data inclusion discussions, collaboration proposals, or confidential matters, you can use the private email data@virtualflybrain.org.",
+ "response": "To report a problem or contribute data to Virtual Fly Brain, users can get in touch with the team through the contact page. For help with using Virtual Fly Brain, comments, suggestions, or general questions, users can reach out through the public support forum at support@virtualflybrain.org. To report technical issues, bugs, or request new features, users can submit a report on GitHub Issues. For data inclusion discussions, collaboration proposals, or confidential matters that require direct communication with the team, users can contact them via private email at data@virtualflybrain.org.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4264,7 +3998,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 532,
+ "response_chars": 595,
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}
},
@@ -4278,7 +4012,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 9925,
+ "duration_ms": 9899,
"status_messages": [
{
"message": "Thinking...",
@@ -4305,13 +4039,13 @@
"phase": "llm"
}
],
- "event_count": 93,
+ "event_count": 94,
"ok": true,
- "request_id": "3c08c4e3-44a8-418f-955c-c190a8e40956",
- "response_id": "chatcmpl-91ea514e60bfe32d2617e88bfa2cf7e7",
+ "request_id": "c13184e7-309a-47c2-b106-16493ffe0dae",
+ "response_id": "chatcmpl-cd40097029d187062009d9dac4868f35",
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- "response": "To use the 3D Viewer on the VFB website, select neurons or expression by point and click. Rotate or move the view by clicking and dragging with the mouse or using the directional icons. Zoom in or out using the zoom icons or by scrolling with the mouse. The home icon resets the view. The camera icon starts or stops a rotation animation of the scene. The sphere icon toggles wireframes on or off.",
+ "response": "To use the 3D Viewer on the VFB website, point and click to select neurons or expression. Click and drag with the mouse or use the directional icons to rotate or move the view. Use the zoom icons or scroll with the mouse to zoom in or out. The home button resets the view. The camera icon starts or stops a rotation animation of the scene, and the sphere icon toggles wireframes on or off.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4322,7 +4056,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 397,
+ "response_chars": 389,
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}
},
@@ -4336,7 +4070,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 13945,
+ "duration_ms": 12607,
"status_messages": [
{
"message": "Thinking...",
@@ -4371,13 +4105,13 @@
"phase": "llm"
}
],
- "event_count": 58,
+ "event_count": 61,
"ok": true,
- "request_id": "df4aca67-0de0-439c-a6cc-16e31f9e896d",
- "response_id": "chatcmpl-b8e41f519cb7323507034e80a520abfb",
+ "request_id": "c24196e5-220f-47e4-a0da-ee35f4298aa4",
+ "response_id": "chatcmpl-b6a6080e5982a501c7b9ada98a7bba39",
"images_count": 0,
"graphs_count": 0,
- "response": "The Circuit Browser tab on VFB allows you to find the strongest paths from one neuron to another. To use it, you would typically select a source neuron and a target neuron, and the Circuit Browser would then display the strongest paths between them.",
+ "response": "The Circuit Browser tab on VFB allows you to find the strongest paths from one neuron to another. To use it, you would typically specify a source neuron and a target neuron, and the Circuit Browser would then allow you to find the strongest paths between them.",
"quality_flags": {
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"no_tool_factual_answer": false,
@@ -4388,7 +4122,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
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- "response_chars": 249,
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},
@@ -4402,7 +4136,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 13930,
+ "duration_ms": 19906,
"status_messages": [
{
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@@ -4433,13 +4167,13 @@
"phase": "llm"
}
],
- "event_count": 136,
+ "event_count": 159,
"ok": true,
- "request_id": "3111bae7-70a7-4ba5-9c3d-12c08e56b0e5",
- "response_id": "chatcmpl-b13cc24410953488cec39772d19d5db5",
+ "request_id": "e83050c6-0463-4305-89c7-f18f33c8aedf",
+ "response_id": "chatcmpl-d2c25bd29861651a29b9eb2435a42e81",
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- "response": "NBLAST is a method to quantify morphological similarity. It works on \"dotprops\" which represent neurons as tangent vectors. For each tangent vector in the query neuron, NBLAST finds the closest tangent vector in the target neuron and calculates a score from the distance between and the dotproduct of the two vectors. The final NBLAST score is the sum over all query-target vector pairs. Typically, this score is normalized to a self-self comparison, where a perfect match would be 1. An NBLAST similarity score therefore represents a measure of how similar the morphology of two neurons is, with higher scores indicating greater similarity.",
+ "response": "NBLAST is a method to quantify morphological similarity. It works on \"dotprops\" which represent neurons as tangent vectors. For each tangent vector in the query neuron, NBLAST finds the closest tangent vector in the target neuron and calculates a score from the distance between and the dotproduct of the two vectors. The final NBLAST score is the sum over all query-target vector pairs. Typically, this score is normalized to a self-self comparison, where a perfect match would be 1.\n\nAn NBLAST similarity score represents the degree of morphological similarity between two neurons, with higher scores indicating greater similarity. The score is computed per registered neuron, making it a scored comparison of individual neurons rather than a property of the cell type.",
"quality_flags": {
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@@ -4450,7 +4184,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
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- "response_chars": 641,
+ "response_chars": 771,
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},
@@ -4464,7 +4198,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 9395,
+ "duration_ms": 6946,
"status_messages": [
{
"message": "Thinking...",
@@ -4474,10 +4208,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "message": "Resolving 1 term in VFB",
- "phase": "mcp"
- },
{
"message": "Reading VFB documentation",
"phase": "mcp"
@@ -4495,13 +4225,13 @@
"phase": "llm"
}
],
- "event_count": 78,
+ "event_count": 63,
"ok": true,
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- "response_id": "chatcmpl-46fc6e773837722c877f8f271b7b2add",
+ "request_id": "bbd12d35-9f7c-4d96-8fad-70a4d015fa17",
+ "response_id": "chatcmpl-e31098f195391817cf31621b33c05769",
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- "response": "Confidence values on Virtual Fly Brain represent the source study's own confidence score for predictions, such as predicted neurotransmitters, and should be read against the publication it came from rather than compared across datasets. The value shown is the source study’s own confidence score, carried through unchanged, with each study defining its own scale and threshold for calling a prediction.",
+ "response": "Confidence values on Virtual Fly Brain represent the source study's own confidence score for predictions, such as predicted neurotransmitters. These values should be read against the publication they came from, rather than compared across datasets, as each study defines its own scale and threshold for calling a prediction.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4512,8 +4242,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 402,
- "status_count": 7
+ "response_chars": 324,
+ "status_count": 6
}
},
{
@@ -4526,7 +4256,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 10229,
+ "duration_ms": 11071,
"status_messages": [
{
"message": "Thinking...",
@@ -4557,13 +4287,13 @@
"phase": "llm"
}
],
- "event_count": 53,
+ "event_count": 35,
"ok": true,
- "request_id": "2ca0f63b-c74f-4290-852c-83209d7162f7",
- "response_id": "chatcmpl-57bb2591efe48290f5db6cb98f04ae7d",
+ "request_id": "6353e3c9-a3c3-432f-8609-83bd76e8f613",
+ "response_id": "chatcmpl-2d46cd1c866ebc0f72e0a621055b75bf",
"images_count": 8,
"graphs_count": 0,
- "response": "Bridging registrations between brain templates in VFB refer to transformations to map between different canonical Drosophila templates. The documentation describes these as \"Many transforms to map between different Drosophila template brains are available\".",
+ "response": "Bridging registrations are transformations that map one template onto another, allowing data registered to different templates to be compared in a common space.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4574,7 +4304,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 257,
+ "response_chars": 160,
"status_count": 7
}
},
@@ -4588,7 +4318,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 12334,
+ "duration_ms": 21062,
"status_messages": [
{
"message": "Thinking...",
@@ -4598,6 +4328,10 @@
"message": "Planning the answer",
"phase": "llm"
},
+ {
+ "phase": "plan",
+ "message": "The plan is contested — sampling again before committing."
+ },
{
"message": "Reading VFB term info",
"phase": "mcp"
@@ -4615,13 +4349,13 @@
"phase": "llm"
}
],
- "event_count": 90,
+ "event_count": 95,
"ok": true,
- "request_id": "ee87f603-184e-4741-8d69-943f1cfd5a25",
- "response_id": "chatcmpl-7947cbf0df0c134305bbf00c3a8fedbf",
+ "request_id": "9d68dc48-4c61-489e-85fe-c1c97c18f67a",
+ "response_id": "chatcmpl-e17c4413142c3533eb7ad9200a0d12aa",
"images_count": 0,
"graphs_count": 0,
- "response": "Virtual Fly Brain holds light microscopy data, including confocal image stacks from over a hundred studies, registered onto standard templates such as JRC2018Unisex, JRC2018UnisexVNC, JFRC2, and Court2018 VNS. The data types include driver expression patterns, split-GAL4 combinations, expression pattern fragments, single neurons, clones or lineages, and painted domains.",
+ "response": "Virtual Fly Brain holds light microscopy data, including confocal image stacks from over a hundred studies, registered onto standard templates. The data types include driver expression patterns, split-GAL4 combinations, expression pattern fragments, single neurons, clones or lineages, and painted domains. The brain templates used are JRC2018Unisex, JRC2018UnisexVNC, JFRC2, and Court2018 VNS.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4632,8 +4366,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 372,
- "status_count": 6
+ "response_chars": 394,
+ "status_count": 7
}
},
{
@@ -4646,7 +4380,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 69179,
+ "duration_ms": 70738,
"status_messages": [
{
"message": "Thinking...",
@@ -4656,6 +4390,10 @@
"message": "Planning the answer",
"phase": "llm"
},
+ {
+ "phase": "plan",
+ "message": "The plan is contested — sampling again before committing."
+ },
{
"message": "Reading VFB term info",
"phase": "mcp"
@@ -4673,13 +4411,13 @@
"phase": "llm"
}
],
- "event_count": 69,
+ "event_count": 70,
"ok": true,
- "request_id": "fa05621d-4ec8-40b2-876c-ab25b3548fea",
- "response_id": "chatcmpl-f83cc91368721f08f33529e64fd7dfbb",
+ "request_id": "0eb345c2-448c-46cb-b6ae-d8d2cfc31d2d",
+ "response_id": "chatcmpl-2dc7906893d07fadb8174d729b9de723",
"images_count": 0,
"graphs_count": 0,
- "response": "The latest Virtual Fly Brain release included several datasets, such as FlyWire, Male CNS v0.9, BANC v626, Optic lobe v1.0.1, MANC v1.2.1, Hemibrain v1.2.1, and L1 CNS.",
+ "response": "The latest Virtual Fly Brain release included several datasets, such as FlyWire, Male CNS v0.9, BANC v626, Optic lobe v1.0.1, Hemibrain v1.2.1, and L1 CNS, each with its own neuron count and scope.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4690,8 +4428,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 168,
- "status_count": 6
+ "response_chars": 197,
+ "status_count": 7
}
},
{
@@ -4704,7 +4442,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 9942,
+ "duration_ms": 9557,
"status_messages": [
{
"message": "Thinking...",
@@ -4731,13 +4469,13 @@
"phase": "llm"
}
],
- "event_count": 53,
+ "event_count": 31,
"ok": true,
- "request_id": "cbafa626-fde4-4515-8ead-fb038db9869d",
- "response_id": "chatcmpl-dc9aa8a5b56473b45b361d3ff659f96a",
+ "request_id": "56921010-3c63-4b22-986f-5479a5e0b0e7",
+ "response_id": "chatcmpl-80bcfabdd149742fd28fd2690b384db3",
"images_count": 0,
"graphs_count": 0,
- "response": "To install and get started with VFB-connect in Python, you can use\n```\npip install vfb-connect\n```\nFor more information, you can refer to the VFB_connect Quickstart Guide at https://vfb-connect.readthedocs.io/en/stable.",
+ "response": "To install and get started with VFB-connect in Python, you can install it via PyPi using the command\n```\npip install vfb-connect\n```",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4748,7 +4486,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 219,
+ "response_chars": 132,
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}
},
@@ -4762,7 +4500,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 12307,
+ "duration_ms": 12368,
"status_messages": [
{
"message": "Thinking...",
@@ -4789,13 +4527,13 @@
"phase": "llm"
}
],
- "event_count": 92,
+ "event_count": 120,
"ok": true,
- "request_id": "224e4a1c-f73b-4667-8764-2796b4004cb5",
- "response_id": "chatcmpl-45ee9461a21697aded98ddb3e126af4e",
+ "request_id": "f8f2e20f-5f68-44b9-a2b7-57c925b9d459",
+ "response_id": "chatcmpl-d69c9a01115f63700be97567aa20fdc6",
"images_count": 0,
"graphs_count": 0,
- "response": "To query Virtual Fly Brain programmatically, you can use the Owlery API or the SOLR API. The Owlery API provides OWL reasoning services, including Description Logic (DL) queries and SPARQL queries with OWL reasoning. The SOLR API is used for searching and querying data. The Owlery API enables advanced query capabilities over the ontologies used in Virtual Fly Brain, including access to multiple knowledgebases.",
+ "response": "To query Virtual Fly Brain programmatically, you can use the Owlery API or the SOLR API. The Owlery API provides OWL reasoning services, including Description Logic (DL) queries and SPARQL queries with OWL reasoning. The base URL for the Owlery API is https://owl.virtualflybrain.org/. You can use the API to perform various queries, such as getting subclasses, superclasses, equivalent classes, and instances of a class. You can also use the SPARQL query endpoint to perform SPARQL queries with OWL reasoning.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4806,7 +4544,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 413,
+ "response_chars": 510,
"status_count": 6
}
},
@@ -4820,7 +4558,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 14172,
+ "duration_ms": 13145,
"status_messages": [
{
"message": "Thinking...",
@@ -4851,13 +4589,13 @@
"phase": "llm"
}
],
- "event_count": 102,
+ "event_count": 99,
"ok": true,
- "request_id": "7062975e-f19d-4a2c-9d60-94c9254319eb",
- "response_id": "chatcmpl-b76ccd3fa5e6f182f60a149894f45d31",
+ "request_id": "4edcdf99-7c31-43ff-b368-1ba8ddb123cd",
+ "response_id": "chatcmpl-b84e508de6606ff2cf7e091c3a6f9144",
"images_count": 0,
"graphs_count": 0,
- "response": "To explore Virtual Fly Brain neurons, you can use the navis Python package, which provides functions for analyzing, manipulating, and visualizing neurons. You can load example neurons using `navis.example_neurons()` and access their properties, such as `id`, `nodes`, `cable_length`, and `soma`. You can also create a `NeuronList` to work with multiple neurons at a time. VFB's documentation does not appear to cover pymaid.",
+ "response": "To explore Virtual Fly Brain neurons, you can use the navis Python package, which provides functions for analyzing, manipulating, and visualizing neurons. You can load example neurons using `navis.example_neurons()` and access their properties, such as `id`, `nodes`, and `cable_length`. You can also create a `NeuronList` to work with multiple neurons at a time.\nVFB's documentation does not appear to cover pymaid.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4868,7 +4606,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 424,
+ "response_chars": 416,
"status_count": 7
}
},
@@ -4882,7 +4620,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 8149,
+ "duration_ms": 12470,
"status_messages": [
{
"message": "Thinking...",
@@ -4897,7 +4635,7 @@
"phase": "mcp"
},
{
- "message": "Checking the literature",
+ "message": "Checking VFB documentation",
"phase": "mcp"
},
{
@@ -4909,13 +4647,13 @@
"phase": "llm"
}
],
- "event_count": 50,
+ "event_count": 138,
"ok": true,
- "request_id": "f600de78-7475-4655-a4c4-0ab4953a2652",
- "response_id": "chatcmpl-7432f523f6774d1a3411d80a85426e9b",
+ "request_id": "f4aa9b75-68c7-4870-b352-33b77c955519",
+ "response_id": "chatcmpl-7c91bbe4333594c599a539358592b45a",
"images_count": 0,
"graphs_count": 0,
- "response": "To use the Virtual Fly Brain Model Context Protocol (MCP) tool, access it at vfb3-mcp.virtualflybrain.org and use natural language to query VFB data through Large Language Models like Claude.",
+ "response": "To use the Virtual Fly Brain Model Context Protocol (MCP) tool, access it at https://vfb3-mcp.virtualflybrain.org. Configure your client to connect to this URL using the HTTP transport. For example, in Claude Desktop, add it as a custom connector with the name 'virtual-fly-brain' and the URL. In VS Code and GitHub Copilot, run 'MCP: Add Server' from the Command Palette and choose the HTTP option. Test the connection by asking questions like 'Get information about the neuron ' or 'Search for terms related to medulla in the fly brain'.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4926,7 +4664,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 191,
+ "response_chars": 539,
"status_count": 6
}
},
@@ -4940,7 +4678,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 7249,
+ "duration_ms": 4373,
"status_messages": [
{
"message": "Thinking...",
@@ -4950,10 +4688,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "message": "Resolving 1 term in VFB",
- "phase": "mcp"
- },
{
"message": "Reading VFB term info",
"phase": "mcp"
@@ -4971,13 +4705,13 @@
"phase": "llm"
}
],
- "event_count": 40,
+ "event_count": 29,
"ok": true,
- "request_id": "bf3d9b16-10ef-4910-9369-3847e0c07d4c",
- "response_id": "chatcmpl-17c29c42420b845d51768a41c17fadc6",
+ "request_id": "04ee9179-d23b-4921-8543-be7034d3f1ad",
+ "response_id": "chatcmpl-cdea4b2baa8a536da986159a9e37fa20",
"images_count": 0,
"graphs_count": 0,
- "response": "VFB's documentation does not appear to cover when predicted neurotransmitters for EM data became available on VFB. Searching virtualflybrain.org may provide more information.",
+ "response": "VFB's documentation does not appear to cover when predicted neurotransmitters for EM data became available on VFB.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -4988,8 +4722,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 174,
- "status_count": 7
+ "response_chars": 114,
+ "status_count": 6
}
},
{
@@ -5002,7 +4736,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 9882,
+ "duration_ms": 9588,
"status_messages": [
{
"message": "Thinking...",
@@ -5012,10 +4746,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "phase": "plan",
- "message": "The plan is contested — sampling again before committing."
- },
{
"message": "Resolving 1 term in VFB",
"phase": "mcp"
@@ -5025,7 +4755,7 @@
"phase": "mcp"
},
{
- "message": "Checking the literature",
+ "message": "Checking VFB documentation",
"phase": "mcp"
},
{
@@ -5037,10 +4767,10 @@
"phase": "llm"
}
],
- "event_count": 41,
+ "event_count": 40,
"ok": true,
- "request_id": "a41cf647-afa8-4150-af9a-f270f604064a",
- "response_id": "chatcmpl-047c2466dd5bc2772e79571bba32bb60",
+ "request_id": "a044d37e-cda0-4c50-880d-285967bb4d2e",
+ "response_id": "chatcmpl-15a6feb718c9afd684de042e3f9b491b",
"images_count": 0,
"graphs_count": 0,
"response": "The NeuroFly 2026 conference will be held at the University of Cologne, Germany, from September 7th to 11th, 2026.",
@@ -5055,7 +4785,7 @@
"missing_required_graph": false,
"used_data_resource": false,
"response_chars": 114,
- "status_count": 8
+ "status_count": 7
}
},
{
@@ -5068,7 +4798,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 10454,
+ "duration_ms": 10086,
"status_messages": [
{
"message": "Thinking...",
@@ -5099,13 +4829,13 @@
"phase": "llm"
}
],
- "event_count": 76,
+ "event_count": 62,
"ok": true,
- "request_id": "ebc04f78-12c5-4721-b89f-b21ebbf07c60",
- "response_id": "chatcmpl-656a9dbad8c8d380c5b7ed2c4bb6ff65",
+ "request_id": "b81ec6df-67f3-4dec-b3b7-4080342498a3",
+ "response_id": "chatcmpl-ecc5425bfb520faa594d099c9b03f291",
"images_count": 0,
"graphs_count": 0,
- "response": "Materials from the Virtual Fly Brain \"Hacking the connectome\" workshop include tutorials, workshop notebooks, recorded introduction sessions, and tools such as NBLAST, VFBconnect API, and Navis. The workshop covered topics including introduction to connectomic data and tools, tool landscape, discovery, mapping, visualisation, and connectomics.",
+ "response": "Materials from the Virtual Fly Brain 'Hacking the connectome' workshop are available. The materials include tutorials on introduction to connectomic data and tools, tool landscape, discovery, mapping, visualisation, and connectomics, as well as recorded introduction sessions and workshop notebooks.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -5116,7 +4846,7 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 345,
+ "response_chars": 299,
"status_count": 7
}
},
@@ -5130,7 +4860,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 21547,
+ "duration_ms": 12719,
"status_messages": [
{
"message": "Thinking...",
@@ -5140,10 +4870,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "phase": "plan",
- "message": "The plan is contested — sampling again before committing."
- },
{
"message": "Resolving 3 terms in VFB",
"phase": "mcp"
@@ -5169,13 +4895,13 @@
"phase": "llm"
}
],
- "event_count": 98,
+ "event_count": 85,
"ok": true,
- "request_id": "583f170e-2c8c-405c-b674-1fb85ae09f46",
- "response_id": "chatcmpl-df8569fd8f7841352396a6263e9fc566",
+ "request_id": "1933fdc3-c587-42b4-a4eb-73e0d36f2c4e",
+ "response_id": "chatcmpl-f5a5164a10ce02c6425184e918fbc2bb",
"images_count": 8,
"graphs_count": 0,
- "response": "The FAFB CATMAID dataset can be accessed via https://fafb.catmaid.virtualflybrain.org. Virtual Fly Brain hosts several CATMAID instances for exploring connectomic reconstruction data, including FAFB and FANC datasets. The name \"FANC\" could not be matched, with closest records found including Fancl, FANCI, and Fancm. The name \"CATMAID\" could not be matched.",
+ "response": "The FAFB CATMAID dataset can be accessed via https://fafb.catmaid.virtualflybrain.org. Virtual Fly Brain hosts several CATMAID instances for exploring connectomic reconstruction data, including FAFB and FANC datasets. The name \"FANC\" could not be matched, but closest records found include Fancl, FANCI, and Fancm.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -5186,8 +4912,8 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 358,
- "status_count": 9
+ "response_chars": 314,
+ "status_count": 8
}
},
{
@@ -5200,7 +4926,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 6997,
+ "duration_ms": 6554,
"status_messages": [
{
"message": "Thinking...",
@@ -5233,8 +4959,8 @@
],
"event_count": 22,
"ok": true,
- "request_id": "922a49de-330b-4da4-84f3-204b69fac1b0",
- "response_id": "chatcmpl-bcf6faa863d3d3a92dcff602ceb289f1",
+ "request_id": "e5a21bd9-155e-442c-b3b1-8c6c8e3a6cce",
+ "response_id": "chatcmpl-111f5fca3cdae8362ee9402f38ecb1e1",
"images_count": 8,
"graphs_count": 0,
"response": "A circuit diagram of the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is available on Virtual Fly Brain.",
@@ -5262,7 +4988,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 14563,
+ "duration_ms": 12801,
"status_messages": [
{
"message": "Thinking...",
@@ -5293,7 +5019,7 @@
"phase": "llm"
}
],
- "event_count": 84,
+ "event_count": 86,
"conversation": true,
"turns": [
{
@@ -5301,9 +5027,9 @@
"question": "What is the medulla?",
"focus": null,
"clicked": null,
- "duration_ms": 7517,
+ "duration_ms": 6560,
"ok": true,
- "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is the second optic neuropil, sandwiched between the lamina and the lobula complex. It is divided into 10 layers: layers 1-6 make up the outer medulla, the seventh layer exhibits a distinct architecture, and layers 8-10 make up the inner medulla.",
+ "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is the second optic neuropil, sandwiched between the lamina and the lobula complex. It is divided into 10 layers: 1-6 make up the outer medulla, the seventh layer exhibits a distinct architecture and layers 8-10 make up the inner medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -5360,9 +5086,9 @@
"question": "Which neurons receive output from it?",
"focus": null,
"clicked": null,
- "duration_ms": 7046,
+ "duration_ms": 6241,
"ok": true,
- "response": "Neurons that receive output from the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19. VFB records show [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neurons postsynaptic to the medulla.",
+ "response": "Neurons that receive output from the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19. VFB records show [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neurons with postsynaptic terminals in the medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -5427,11 +5153,11 @@
}
],
"ok": true,
- "request_id": "ff7dbd5a-37ef-45d1-97e1-a9d8a27c6e0f",
- "response_id": "chatcmpl-e447cb5e849a4c214e9bcc90a7cc1a19",
+ "request_id": "0153ac09-2089-4319-9351-799290392f1b",
+ "response_id": "chatcmpl-c878df8433094136794f4fb70d4e8206",
"images_count": 8,
"graphs_count": 0,
- "response": "Neurons that receive output from the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19. VFB records show [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neurons postsynaptic to the medulla.",
+ "response": "Neurons that receive output from the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19. VFB records show [333](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in medulla\") neurons with postsynaptic terminals in the medulla.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -5442,14 +5168,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 923,
+ "response_chars": 938,
"status_count": 7,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 7046
+ "slowest_followup_ms": 6241
}
},
{
@@ -5462,7 +5188,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 21820,
+ "duration_ms": 17953,
"status_messages": [
{
"message": "Thinking...",
@@ -5497,7 +5223,7 @@
"phase": "llm"
}
],
- "event_count": 197,
+ "event_count": 201,
"conversation": true,
"turns": [
{
@@ -5505,9 +5231,9 @@
"question": "What is the mushroom body?",
"focus": null,
"clicked": null,
- "duration_ms": 11187,
+ "duration_ms": 9106,
"ok": true,
- "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is a bilaterally paired neuropil structure situated postero-dorsally in the protocerebrum that functions in olfactory associative learning and memory. It is divided into the calyx, which receives sensory interneuron afferents, the pedunculus, a thick axon bundle extending from the calyx to the base of the lobes, and the mushroom body lobe system, which consists of a vertical branch and a medial branch. These branches have different structures at different life stages.",
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is a bilaterally paired neuropil structure situated postero-dorsally in the protocerebrum that functions in olfactory associative learning and memory. It is divided into the calyx, which receives sensory interneuron afferents, the pedunculus, a thick axon bundle, and the mushroom body lobe system, which consists of a vertical branch and a medial branch, with different structures at different life stages.",
"followons": [
{
"id": "FBbt_00005801",
@@ -5567,9 +5293,9 @@
"query_type": "ImagesNeurons"
},
"clicked": 0,
- "duration_ms": 10633,
+ "duration_ms": 8847,
"ok": true,
- "response": "Images of neurons with some part in [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are available, with [27,619](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,ImagesNeurons \"Run in VFB: Images of neurons with some part in mushroom body\") images of neurons. The first 12 images, with their VFB ids, are: VT020731 FLP 14-3; GMR 24E06 FLP 6-1; GMR 75F01 FLP 9-2; GMR 21G01 FLP 9-1; GMR 24E06 FLP 6-2; GMR 127E09 FLP 9-5; GMR 67E07 FLP 30-1; GMR 29D11 FLP 45-3; GMR 74C11 FLP 9-1; GMR 40D06 FLP 2-1; GMR 12G07 FLP 7-2; GMR 93G04 FLP 12-1.",
+ "response": "There are images of neurons with parts in the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"). VFB holds [27,619](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,ImagesNeurons \"Run in VFB: Images of neurons with some part in mushroom body\") images of neurons with some part in the mushroom body. The first 12 images are of neurons VT020731 FLP 14-3, GMR 24E06 FLP 6-1, GMR 75F01 FLP 9-2, GMR 21G01 FLP 9-1, GMR 24E06 FLP 6-2, GMR 127E09 FLP 9-5, GMR 67E07 FLP 30-1, GMR 29D11 FLP 45-3, GMR 74C11 FLP 9-1, GMR 40D06 FLP 2-1, GMR 12G07 FLP 7-2, and GMR 93G04 FLP 12-1.",
"followons": [
{
"id": "FBbt_00005801",
@@ -5634,11 +5360,11 @@
}
],
"ok": true,
- "request_id": "f6dd38f1-a427-4c24-b12d-337db8088249",
- "response_id": "chatcmpl-dc4f66ba54106ebf6d141410916da66c",
+ "request_id": "0c6a2515-edf0-406e-80fe-385b9b45b7ed",
+ "response_id": "chatcmpl-eaebcd32e355a9408c2c34b7f97ed40f",
"images_count": 8,
"graphs_count": 0,
- "response": "Images of neurons with some part in [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are available, with [27,619](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,ImagesNeurons \"Run in VFB: Images of neurons with some part in mushroom body\") images of neurons. The first 12 images, with their VFB ids, are: VT020731 FLP 14-3; GMR 24E06 FLP 6-1; GMR 75F01 FLP 9-2; GMR 21G01 FLP 9-1; GMR 24E06 FLP 6-2; GMR 127E09 FLP 9-5; GMR 67E07 FLP 30-1; GMR 29D11 FLP 45-3; GMR 74C11 FLP 9-1; GMR 40D06 FLP 2-1; GMR 12G07 FLP 7-2; GMR 93G04 FLP 12-1.",
+ "response": "There are images of neurons with parts in the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"). VFB holds [27,619](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,ImagesNeurons \"Run in VFB: Images of neurons with some part in mushroom body\") images of neurons with some part in the mushroom body. The first 12 images are of neurons VT020731 FLP 14-3, GMR 24E06 FLP 6-1, GMR 75F01 FLP 9-2, GMR 21G01 FLP 9-1, GMR 24E06 FLP 6-2, GMR 127E09 FLP 9-5, GMR 67E07 FLP 30-1, GMR 29D11 FLP 45-3, GMR 74C11 FLP 9-1, GMR 40D06 FLP 2-1, GMR 12G07 FLP 7-2, and GMR 93G04 FLP 12-1.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -5649,14 +5375,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 631,
+ "response_chars": 661,
"status_count": 8,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 10633
+ "slowest_followup_ms": 8847
}
},
{
@@ -5669,7 +5395,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 209334,
+ "duration_ms": 34500,
"status_messages": [
{
"message": "Thinking...",
@@ -5704,7 +5430,7 @@
"phase": "llm"
}
],
- "event_count": 246,
+ "event_count": 243,
"conversation": true,
"turns": [
{
@@ -5712,7 +5438,7 @@
"question": "What is the fan-shaped body?",
"focus": null,
"clicked": null,
- "duration_ms": 7087,
+ "duration_ms": 6500,
"ok": true,
"response": "The [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") is the largest synaptic neuropil domain of the adult central complex, located posterior to the ellipsoid body and anterior to the protocerebral bridge. It is composed of a rough 2-dimensional grid of layers and columns. Eight horizontal layers, numbered bottom to top, form a fan shape and can be divided into vertical columns. An additional, much narrower, 9th layer, which lacks a columnar organization, sits dorsal to layer 8. The number of columns varies for different neuronal types.",
"followons": [
@@ -5771,9 +5497,9 @@
"question": "What about the ellipsoid body?",
"focus": null,
"clicked": null,
- "duration_ms": 9890,
+ "duration_ms": 15550,
"ok": true,
- "response": "The [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") is a doughnut shaped synaptic neuropil domain of the central complex of the adult brain that lies just anterior to the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\").",
+ "response": "The [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") is a doughnut-shaped synaptic neuropil domain of the central complex of the adult brain that lies just anterior to the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\").",
"followons": [
{
"id": "FBbt_00003678",
@@ -5838,9 +5564,9 @@
"question": "Which neurons have synaptic terminals in the fan-shaped body?",
"focus": null,
"clicked": null,
- "duration_ms": 192357,
+ "duration_ms": 12450,
"ok": true,
- "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), and [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results from VFB's \"NeuronsSynaptic\" query are PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), and [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\"). Additionally, VFB's \"Neurons with presynaptic terminals in fan-shaped body\" query returns [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") results, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), and adult ExR1 neuron of DM4 lineage.",
+ "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results of the \"Neurons with synaptic terminals in fan-shaped body\" query are: PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\").\n\nAdditionally, VFB records [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neurons with presynaptic terminals in the fan-shaped body, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), adult ExR1 neuron of DM4 lineage.",
"followons": [
{
"id": "FBbt_00003679",
@@ -5913,11 +5639,11 @@
}
],
"ok": true,
- "request_id": "acfdb77e-7df2-40fb-bd9b-5e7fe4088524",
- "response_id": "chatcmpl-e6ecce1a8fdb9f0198ac616b0e159357",
+ "request_id": "78d589ce-1d11-4011-a541-64f4ab72fede",
+ "response_id": "chatcmpl-53e6e95344b7671ee0300cfdaab1dc58",
"images_count": 8,
"graphs_count": 0,
- "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), and [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results from VFB's \"NeuronsSynaptic\" query are PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), and [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\"). Additionally, VFB's \"Neurons with presynaptic terminals in fan-shaped body\" query returns [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") results, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), and adult ExR1 neuron of DM4 lineage.",
+ "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results of the \"Neurons with synaptic terminals in fan-shaped body\" query are: PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\").\n\nAdditionally, VFB records [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neurons with presynaptic terminals in the fan-shaped body, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), adult ExR1 neuron of DM4 lineage.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -5928,14 +5654,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 2149,
+ "response_chars": 2156,
"status_count": 8,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
- "slow_followup_turn": true,
- "slowest_followup_ms": 192357
+ "slow_followup_turn": false,
+ "slowest_followup_ms": 15550
}
},
{
@@ -5948,7 +5674,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 15384,
+ "duration_ms": 13695,
"status_messages": [
{
"message": "Thinking...",
@@ -5975,7 +5701,7 @@
"phase": "llm"
}
],
- "event_count": 146,
+ "event_count": 140,
"conversation": true,
"turns": [
{
@@ -5983,9 +5709,9 @@
"question": "What is a Kenyon cell?",
"focus": null,
"clicked": null,
- "duration_ms": 6440,
+ "duration_ms": 5439,
"ok": true,
- "response": "A [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") is an intrinsic neuron of the mushroom body. Kenyon cells are part of the olfactory pathway in Drosophila.",
+ "response": "A [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") is an intrinsic neuron of the mushroom body.",
"followons": [
{
"id": "FBbt_00003686",
@@ -6042,9 +5768,9 @@
"question": "What are its subtypes?",
"focus": null,
"clicked": null,
- "duration_ms": 8944,
+ "duration_ms": 8256,
"ok": true,
- "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") are [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, including [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 subclasses, along with their VFB ids, are: KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
+ "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") include [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, such as [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 of these subclasses are KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
"followons": [
{
"id": "FBbt_00003686",
@@ -6099,11 +5825,11 @@
}
],
"ok": true,
- "request_id": "5b6cfa15-9681-4240-87a8-003ca716068f",
- "response_id": "chatcmpl-a348b7fc9e7227dc571ab43d4fc291cc",
+ "request_id": "93b91a52-3fe9-4522-988e-0fafe37cd95c",
+ "response_id": "chatcmpl-66623745f4b766d748abba53150c3967",
"images_count": 8,
"graphs_count": 0,
- "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") are [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, including [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 subclasses, along with their VFB ids, are: KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
+ "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") include [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, such as [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 of these subclasses are KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -6114,14 +5840,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1163,
+ "response_chars": 1146,
"status_count": 6,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 8944
+ "slowest_followup_ms": 8256
}
},
{
@@ -6134,7 +5860,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 34098,
+ "duration_ms": 210141,
"status_messages": [
{
"message": "Thinking...",
@@ -6160,6 +5886,10 @@
"message": "Querying VFB",
"phase": "mcp"
},
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
{
"message": "Checking the answer is covered",
"phase": "llm"
@@ -6185,7 +5915,7 @@
"phase": "llm"
}
],
- "event_count": 199,
+ "event_count": 330,
"conversation": true,
"turns": [
{
@@ -6193,9 +5923,9 @@
"question": "What are the anatomical parts of the medulla? List them.",
"focus": null,
"clicked": null,
- "duration_ms": 11085,
+ "duration_ms": 8464,
"ok": true,
- "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is divided into 10 layers: 1-6 make up the outer (distal) medulla, the seventh (or serpentine) layer exhibits a distinct architecture and layers 8-10 make up the inner (proximal) medulla. Some of the anatomical parts of the medulla include: adult chandelier glial cell, adult distal medulla astrocyte-like glial cell, [distal medulla glial cell](https://www.virtualflybrain.org/reports/FBbt_00100528 \"Open distal medulla glial cell in Virtual Fly Brain\"), medulla layer, adult distal medulla ensheathing glial cell, [plexiform medulla](https://www.virtualflybrain.org/reports/FBbt_00045001 \"Open plexiform medulla in Virtual Fly Brain\"), [medulla dorsal rim area](https://www.virtualflybrain.org/reports/FBbt_00045002 \"Open medulla dorsal rim area in Virtual Fly Brain\"), medulla layer M1, medulla layer M5, inner medulla, medulla layer M8, and medulla layer M9.",
+ "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is divided into 10 layers: 1-6 make up the outer (distal) medulla, the seventh (or serpentine) layer exhibits a distinct architecture and layers 8-10 make up the inner (proximal) medulla. Some anatomical parts of the medulla include adult chandelier glial cell, adult distal medulla astrocyte-like glial cell, [distal medulla glial cell](https://www.virtualflybrain.org/reports/FBbt_00100528 \"Open distal medulla glial cell in Virtual Fly Brain\"), medulla layer, adult distal medulla ensheathing glial cell, [plexiform medulla](https://www.virtualflybrain.org/reports/FBbt_00045001 \"Open plexiform medulla in Virtual Fly Brain\"), [medulla dorsal rim area](https://www.virtualflybrain.org/reports/FBbt_00045002 \"Open medulla dorsal rim area in Virtual Fly Brain\"), medulla layer M1, medulla layer M5, inner medulla, medulla layer M8, and medulla layer M9.",
"followons": [
{
"id": "FBbt_00003748",
@@ -6258,9 +5988,9 @@
"question": "And which neurons have part of their arbour there?",
"focus": null,
"clicked": null,
- "duration_ms": 23013,
+ "duration_ms": 201677,
"ok": true,
- "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals from neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, and MeSps. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals of neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, MeSps, and Y3-like. Additionally, neurons such as Dm8b, PS128, Mi10b, CB3849, TmY-ds, [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18 have presynaptic terminals in the medulla, while neurons like CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19 have postsynaptic terminals in the medulla. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -6335,16 +6065,16 @@
],
"unmapped": []
},
- "status_count": 12,
+ "status_count": 13,
"problems": []
}
],
"ok": true,
- "request_id": "0b6280e3-e6c3-474d-9eeb-1d29bc63bcc5",
- "response_id": "chatcmpl-0f2e89262d110b04aa77ef17f723fea4",
+ "request_id": "3b0955e7-8b5d-42dc-bf1a-0406c8656410",
+ "response_id": "chatcmpl-565a41fc4b9e3b6139eaae3589b67aa1",
"images_count": 8,
"graphs_count": 0,
- "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals from neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, and MeSps. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals of neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, MeSps, and Y3-like. Additionally, neurons such as Dm8b, PS128, Mi10b, CB3849, TmY-ds, [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18 have presynaptic terminals in the medulla, while neurons like CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19 have postsynaptic terminals in the medulla. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -6355,14 +6085,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1543,
- "status_count": 12,
+ "response_chars": 2133,
+ "status_count": 13,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
- "slow_followup_turn": false,
- "slowest_followup_ms": 23013
+ "slow_followup_turn": true,
+ "slowest_followup_ms": 201677
}
},
{
@@ -6375,7 +6105,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 22019,
+ "duration_ms": 17819,
"status_messages": [
{
"message": "Thinking...",
@@ -6397,20 +6127,12 @@
"message": "Checking the answer is covered",
"phase": "llm"
},
- {
- "message": "Querying VFB",
- "phase": "mcp"
- },
- {
- "message": "Checking the answer is covered",
- "phase": "llm"
- },
{
"message": "Writing the answer",
"phase": "llm"
}
],
- "event_count": 142,
+ "event_count": 163,
"conversation": true,
"turns": [
{
@@ -6418,9 +6140,9 @@
"question": "Tell me about the antennal lobe.",
"focus": null,
"clicked": null,
- "duration_ms": 14171,
+ "duration_ms": 12137,
"ok": true,
- "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is a synaptic neuropil domain of the deutocerebrum and is the main target for innervation from the antennal nerve. VFB holds various records related to the antennal lobe, including transgene expression in antennal lobe commissural pioneer interneuron, downstream connectivity classes for antennal lobe commissural pioneer interneuron, and upstream connectivity classes for antennal lobe commissural pioneer interneuron. The antennal lobe is a region in the Drosophila nervous system where users can search for synaptic input.",
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is a synaptic neuropil domain of the deutocerebrum that is the main target for innervation from the antennal nerve. It is a region in the Drosophila nervous system. VFB holds various data related to the antennal lobe, including transgene expression in antennal lobe commissural pioneer interneuron, downstream connectivity classes for antennal lobe commissural pioneer interneuron, and upstream connectivity classes for antennal lobe commissural pioneer interneuron. Users can search for synaptic input in the antennal lobe via the Virtual Fly Brain web application.",
"followons": [
{
"id": "FBbt_00003924",
@@ -6477,9 +6199,9 @@
"question": "Which neurons innervate it?",
"focus": null,
"clicked": null,
- "duration_ms": 7848,
+ "duration_ms": 5682,
"ok": true,
- "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by various neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), and adult olfactory receptor neurons such as [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\") and adult olfactory receptor neuron Or35a ac3I. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe, and [673](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in antennal lobe\") neurons with synaptic terminals in the antennal lobe. These include adult antennal lobe projection neurons like [adult antennal lobe projection neuron DL5](https://www.virtualflybrain.org/reports/FBbt_00059280 \"Open adult antennal lobe projection neuron DL5 in Virtual Fly Brain\") and adult antennal lobe projection neuron VA1d.",
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by several types of neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), [PLP077](https://www.virtualflybrain.org/reports/FBbt_20001577 \"Open PLP077 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac2](https://www.virtualflybrain.org/reports/FBbt_00110014 \"Open adult olfactory receptor neuron Ir75d ac2 in Virtual Fly Brain\"), adult olfactory receptor neuron Ir75d ac4, pharyngeal VL1 neuron, ORN_VM6, adult olfactory receptor neuron Or35a ac3I, adult olfactory receptor neuron Or35a ac3II, adult olfactory receptor neuron Or85b ab3, and adult olfactory receptor neuron Or85b ab11. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe.",
"followons": [
{
"id": "FBbt_00003924",
@@ -6491,6 +6213,11 @@
"query_type": "NeuronsPartHere",
"query": "Which neurons have part of their arbour in the antennal lobe?"
},
+ {
+ "id": "FBbt_00003924",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the antennal lobe?"
+ },
{
"id": "FBbt_00003924",
"query_type": "NeuronsPostsynapticHere",
@@ -6505,11 +6232,6 @@
"id": "FBbt_00003924",
"query_type": "SubclassesOf",
"query": "What are the subtypes of the antennal lobe?"
- },
- {
- "id": "FBbt_00003924",
- "query_type": "TractsNervesInnervatingHere",
- "query": "Which tracts and nerves innervate the antennal lobe?"
}
],
"context_terms": [
@@ -6530,25 +6252,20 @@
"id": "FBbt_00003924",
"query_type": "NeuronsPresynapticHere",
"fn": "get_neurons_with_presynaptic_terminals_in"
- },
- {
- "id": "FBbt_00003924",
- "query_type": "NeuronsSynaptic",
- "fn": "get_neurons_with_synapses_in"
}
],
"unmapped": []
},
- "status_count": 8,
+ "status_count": 6,
"problems": []
}
],
"ok": true,
- "request_id": "0c1192fe-54a3-405c-9095-4f508c2df652",
- "response_id": "chatcmpl-db0c9761a447648567bb7abd087436c8",
+ "request_id": "d2effe59-d3e3-4d85-b306-6a8ab159aa1a",
+ "response_id": "chatcmpl-38aff6c3d41273d3a7d5927a81e075de",
"images_count": 6,
"graphs_count": 0,
- "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by various neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), and adult olfactory receptor neurons such as [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\") and adult olfactory receptor neuron Or35a ac3I. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe, and [673](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in antennal lobe\") neurons with synaptic terminals in the antennal lobe. These include adult antennal lobe projection neurons like [adult antennal lobe projection neuron DL5](https://www.virtualflybrain.org/reports/FBbt_00059280 \"Open adult antennal lobe projection neuron DL5 in Virtual Fly Brain\") and adult antennal lobe projection neuron VA1d.",
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by several types of neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), [PLP077](https://www.virtualflybrain.org/reports/FBbt_20001577 \"Open PLP077 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac2](https://www.virtualflybrain.org/reports/FBbt_00110014 \"Open adult olfactory receptor neuron Ir75d ac2 in Virtual Fly Brain\"), adult olfactory receptor neuron Ir75d ac4, pharyngeal VL1 neuron, ORN_VM6, adult olfactory receptor neuron Or35a ac3I, adult olfactory receptor neuron Or35a ac3II, adult olfactory receptor neuron Or85b ab3, and adult olfactory receptor neuron Or85b ab11. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -6559,14 +6276,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1514,
- "status_count": 8,
+ "response_chars": 1459,
+ "status_count": 6,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 7848
+ "slowest_followup_ms": 5682
}
},
{
@@ -6579,7 +6296,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 22132,
+ "duration_ms": 22814,
"status_messages": [
{
"message": "Thinking...",
@@ -6606,7 +6323,7 @@
"phase": "llm"
}
],
- "event_count": 80,
+ "event_count": 304,
"conversation": true,
"turns": [
{
@@ -6614,7 +6331,7 @@
"question": "What is the medulla?",
"focus": null,
"clicked": null,
- "duration_ms": 7460,
+ "duration_ms": 5711,
"ok": true,
"response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is the second optic neuropil, sandwiched between the lamina and the lobula complex. It is divided into 10 layers: 1-6 make up the outer medulla, the seventh layer exhibits a distinct architecture and layers 8-10 make up the inner medulla.",
"followons": [
@@ -6676,9 +6393,9 @@
"query_type": "ImagesNeurons"
},
"clicked": 0,
- "duration_ms": 8996,
+ "duration_ms": 9022,
"ok": true,
- "response": "There are images of neurons with parts in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"). VFB records show [226,524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla, including images of T4a_R and T4a_L neurons. The first 12 images returned by the query include T4a_R (MaleCNS:113529), T4a_L (MaleCNS:74469), and T4a_L (MaleCNS:107619).",
+ "response": "There are images of neurons with parts in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"). The first 12 neurons with some part in the medulla are: T4a_R (MaleCNS:113529); T4a_L (MaleCNS:74469); T4a_L (MaleCNS:107619); T4a_R (MaleCNS:153494); T4a_L (MaleCNS:90547); T4a_R (MaleCNS:95926); T4a_L (MaleCNS:207048); [T4a_L (MaleCNS:97069)](https://www.virtualflybrain.org/reports/VFB_jrmc10fb \"Open T4a_L (MaleCNS:97069) in Virtual Fly Brain\"); T4a_L (MaleCNS:166703); T4a_R (MaleCNS:113836); [T4a_L (MaleCNS:543841)](https://www.virtualflybrain.org/reports/VFB_jrmc10fd \"Open T4a_L (MaleCNS:543841) in Virtual Fly Brain\"); [T4a_L (MaleCNS:150592)](https://www.virtualflybrain.org/reports/VFB_jrmc10fa \"Open T4a_L (MaleCNS:150592) in Virtual Fly Brain\"). VFB holds [226,524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -6749,9 +6466,9 @@
"query_type": "TransgeneExpressionHere"
},
"clicked": 0,
- "duration_ms": 5676,
+ "duration_ms": 8081,
"ok": true,
- "response": "The connectome data indicates that driver lines such as PBac{544.SVS-1}B4[CPTI100035] and PBac{566.P.SVS-1}IA-2[CPTI100013] label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"). VFB records show [2,342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") transgene expression patterns in the medulla, including these lines.",
+ "response": "The first 12 driver lines that label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") are: [PBac{544.SVS-1}B4[CPTI100035] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143533 \"Open PBac{544.SVS-1}B4[CPTI100035] expression pattern in Virtual Fly Brain\"); [PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143547 \"Open PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern in Virtual Fly Brain\"); [PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143524 \"Open PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144033 \"Open PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144076 \"Open PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern in Virtual Fly Brain\"); PBac{681.P.FSVS-1}CG11138[CPTI001659] expression pattern; PBac{681.P.FSVS-1}CG6983[CPTI001802] expression pattern; PBac{681.P.FSVS-1}CG7920[CPTI002166] expression pattern; PBac{681.P.FSVS-1}CG9336[CPTI001654] expression pattern; PBac{681.P.FSVS-1}Pka-R2[CPTI001580] expression pattern; PBac{681.P.FSVS-1}cpx[CPTI001473] expression pattern; PBac{681.P.FSVS-1}larp[CPTI002498] expression pattern. VFB holds [2342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") records of transgene expression in the medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -6821,11 +6538,11 @@
}
],
"ok": true,
- "request_id": "01a5bdb4-1e47-4560-859e-f8adfaa542aa",
- "response_id": "chatcmpl-130d01e8751a9be5008418e52e658c25",
+ "request_id": "1978ed47-4b9e-49cf-9fb0-dae5856d6dfd",
+ "response_id": "chatcmpl-b6528395e0c720ca388efc34b59a8b6b",
"images_count": 8,
"graphs_count": 0,
- "response": "The connectome data indicates that driver lines such as PBac{544.SVS-1}B4[CPTI100035] and PBac{566.P.SVS-1}IA-2[CPTI100013] label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"). VFB records show [2,342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") transgene expression patterns in the medulla, including these lines.",
+ "response": "The first 12 driver lines that label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") are: [PBac{544.SVS-1}B4[CPTI100035] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143533 \"Open PBac{544.SVS-1}B4[CPTI100035] expression pattern in Virtual Fly Brain\"); [PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143547 \"Open PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern in Virtual Fly Brain\"); [PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143524 \"Open PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144033 \"Open PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144076 \"Open PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern in Virtual Fly Brain\"); PBac{681.P.FSVS-1}CG11138[CPTI001659] expression pattern; PBac{681.P.FSVS-1}CG6983[CPTI001802] expression pattern; PBac{681.P.FSVS-1}CG7920[CPTI002166] expression pattern; PBac{681.P.FSVS-1}CG9336[CPTI001654] expression pattern; PBac{681.P.FSVS-1}Pka-R2[CPTI001580] expression pattern; PBac{681.P.FSVS-1}cpx[CPTI001473] expression pattern; PBac{681.P.FSVS-1}larp[CPTI002498] expression pattern. VFB holds [2342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") records of transgene expression in the medulla.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -6836,14 +6553,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 478,
+ "response_chars": 1738,
"status_count": 6,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 8996
+ "slowest_followup_ms": 9022
}
},
{
@@ -6856,7 +6573,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 14232,
+ "duration_ms": 18912,
"status_messages": [
{
"message": "Thinking...",
@@ -6883,7 +6600,7 @@
"phase": "llm"
}
],
- "event_count": 50,
+ "event_count": 264,
"conversation": true,
"turns": [
{
@@ -6891,9 +6608,9 @@
"question": "What is the mushroom body?",
"focus": null,
"clicked": null,
- "duration_ms": 9289,
+ "duration_ms": 9050,
"ok": true,
- "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is a bilaterally paired neuropil structure situated postero-dorsally in the protocerebrum that functions in olfactory associative learning and memory. It is divided into the calyx, which receives sensory interneuron afferents, the pedunculus, a thick axon bundle extending from the calyx to the base of the lobes, and the mushroom body lobe system, which consists of a vertical branch and a medial branch, and has different structures at different life stages.",
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is a bilaterally paired neuropil structure situated postero-dorsally in the protocerebrum that functions in olfactory associative learning and memory. The mushroom body is divided into the calyx, which is closest to the cortex and receives sensory interneuron afferents; the pedunculus, which is a thick axon bundle extending from the calyx to the base of the lobes; and the mushroom body lobe system, which consists of a vertical branch and a medial branch, which have different structures at different life stages.",
"followons": [
{
"id": "FBbt_00005801",
@@ -6950,9 +6667,9 @@
"question": "Which driver lines label it?",
"focus": null,
"clicked": null,
- "duration_ms": 4943,
+ "duration_ms": 9862,
"ok": true,
- "response": "VFB records show that there are driver lines that label the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"). The connectome data indicates that the TransgeneExpressionHere query returns many results, but specific driver lines are not listed in VFB evidence.",
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is labeled by multiple driver lines, including PBac{544.SVS-1}Bsg[CPTI100062], PBac{566.P.SVS-1}Bsg[CPTI100005], PBac{566.P.SVS-1}IA-2[CPTI100013], PBac{566.P.SVS-1}sgg[CPTI100027], PBac{602.P.SVS-1}Fas2[CPTI000483], PBac{602.P.SVS-1}HDAC4[CPTI000077], PBac{602.P.SVS-1}Pax[CPTI000161], PBac{602.P.SVS-1}Sema1a[CPTI000505], PBac{602.P.SVS-1}Tm1[CPTI000760], PBac{602.P.SVS-1}dlg1[CPTI000207], PBac{602.P.SVS-1}dlp[CPTI000445], and PBac{602.P.SVS-1}hzg[CPTI000737]. Additionally, split-GAL4 lines are available for labeling specific cell types in the adult CNS and third-instar larvae.",
"followons": [
{
"id": "FBbt_00005801",
@@ -7012,11 +6729,11 @@
}
],
"ok": true,
- "request_id": "47e65591-4a9f-462d-b0c0-22533993a334",
- "response_id": "chatcmpl-428905de9c00f3d33f0f19ea0a2f6939",
+ "request_id": "d65102b5-7f5c-474a-8f0a-35cea4bfa3df",
+ "response_id": "chatcmpl-02c7c6e7ce9692d499c73ce7cd739943",
"images_count": 8,
"graphs_count": 0,
- "response": "VFB records show that there are driver lines that label the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\"). The connectome data indicates that the TransgeneExpressionHere query returns many results, but specific driver lines are not listed in VFB evidence.",
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is labeled by multiple driver lines, including PBac{544.SVS-1}Bsg[CPTI100062], PBac{566.P.SVS-1}Bsg[CPTI100005], PBac{566.P.SVS-1}IA-2[CPTI100013], PBac{566.P.SVS-1}sgg[CPTI100027], PBac{602.P.SVS-1}Fas2[CPTI000483], PBac{602.P.SVS-1}HDAC4[CPTI000077], PBac{602.P.SVS-1}Pax[CPTI000161], PBac{602.P.SVS-1}Sema1a[CPTI000505], PBac{602.P.SVS-1}Tm1[CPTI000760], PBac{602.P.SVS-1}dlg1[CPTI000207], PBac{602.P.SVS-1}dlp[CPTI000445], and PBac{602.P.SVS-1}hzg[CPTI000737]. Additionally, split-GAL4 lines are available for labeling specific cell types in the adult CNS and third-instar larvae.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -7027,14 +6744,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 322,
+ "response_chars": 701,
"status_count": 6,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 4943
+ "slowest_followup_ms": 9862
}
},
{
@@ -7047,7 +6764,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 25633,
+ "duration_ms": 26923,
"status_messages": [
{
"message": "Thinking...",
@@ -7102,7 +6819,7 @@
"phase": "llm"
}
],
- "event_count": 126,
+ "event_count": 143,
"conversation": true,
"turns": [
{
@@ -7110,9 +6827,9 @@
"question": "Which neurons provide input to the medulla?",
"focus": null,
"clicked": null,
- "duration_ms": 6708,
+ "duration_ms": 5699,
"ok": true,
- "response": "The neurons that provide input to the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18. VFB records show that there are [262](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in medulla\") neurons with presynaptic terminals in the medulla.",
+ "response": "Neurons that provide input to the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18. VFB records show that these neurons have presynaptic terminals in the medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -7180,9 +6897,9 @@
"question": "And the lobula?",
"focus": null,
"clicked": null,
- "duration_ms": 18925,
+ "duration_ms": 21224,
"ok": true,
- "response": "The neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that there are [528](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003852,NeuronsPartHere \"Run in VFB: Neurons with some part in lobula\") neurons with synaptic terminals in the lobula.",
+ "response": "Neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that these neurons have synaptic terminals in the lobula.",
"followons": [
{
"id": "FBbt_00003852",
@@ -7270,11 +6987,11 @@
}
],
"ok": true,
- "request_id": "0bbf1186-4bfe-49ce-ab5d-c800eef3bd9a",
- "response_id": "chatcmpl-a36770d0768a7e61e9d6913b1546ecbc",
+ "request_id": "b0ce27c3-0a4d-4369-8c3c-5abd1483c888",
+ "response_id": "chatcmpl-ab54fb807578801a1420e8a2b0243aad",
"images_count": 4,
"graphs_count": 0,
- "response": "The neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that there are [528](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003852,NeuronsPartHere \"Run in VFB: Neurons with some part in lobula\") neurons with synaptic terminals in the lobula.",
+ "response": "Neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that these neurons have synaptic terminals in the lobula.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -7285,14 +7002,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1019,
+ "response_chars": 863,
"status_count": 13,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 18925
+ "slowest_followup_ms": 21224
}
},
{
@@ -7305,7 +7022,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 57398,
+ "duration_ms": 43528,
"status_messages": [
{
"message": "Thinking...",
@@ -7315,10 +7032,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "phase": "plan",
- "message": "The plan is contested — sampling again before committing."
- },
{
"message": "Resolving 2 terms in VFB",
"phase": "mcp"
@@ -7360,7 +7073,7 @@
"phase": "llm"
}
],
- "event_count": 173,
+ "event_count": 116,
"conversation": true,
"turns": [
{
@@ -7368,7 +7081,7 @@
"question": "What is the protocerebral bridge?",
"focus": null,
"clicked": null,
- "duration_ms": 6815,
+ "duration_ms": 6928,
"ok": true,
"response": "The [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") is a handle bar-shaped synaptic neuropil located just posterior to the fan-shaped body. Its lateral edge ends at the posterior end of the inferior clamp near the medial equatorial fascicle. It forms a dorso-posteriorly located part of the central complex embedded in the cortex between the calyces of the two mushroom bodies, and is composed of a row of 18 connected slices, 9 on each side of the midline, numbered 1-9 from medial to lateral.",
"followons": [
@@ -7427,9 +7140,9 @@
"question": "How does it relate to the ellipsoid body?",
"focus": null,
"clicked": null,
- "duration_ms": 22599,
+ "duration_ms": 16752,
"ok": true,
- "response": "The [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") are related in that they are both part of the central complex in the Drosophila brain. VFB records show neurons with some part in the ellipsoid body, including [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), adult protocerebral bridge glomerulus 4-ellipsoid body canal-ventral gall neuron, and others, indicating a connection between the two structures.",
+ "response": "The [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") are connected by neurons. For example, the [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\") has some part in the ellipsoid body and has synaptic terminals in the ellipsoid body. Similarly, the adult protocerebral bridge glomerulus 4-ellipsoid body canal-ventral gall neuron, the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron, and other neurons also connect the protocerebral bridge and the ellipsoid body. VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body and [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in ellipsoid body\") neurons with synaptic terminals in the ellipsoid body.",
"followons": [
{
"id": "FBbt_00003668",
@@ -7502,7 +7215,7 @@
],
"unmapped": []
},
- "status_count": 13,
+ "status_count": 12,
"problems": []
},
{
@@ -7510,9 +7223,9 @@
"question": "Which neurons connect them?",
"focus": null,
"clicked": null,
- "duration_ms": 27984,
+ "duration_ms": 19848,
"ok": true,
- "response": "Neurons that connect the [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") include [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), adult protocerebral bridge glomerulus 4-ellipsoid body canal-ventral gall neuron, and others. The connectome data indicates that [PEN_PB2](https://www.virtualflybrain.org/reports/FBbt_00111369 \"Open PEN_PB2 in Virtual Fly Brain\"), [PEN_PB3](https://www.virtualflybrain.org/reports/FBbt_00111370 \"Open PEN_PB3 in Virtual Fly Brain\"), [PEN_PB7](https://www.virtualflybrain.org/reports/FBbt_00111373 \"Open PEN_PB7 in Virtual Fly Brain\"), and [PEN_PB8](https://www.virtualflybrain.org/reports/FBbt_00111374 \"Open PEN_PB8 in Virtual Fly Brain\") neurons have synaptic terminals in both the protocerebral bridge and the ellipsoid body. VFB records show that there are [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neuron types with some part in the ellipsoid body, and [27](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003668,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in protocerebral bridge\") neuron types with presynaptic terminals in the protocerebral bridge, and [162](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003668,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in protocerebral bridge\") neuron types with postsynaptic terminals in the protocerebral bridge.",
+ "response": "The [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), the adult [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") glomerulus 4-ellipsoid body canal-ventral gall neuron, and the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron are examples of neurons that connect the protocerebral bridge and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\"). VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body.",
"followons": [
{
"id": "FBbt_00003668",
@@ -7610,16 +7323,16 @@
],
"unmapped": []
},
- "status_count": 13,
+ "status_count": 12,
"problems": []
}
],
"ok": true,
- "request_id": "5d7fe8ac-9c2b-422a-98a5-bcdb8bc73dca",
- "response_id": "chatcmpl-858074261445810c08711d61ab760f96",
+ "request_id": "eab78289-1359-4ec2-b372-68d444397616",
+ "response_id": "chatcmpl-d95c789b5c01c21bb7331253eaf67a40",
"images_count": 8,
"graphs_count": 0,
- "response": "Neurons that connect the [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") include [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), adult protocerebral bridge glomerulus 4-ellipsoid body canal-ventral gall neuron, and others. The connectome data indicates that [PEN_PB2](https://www.virtualflybrain.org/reports/FBbt_00111369 \"Open PEN_PB2 in Virtual Fly Brain\"), [PEN_PB3](https://www.virtualflybrain.org/reports/FBbt_00111370 \"Open PEN_PB3 in Virtual Fly Brain\"), [PEN_PB7](https://www.virtualflybrain.org/reports/FBbt_00111373 \"Open PEN_PB7 in Virtual Fly Brain\"), and [PEN_PB8](https://www.virtualflybrain.org/reports/FBbt_00111374 \"Open PEN_PB8 in Virtual Fly Brain\") neurons have synaptic terminals in both the protocerebral bridge and the ellipsoid body. VFB records show that there are [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neuron types with some part in the ellipsoid body, and [27](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003668,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in protocerebral bridge\") neuron types with presynaptic terminals in the protocerebral bridge, and [162](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003668,NeuronsPostsynapticHere \"Run in VFB: Neurons with postsynaptic terminals in protocerebral bridge\") neuron types with postsynaptic terminals in the protocerebral bridge.",
+ "response": "The [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), the adult [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") glomerulus 4-ellipsoid body canal-ventral gall neuron, and the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron are examples of neurons that connect the protocerebral bridge and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\"). VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body.",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -7630,14 +7343,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1906,
- "status_count": 13,
+ "response_chars": 934,
+ "status_count": 12,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 27984
+ "slowest_followup_ms": 19848
}
},
{
@@ -7650,7 +7363,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 29477,
+ "duration_ms": 27977,
"status_messages": [
{
"message": "Thinking...",
@@ -7681,7 +7394,7 @@
"phase": "llm"
}
],
- "event_count": 46,
+ "event_count": 41,
"conversation": true,
"turns": [
{
@@ -7689,9 +7402,9 @@
"question": "Which neurons have part of them in the medulla?",
"focus": null,
"clicked": null,
- "duration_ms": 14728,
+ "duration_ms": 14092,
"ok": true,
- "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), and [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"). VFB records show [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types have some part in the medulla. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in medulla.",
"followons": [
{
"id": "FBbt_00003748",
@@ -7746,7 +7459,7 @@
],
"unmapped": []
},
- "status_count": 8,
+ "status_count": 9,
"problems": []
},
{
@@ -7754,9 +7467,9 @@
"question": "How would I get that same result in Python with vfbquery?",
"focus": null,
"clicked": null,
- "duration_ms": 14749,
+ "duration_ms": 13885,
"ok": true,
- "response": "The code below returns the [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types VFB has annotated for [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB records show 471 neuron types have some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
+ "response": "The code below returns the neurons with some part in [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB holds [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
"followons": [
{
"id": "FBbt_00003748",
@@ -7816,11 +7529,11 @@
}
],
"ok": true,
- "request_id": "8811a530-e4fa-4b15-8499-2a3a5d44ec31",
- "response_id": "chatcmpl-7ce85d3ed38aa744f5b7a748eb6e8b90",
+ "request_id": "e8c000ef-e1f9-4088-a204-8895f2d5f60c",
+ "response_id": "chatcmpl-c5ccb7b3c137792d8b1b672710242ba1",
"images_count": 8,
"graphs_count": 0,
- "response": "The code below returns the [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types VFB has annotated for [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB records show 471 neuron types have some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
+ "response": "The code below returns the neurons with some part in [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB holds [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -7831,14 +7544,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 828,
+ "response_chars": 808,
"status_count": 7,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 14749
+ "slowest_followup_ms": 13885
}
},
{
@@ -7851,7 +7564,7 @@
"requires_graph": false,
"min_graphs": 0,
"repetition": 1,
- "duration_ms": 34436,
+ "duration_ms": 29089,
"status_messages": [
{
"message": "Thinking...",
@@ -7861,10 +7574,6 @@
"message": "Planning the answer",
"phase": "llm"
},
- {
- "phase": "plan",
- "message": "The plan is contested — sampling again before committing."
- },
{
"message": "Resolving 1 term in VFB",
"phase": "mcp"
@@ -7890,7 +7599,7 @@
"phase": "llm"
}
],
- "event_count": 74,
+ "event_count": 124,
"conversation": true,
"turns": [
{
@@ -7898,9 +7607,9 @@
"question": "What are the subclasses of Kenyon cell?",
"focus": null,
"clicked": null,
- "duration_ms": 11795,
+ "duration_ms": 9702,
"ok": true,
- "response": "The subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") are 37 in number, including [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 subclasses, with their VFB ids, are: KCab-c(i); KCab-c(o); larval gamma Kenyon cell; KCg-s; KCg-s4; KCg-t; larval alpha'/beta' Kenyon cell; KCab-sc; alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA; Kenyon cell of main calyx; single-claw Kenyon cell; and multi-claw Kenyon cell. VFB holds [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of Kenyon cell.",
+ "response": "The subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") are 37 in number, including [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 subclasses, along with their VFB ids, are: KCab-c(i); KCab-c(o); larval gamma Kenyon cell; KCg-s; KCg-s4; KCg-t; larval alpha'/beta' Kenyon cell; KCab-sc; alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA; Kenyon cell of main calyx; single-claw Kenyon cell; and multi-claw Kenyon cell. VFB holds [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of Kenyon cell.",
"followons": [
{
"id": "FBbt_00003686",
@@ -7963,9 +7672,9 @@
"question": "Can you list the VFB IDs so I can reproduce this myself?",
"focus": null,
"clicked": null,
- "duration_ms": 22641,
+ "duration_ms": 19387,
"ok": true,
- "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. VFB holds these records and they are identified by their VFB ids, such as FBbt_00049111 for [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\") and FBbt_00049112 for [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\")(o).\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
+ "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. The VFB IDs for these subclasses include FBbt_00049111, FBbt_00049112, FBbt_00049827, FBbt_00049830, FBbt_00049832, FBbt_00049833, FBbt_00049835, FBbt_00049838, FBbt_00049859, FBbt_00047926, FBbt_00047993, and FBbt_00047994.\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
"followons": [
{
"id": "FBbt_00003686",
@@ -8015,16 +7724,16 @@
],
"unmapped": []
},
- "status_count": 9,
+ "status_count": 8,
"problems": []
}
],
"ok": true,
- "request_id": "4c1d3724-293a-4198-ae38-68fccdb5139f",
- "response_id": "chatcmpl-99a7eda26ff2cc2c15d6dbf645496d84",
+ "request_id": "de581662-02f3-4cce-a50f-9102ecc8ac90",
+ "response_id": "chatcmpl-5c300edda89efc0f82884d55945921d6",
"images_count": 8,
"graphs_count": 0,
- "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. VFB holds these records and they are identified by their VFB ids, such as FBbt_00049111 for [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\") and FBbt_00049112 for [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\")(o).\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
+ "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. The VFB IDs for these subclasses include FBbt_00049111, FBbt_00049112, FBbt_00049827, FBbt_00049830, FBbt_00049832, FBbt_00049833, FBbt_00049835, FBbt_00049838, FBbt_00049859, FBbt_00047926, FBbt_00047993, and FBbt_00047994.\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
"quality_flags": {
"has_tool_status": true,
"no_tool_factual_answer": false,
@@ -8035,14 +7744,14 @@
"graph_failure_mentioned": false,
"missing_required_graph": false,
"used_data_resource": false,
- "response_chars": 1086,
- "status_count": 9,
+ "response_chars": 989,
+ "status_count": 8,
"addressless_followon": false,
"context_lost_across_turn": false,
"unmatched_claim_after_resolve": false,
"repeats_answered_question": false,
"slow_followup_turn": false,
- "slowest_followup_ms": 22641
+ "slowest_followup_ms": 19387
}
}
]
diff --git a/test-results/task-battery/task-battery-2026-08-19T00-46-22-388Z.json b/test-results/task-battery/task-battery-2026-08-19T00-46-22-388Z.json
new file mode 100644
index 0000000..6258ed2
--- /dev/null
+++ b/test-results/task-battery/task-battery-2026-08-19T00-46-22-388Z.json
@@ -0,0 +1,7758 @@
+{
+ "metadata": {
+ "run_id": "task-battery-2026-08-19T00-46-22-388Z",
+ "started_at": "2026-08-19T00:46:22.388Z",
+ "completed_at": "2026-08-19T01:00:33.471Z",
+ "git_sha": "e644e6ef61b059649e3e1202f7d4ee0d99e695d0",
+ "task_file": "/home/runner/work/VFBchat/VFBchat/VFBchat/tests/task-battery/tasks.json",
+ "base_url": "http://127.0.0.1:3210",
+ "started_server": true,
+ "server_command": "start",
+ "repetitions": 1,
+ "concurrency": 4,
+ "timeout_ms": 240000
+ },
+ "prompt": {
+ "provenance_instruction": "Answer the following question about Drosophila neuroscience. For every claim you make, state where the information comes from - for example: the specific database, dataset, or tool query you used; the publication (with full citation); or your general training knowledge. If you are uncertain or do not have a source, say so explicitly rather than guessing."
+ },
+ "summary": {
+ "total": 64,
+ "ok": 63,
+ "errors": 1,
+ "by_tier": {
+ "T1": {
+ "total": 8,
+ "ok": 8,
+ "errors": 0
+ },
+ "T2": {
+ "total": 8,
+ "ok": 8,
+ "errors": 0
+ },
+ "T3": {
+ "total": 8,
+ "ok": 7,
+ "errors": 1
+ },
+ "T4": {
+ "total": 6,
+ "ok": 6,
+ "errors": 0
+ },
+ "T5": {
+ "total": 1,
+ "ok": 1,
+ "errors": 0
+ },
+ "T6": {
+ "total": 21,
+ "ok": 21,
+ "errors": 0
+ },
+ "T7": {
+ "total": 12,
+ "ok": 12,
+ "errors": 0
+ }
+ },
+ "quality": {
+ "no_tool_factual_answer": {
+ "count": 0,
+ "task_ids": []
+ },
+ "tool_claim_without_tool": {
+ "count": 0,
+ "task_ids": []
+ },
+ "disambiguation_only_answer": {
+ "count": 0,
+ "task_ids": []
+ },
+ "investigation_plan_answer": {
+ "count": 0,
+ "task_ids": []
+ },
+ "not_verified_or_no_results_answer": {
+ "count": 0,
+ "task_ids": []
+ },
+ "graph_failure_mentioned": {
+ "count": 0,
+ "task_ids": []
+ },
+ "missing_required_graph": {
+ "count": 0,
+ "task_ids": []
+ },
+ "used_data_resource": {
+ "count": 0,
+ "task_ids": []
+ },
+ "addressless_followon": {
+ "count": 0,
+ "task_ids": []
+ },
+ "context_lost_across_turn": {
+ "count": 0,
+ "task_ids": []
+ },
+ "unmatched_claim_after_resolve": {
+ "count": 0,
+ "task_ids": []
+ },
+ "repeats_answered_question": {
+ "count": 0,
+ "task_ids": []
+ },
+ "slow_followup_turn": {
+ "count": 1,
+ "task_ids": [
+ "C5"
+ ]
+ }
+ },
+ "conversation": {
+ "total": 12,
+ "ok": 12,
+ "turns": 27,
+ "followup_turns": 15,
+ "followup_median_ms": 12450,
+ "followup_max_ms": 201677
+ },
+ "mean_duration_ms": 43102
+ },
+ "results": [
+ {
+ "attempt_index": 0,
+ "task_index": 0,
+ "task_id": "T1.1",
+ "tier": 1,
+ "title": "Brain region identification",
+ "question": "What are the major subdivisions of the Drosophila mushroom body?",
+ "requires_graph": false,
+ "min_graphs": 0,
+ "repetition": 1,
+ "duration_ms": 77544,
+ "status_messages": [
+ {
+ "message": "Thinking...",
+ "phase": "llm"
+ },
+ {
+ "message": "Planning (direct lookup)",
+ "phase": "llm"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Reading VFB term info",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 78,
+ "ok": true,
+ "request_id": "6b34a989-e272-40a9-8414-32d846f3f313",
+ "response_id": "chatcmpl-8fbdf9c3a384689295e849667bd2ef37",
+ "images_count": 8,
+ "graphs_count": 0,
+ "response": "The major subdivisions of the Drosophila [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are the calyx, pedunculus, and mushroom body lobe system. The mushroom body lobe system consists of a vertical branch and a medial branch, which have different structures at different life stages. Additionally, the lobes are further divided into compartments such as α, β, and γ.",
+ "quality_flags": {
+ "has_tool_status": true,
+ "no_tool_factual_answer": false,
+ "tool_claim_without_tool": false,
+ "disambiguation_only_answer": false,
+ "investigation_plan_answer": false,
+ "not_verified_or_no_results_answer": false,
+ "graph_failure_mentioned": false,
+ "missing_required_graph": false,
+ "used_data_resource": false,
+ "response_chars": 433,
+ "status_count": 6
+ }
+ },
+ {
+ "attempt_index": 1,
+ "task_index": 1,
+ "task_id": "T1.2",
+ "tier": 1,
+ "title": "Neuron type classification",
+ "question": "What types of Kenyon cells exist in the adult Drosophila brain?",
+ "requires_graph": false,
+ "min_graphs": 0,
+ "repetition": 1,
+ "duration_ms": 76506,
+ "status_messages": [
+ {
+ "message": "Thinking...",
+ "phase": "llm"
+ },
+ {
+ "message": "Planning the answer",
+ "phase": "llm"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Summarising neuron taxonomy",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 83,
+ "ok": true,
+ "request_id": "fd6e0e4a-1e88-4889-89cd-e0fb5d79ee7e",
+ "response_id": "chatcmpl-85baa9c65dfbbce891fd01aa237dec70",
+ "images_count": 8,
+ "graphs_count": 0,
+ "response": "There are several types of Kenyon cells in the adult Drosophila brain, including alpha/beta, alpha'/beta', and gamma Kenyon cells, which can be further subdivided into core/surface/posterior, anterior-posterior/middle, dorsal/main/gamma-s/gamma-t, and claw-count classes. VFB holds [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\").",
+ "quality_flags": {
+ "has_tool_status": true,
+ "no_tool_factual_answer": false,
+ "tool_claim_without_tool": false,
+ "disambiguation_only_answer": false,
+ "investigation_plan_answer": false,
+ "not_verified_or_no_results_answer": false,
+ "graph_failure_mentioned": false,
+ "missing_required_graph": false,
+ "used_data_resource": false,
+ "response_chars": 542,
+ "status_count": 6
+ }
+ },
+ {
+ "attempt_index": 2,
+ "task_index": 2,
+ "task_id": "T1.3",
+ "tier": 1,
+ "title": "Basic connectivity",
+ "question": "What are the main input neurons to the mushroom body?",
+ "requires_graph": false,
+ "min_graphs": 0,
+ "repetition": 1,
+ "duration_ms": 77125,
+ "status_messages": [
+ {
+ "message": "Thinking...",
+ "phase": "llm"
+ },
+ {
+ "message": "Planning the answer",
+ "phase": "llm"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB connectivity",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 74,
+ "ok": true,
+ "request_id": "a2cdb017-83a8-4761-823c-3ee60d127021",
+ "response_id": "chatcmpl-07bf98f6c7e70fff15249893155e2d1c",
+ "images_count": 8,
+ "graphs_count": 1,
+ "response": "The main input neurons to the [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") are sensory interneuron afferents to the calyx. VFB records show [366](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00005801,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in mushroom body\") neurons with presynaptic terminals in mushroom body, including larval uniglomerular projection neurons and larval antennal lobe multiglomerular projection neurons.",
+ "graphs": [
+ {
+ "type": "basic_graph",
+ "version": 1,
+ "title": "mushroom body region connectivity preview",
+ "directed": true,
+ "layout": "radial",
+ "nodes": [
+ {
+ "id": "FBbt_00005801",
+ "label": "mushroom body",
+ "group": "queried region",
+ "color": null,
+ "size": 2.4
+ },
+ {
+ "id": "FBbt_00111716",
+ "label": "larval antennal lobe multiglomerular projection neuron C2",
+ "group": "presynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_00111717",
+ "label": "larval antennal lobe multiglomerular projection neuron bilateral lower",
+ "group": "presynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_00111675",
+ "label": "larval uniglomerular projection neuron 63a",
+ "group": "presynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_00111684",
+ "label": "larval uniglomerular projection neuron 67b",
+ "group": "presynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_00111685",
+ "label": "larval uniglomerular projection neuron 74a",
+ "group": "presynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_20000069",
+ "label": "ATL005",
+ "group": "postsynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_20000071",
+ "label": "ATL007",
+ "group": "postsynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_20000083",
+ "label": "ATL019",
+ "group": "postsynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_20000084",
+ "label": "ATL020",
+ "group": "postsynaptic neuron",
+ "color": null,
+ "size": 1.15
+ },
+ {
+ "id": "FBbt_00111628",
+ "label": "adult odd neuron of the calyx",
+ "group": "postsynaptic neuron",
+ "color": null,
+ "size": 1.15
+ }
+ ],
+ "edges": [
+ {
+ "source": "FBbt_00111716",
+ "target": "FBbt_00005801",
+ "label": "presynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00111717",
+ "target": "FBbt_00005801",
+ "label": "presynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00111675",
+ "target": "FBbt_00005801",
+ "label": "presynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00111684",
+ "target": "FBbt_00005801",
+ "label": "presynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00111685",
+ "target": "FBbt_00005801",
+ "label": "presynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00005801",
+ "target": "FBbt_20000069",
+ "label": "postsynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00005801",
+ "target": "FBbt_20000071",
+ "label": "postsynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00005801",
+ "target": "FBbt_20000083",
+ "label": "postsynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00005801",
+ "target": "FBbt_20000084",
+ "label": "postsynaptic sites in mushroom body",
+ "weight": 0
+ },
+ {
+ "source": "FBbt_00005801",
+ "target": "FBbt_00111628",
+ "label": "postsynaptic sites in mushroom body",
+ "weight": 0
+ }
+ ]
+ }
+ ],
+ "quality_flags": {
+ "has_tool_status": true,
+ "no_tool_factual_answer": false,
+ "tool_claim_without_tool": false,
+ "disambiguation_only_answer": false,
+ "investigation_plan_answer": false,
+ "not_verified_or_no_results_answer": false,
+ "graph_failure_mentioned": false,
+ "missing_required_graph": false,
+ "used_data_resource": false,
+ "response_chars": 545,
+ "status_count": 11
+ }
+ },
+ {
+ "attempt_index": 3,
+ "task_index": 3,
+ "task_id": "T1.4",
+ "tier": 1,
+ "title": "Gene expression",
+ "question": "What neurotransmitter do mushroom body Kenyon cells use?",
+ "requires_graph": false,
+ "min_graphs": 0,
+ "repetition": 1,
+ "duration_ms": 76122,
+ "status_messages": [
+ {
+ "message": "Thinking...",
+ "phase": "llm"
+ },
+ {
+ "message": "Planning the answer",
+ "phase": "llm"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Looking up neurotransmitter data",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
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+ "response": "The primary neurotransmitter used by mushroom body Kenyon cells is acetylcholine.",
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+ {
+ "phase": "plan",
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+ },
+ {
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+ {
+ "message": "Querying VFB",
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+ {
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+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") connects to various brain regions through neurons with presynaptic and postsynaptic terminals. Neurons with presynaptic terminals in the antennal lobe include [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), and adult olfactory receptor neurons such as Ir75d ac1 and Or35a ac3I. Neurons with postsynaptic terminals in the antennal lobe include [AMMC-Bi16](https://www.virtualflybrain.org/reports/FBbt_00111480 \"Open AMMC-Bi16 in Virtual Fly Brain\"), adult antennal lobe projection neurons like DL5 and VA1d, and adult multiglomerular antennal lobe projection neuron L1 adPN.",
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+ "title": "Cell count",
+ "question": "Approximately how many neurons are in the adult Drosophila central brain?",
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+ {
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+ "message": "Counting neurons",
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+ "response": "Approximately 139,255 neurons are in the adult Drosophila central brain.\n\n**Published neuron-count estimates — adult central brain** (from the literature):\n\n- ~32,388 neurons (Whole adult brain, both optic lobes and ocellar ganglia included. Ventral nerve cord NOT included; neurons crossing the neck connective are truncated at the brain boundary. Subcount: fully in central brain. One female adult. Dataset: FlyWire connectome neurons, v783.) — [Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518](https://doi.org/10.1038/s41586-024-07558-y \"Open Dorkenwald S et al. (2024) Nature 634(8032):124-138 — PMID 39358518 via DOI (new tab)\")\n\n_FlyWire reports 32,388 neurons FULLY CONTAINED in the central brain out of 139,255 in the whole brain. Neurons that arborise in the central brain but also elsewhere are not in that subcount, so it is a lower bound on 'neurons in the central brain', not a census of them._\n\n_VFB has annotated 9,413 neuron types with some part in adult central brain — a curated annotation count, not the biological total._\n\nReference: [How many neurons are in the fly brain?](https://www.virtualflybrain.org/docs/concepts/neuron-counts/ \"Open “How many neurons are in the fly brain?” — Virtual Fly Brain documentation (new tab)\")",
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+ {
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+ "task_id": "T1.7",
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+ "title": "Central complex structure",
+ "question": "What are the main components of the Drosophila central complex and what functions are they associated with?",
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+ "duration_ms": 20550,
+ "status_messages": [
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+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB connectivity",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
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+ }
+ ],
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+ "request_id": "cba1c6f4-2330-418a-88d8-dd3d9dea2e63",
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+ "images_count": 8,
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+ "response": "The main components of the Drosophila central complex include the ellipsoid body, the fan-shaped body, the three paired noduli, the asymmetrical bodies, and the protocerebral bridge. These components are associated with functions such as navigation and orientation, locomotor control, and sleep/arousal and memory-related behaviours. VFB holds [363](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsPartHere \"Run in VFB: Neurons with some part in adult central complex\") records of neurons with some part in [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") and [362](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003632,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult central complex\") records of neurons with synaptic terminals in adult central complex.",
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+ "title": "adult central complex region connectivity preview",
+ "directed": true,
+ "layout": "radial",
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+ {
+ "id": "FBbt_00003632",
+ "label": "adult central complex",
+ "group": "queried region",
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+ {
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+ "label": "PEN_PB2",
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+ {
+ "id": "FBbt_00111370",
+ "label": "PEN_PB3",
+ "group": "presynaptic and postsynaptic neuron",
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+ {
+ "id": "FBbt_00111373",
+ "label": "PEN_PB7",
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+ {
+ "id": "FBbt_00111374",
+ "label": "PEN_PB8",
+ "group": "presynaptic and postsynaptic neuron",
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+ {
+ "id": "FBbt_00111376",
+ "label": "adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron",
+ "group": "presynaptic and postsynaptic neuron",
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+ "task_id": "T1.8",
+ "tier": 1,
+ "title": "Genetic tools",
+ "question": "What genetic tools are commonly used to label mushroom body neurons in Drosophila?",
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+ {
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+ {
+ "message": "Finding genetic tools",
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+ "response_id": "chatcmpl-d29a07d1013dcc83698dfd6e79cc5c48",
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+ "response": "Genetic tools to label mushroom body neurons, such as [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\"), include GAL4 drivers and expression patterns. VFB holds [92](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,TransgeneExpressionHere \"Run in VFB: Transgene expression in Kenyon cell\") transgene expression reports for Kenyon cell.",
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+ "question": "Describe the dopaminergic input to mushroom body output neurons (MBONs). Which DAN types connect to which MBON types?",
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+ "message": "Querying VFB connectivity",
+ "phase": "mcp"
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+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
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+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
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+ "response": "Dopaminergic input to mushroom body output neurons comes from specific types of dopaminergic neurons, including dopaminergic PPL1 neurons and dopaminergic PAM neurons. The connectivity data indicates that dopaminergic PPL1 neurons connect to adult mushroom body output neurons with a total weight of 17270 and 567 pairwise connections. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\").",
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+ "group": null,
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+ {
+ "id": "FBbt_00049839",
+ "label": "adult dopaminergic mushroom body input neuron",
+ "group": null,
+ "color": null,
+ "size": 1.07
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+ {
+ "id": "FBbt_00100214",
+ "label": "adult dopaminergic PAM neuron",
+ "group": null,
+ "color": null,
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+ {
+ "id": "FBbt_00100219",
+ "label": "dopaminergic PPL1 neuron",
+ "group": null,
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+ {
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+ "label": "mushroom body PPL1 neuron",
+ "group": null,
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+ {
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+ "label": "dopaminergic PAM neuron 8",
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+ {
+ "id": "FBbt_00111018",
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+ },
+ {
+ "id": "FBbt_00111017",
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+ "group": null,
+ "color": null,
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+ "id": "FBbt_00110994",
+ "label": "dopaminergic PAM neuron 10",
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+ "color": null,
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+ },
+ {
+ "id": "FBbt_00110993",
+ "label": "dopaminergic PAM neuron 4",
+ "group": null,
+ "color": null,
+ "size": 1.01
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+ {
+ "id": "FBbt_00111022",
+ "label": "dopaminergic PAM neuron 11",
+ "group": null,
+ "color": null,
+ "size": 1.01
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+ {
+ "id": "FBbt_00007364",
+ "label": "octopaminergic neuron",
+ "group": null,
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+ {
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+ "response": "The pathway from olfactory receptor neurons to the lateral horn involves projection neurons that reach the lateral horn through four antennal-lobe tracts. Antennal lobe projection neurons are intermediate neurons that connect olfactory receptor neurons to the lateral horn. VFB records show that the strongest specific inputs to [olfactory receptor neuron](https://www.virtualflybrain.org/reports/FBbt_00005926 \"Open olfactory receptor neuron in Virtual Fly Brain\") are from [adult antennal lobe local neuron lLN](https://www.virtualflybrain.org/reports/FBbt_00051502 \"Open adult antennal lobe local neuron lLN in Virtual Fly Brain\"), [adult local interneuron of the lateral ALl1 neuroblast](https://www.virtualflybrain.org/reports/FBbt_00007394 \"Open adult local interneuron of the lateral ALl1 neuroblast in Virtual Fly Brain\"), [antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00052874 \"Open antennal lobe local neuron in Virtual Fly Brain\"), [adult antennal lobe local neuron](https://www.virtualflybrain.org/reports/FBbt_00007390 \"Open adult antennal lobe local neuron in Virtual Fly Brain\"), and [olfactory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007697 \"Open olfactory system neuron in Virtual Fly Brain\"). VFB does not currently hold data on downstream connectivity classes for olfactory receptor neuron. VFB holds [1661](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsPartHere \"Run in VFB: Neurons with some part in adult lateral horn\") records of neurons with some part in [adult lateral horn](https://www.virtualflybrain.org/reports/FBbt_00007053 \"Open adult lateral horn in Virtual Fly Brain\") and [1658](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00007053,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in adult lateral horn\") records of neurons with synaptic terminals in adult lateral horn.",
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+ "response": "The adult Drosophila visual system contains [950](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047736,SubclassesOf \"Run in VFB: Subclasses of visual system neuron\") distinct neuron types that are classified as subclasses of [visual system neuron](https://www.virtualflybrain.org/reports/FBbt_00047736 \"Open visual system neuron in Virtual Fly Brain\"). These include, but are not limited to, [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [PS070](https://www.virtualflybrain.org/reports/FBbt_20001825 \"Open PS070 in Virtual Fly Brain\"), PS071, PS073, adult visual neuropil intrinsic neuron, lamina wide-field neuron, medulla intrinsic neuron vGlutMinew1a, TmY27, and Mi10b.",
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+ {
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+ "question": "Which neuron type provides the strongest synaptic input to the MBON-gamma1pedc>a/b neuron, and how does this compare to the next strongest inputs?",
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+ "response": "The strongest synaptic input to the MBON-gamma1pedc>a/b neuron is not specified. VFB holds upstream connectivity classes for [mushroom body output neuron 11](https://www.virtualflybrain.org/reports/FBbt_00100246 \"Open mushroom body output neuron 11 in Virtual Fly Brain\"), but the lookup did not complete.",
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+ "title": "Shared connectivity",
+ "question": "Do the alpha/beta and gamma Kenyon cells converge on any of the same downstream MBON types? Which MBONs receive input from both?",
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+ {
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+ {
+ "message": "Querying VFB",
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+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
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+ "ok": true,
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+ "response": "The literature does not provide a clear answer to whether alpha/beta and gamma Kenyon cells converge on the same downstream [mushroom body output neuron](https://www.virtualflybrain.org/reports/FBbt_00047953 \"Open mushroom body output neuron in Virtual Fly Brain\") types. VFB returned matching entries including [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\") and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"), but does not provide information on their downstream targets. VFB's class-level connectivity table for mushroom body output neuron lists [29,859](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,DownstreamClassConnectivity \"Run in VFB: Downstream connectivity classes for MBON\") downstream classes, but does not specify which of these are targeted by both alpha/beta and gamma Kenyon cells. VFB holds [69](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00047953,SubclassesOf \"Run in VFB: Subclasses of MBON\") subclasses of mushroom body output neuron and [6](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00100248,SubclassesOf \"Run in VFB: Subclasses of KCab\") subclasses of [alpha/beta Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100248 \"Open alpha/beta Kenyon cell in Virtual Fly Brain\").",
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+ {
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+ "task_id": "T3.6",
+ "tier": 3,
+ "title": "Anatomical containment chain",
+ "question": "Trace the anatomical containment hierarchy from the DA1 glomerulus up to the top-level brain structure. What is each level in the hierarchy?",
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+ ],
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+ "ok": true,
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+ "response_id": "chatcmpl-075211341c0ee93d23d2e450a3b94f8d",
+ "images_count": 0,
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+ "response": "The anatomical containment hierarchy from the DA1 glomerulus up to the top-level brain structure is: DA1 glomerulus -> adult olfactory antennal lobe glomerulus -> adult antennal lobe -> adult deutocerebrum -> adult cerebrum -> adult central brain -> adult brain. VFB does not currently hold data on parts of [antennal lobe glomerulus DA1](https://www.virtualflybrain.org/reports/FBbt_00003932 \"Open antennal lobe glomerulus DA1 in Virtual Fly Brain\").",
+ "quality_flags": {
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+ }
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+ {
+ "attempt_index": 22,
+ "task_index": 22,
+ "task_id": "T3.7",
+ "tier": 3,
+ "title": "Cross-region connectivity",
+ "question": "What neuron types connect the central complex to the lateral accessory lobe, and how strong are these connections?",
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+ {
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+ {
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+ "phase": "llm"
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+ {
+ "message": "Querying VFB",
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+ {
+ "message": "Querying VFB",
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+ "response": "PFL1, PFL2_PB4, and PFL3_PB7 are neuron types connecting the [adult central complex](https://www.virtualflybrain.org/reports/FBbt_00003632 \"Open adult central complex in Virtual Fly Brain\") to the [lateral accessory lobe on L3 CNS template, Wood2018](https://www.virtualflybrain.org/reports/VFB_00050314 \"Open lateral accessory lobe on L3 CNS template, Wood2018 in Virtual Fly Brain\"). VFB does not currently hold data on neurons with presynaptic or postsynaptic terminals in the embryonic/larval lateral accessory lobe.",
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+ }
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+ {
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+ "question": "For the DNa02 descending neuron type, what data is available in VFB? Is it in the Hemibrain, FAFB, or both? Are there light microscopy images and driver lines?",
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+ "duration_ms": null,
+ "error": "Timed out after 240000 ms",
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+ {
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+ "task_id": "T4.1",
+ "tier": 4,
+ "title": "Experimental planning",
+ "question": "I want to study the neural circuit underlying CO2 avoidance in Drosophila. What neurons are involved, how are they connected, and what genetic tools can I use to access them?",
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+ "response": "The neurons involved in the detection of carbon dioxide are carbon dioxide sensitive neurons. These neurons are involved in the detection of carbon dioxide.\n\nThe question of how these neurons are connected and what genetic tools can be used to access them remains unanswered.",
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+ {
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+ "task_id": "T4.2",
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+ "title": "Complete neuron profile",
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+ "images_count": 8,
+ "graphs_count": 1,
+ "response": "The [giant fiber neuron](https://www.virtualflybrain.org/reports/FBbt_00004020 \"Open giant fiber neuron in Virtual Fly Brain\") is a large adult descending neuron that controls jump escape behavior. Its downstream connectivity classes for DNp01 include [389](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,DownstreamClassConnectivity \"Run in VFB: Downstream connectivity classes for DNp01\") entries, and its upstream connectivity classes for DNp01 include [472](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,UpstreamClassConnectivity \"Run in VFB: Upstream connectivity classes for DNp01\") entries. The giant fiber neuron has been found to express in several transgenic lines, with [10](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00004020,TransgeneExpressionHere \"Run in VFB: Transgene expression in DNp01\") results returned for transgene expression in DNp01, including expression patterns for P{GMR78G07-GAL4}, P{GMR79D08-GAL4}, and P{GMR91H05-GAL4}.\n\nConnectivity partners of the giant fiber neuron include [adult VNC neuron](https://www.virtualflybrain.org/reports/FBbt_00059289 \"Open adult VNC neuron in Virtual Fly Brain\"), [thoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001983 \"Open thoracic neuron in Virtual Fly Brain\"), [mesothoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001985 \"Open mesothoracic neuron in Virtual Fly Brain\"), [primary neuron](https://www.virtualflybrain.org/reports/FBbt_00047097 \"Open primary neuron in Virtual Fly Brain\"), [Notch OFF hemilineage secondary neuron](https://www.virtualflybrain.org/reports/FBbt_00049542 \"Open Notch OFF hemilineage secondary neuron in Virtual Fly Brain\"), [prothoracic neuron](https://www.virtualflybrain.org/reports/FBbt_00001984 \"Open prothoracic neuron in Virtual Fly Brain\"), [Notch ON hemilineage secondary neuron](https://www.virtualflybrain.org/reports/FBbt_00049541 \"Open Notch ON hemilineage secondary neuron in Virtual Fly Brain\"), [adult ascending neuron](https://www.virtualflybrain.org/reports/FBbt_00048301 \"Open adult ascending neuron in Virtual Fly Brain\"), [sensory system neuron](https://www.virtualflybrain.org/reports/FBbt_00007693 \"Open sensory system neuron in Virtual Fly Brain\"), [projection neuron](https://www.virtualflybrain.org/reports/FBbt_00007392 \"Open projection neuron in Virtual Fly Brain\"), [Notch OFF hemilineage primary neuron](https://www.virtualflybrain.org/reports/FBbt_00047105 \"Open Notch OFF hemilineage primary neuron in Virtual Fly Brain\"), and [adult visual projection neuron](https://www.virtualflybrain.org/reports/FBbt_00048286 \"Open adult visual projection neuron in Virtual Fly Brain\").\n\nThe giant fiber neuron's role in controlling jump escape behavior is noted in the literature, as referenced by Thomas and Wyman, 1984.",
+ "graphs": [
+ {
+ "type": "basic_graph",
+ "version": 1,
+ "title": "Downstream partners of DNp01",
+ "directed": true,
+ "layout": "circle",
+ "nodes": [
+ {
+ "id": "FBbt_00004020",
+ "label": "DNp01",
+ "group": null,
+ "color": null,
+ "size": 4
+ },
+ {
+ "id": "FBbt_00047095",
+ "label": "adult neuron",
+ "group": null,
+ "color": null,
+ "size": 1.48
+ },
+ {
+ "id": "FBbt_00005106",
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+ "phase": "mcp"
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+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 243,
+ "conversation": true,
+ "turns": [
+ {
+ "turn": 1,
+ "question": "What is the fan-shaped body?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 6500,
+ "ok": true,
+ "response": "The [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") is the largest synaptic neuropil domain of the adult central complex, located posterior to the ellipsoid body and anterior to the protocerebral bridge. It is composed of a rough 2-dimensional grid of layers and columns. Eight horizontal layers, numbered bottom to top, form a fan shape and can be divided into vertical columns. An additional, much narrower, 9th layer, which lacks a columnar organization, sits dorsal to layer 8. The number of columns varies for different neuronal types.",
+ "followons": [
+ {
+ "id": "FBbt_00003679",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the fan-shaped body?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ }
+ ],
+ "calls": [],
+ "unmapped": []
+ },
+ "status_count": 6,
+ "problems": []
+ },
+ {
+ "turn": 2,
+ "question": "What about the ellipsoid body?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 15550,
+ "ok": true,
+ "response": "The [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") is a doughnut-shaped synaptic neuropil domain of the central complex of the adult brain that lies just anterior to the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\").",
+ "followons": [
+ {
+ "id": "FBbt_00003678",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the ellipsoid body?"
+ },
+ {
+ "id": "FBbt_00003678",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the ellipsoid body?"
+ },
+ {
+ "id": "FBbt_00003678",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the ellipsoid body?"
+ },
+ {
+ "id": "FBbt_00003678",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the ellipsoid body?"
+ },
+ {
+ "id": "FBbt_00003678",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the ellipsoid body?"
+ },
+ {
+ "id": "FBbt_00003678",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the ellipsoid body?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003678",
+ "label": "ellipsoid body"
+ },
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003678",
+ "label": "ellipsoid body"
+ },
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ }
+ ],
+ "calls": [],
+ "unmapped": []
+ },
+ "status_count": 6,
+ "problems": []
+ },
+ {
+ "turn": 3,
+ "question": "Which neurons have synaptic terminals in the fan-shaped body?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 12450,
+ "ok": true,
+ "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results of the \"Neurons with synaptic terminals in fan-shaped body\" query are: PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\").\n\nAdditionally, VFB records [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neurons with presynaptic terminals in the fan-shaped body, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), adult ExR1 neuron of DM4 lineage.",
+ "followons": [
+ {
+ "id": "FBbt_00003679",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "PartsOf",
+ "query": "What are the anatomical parts of the fan-shaped body?"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "LineageClonesIn",
+ "query": "Which lineage clones are found in the fan-shaped body?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ },
+ {
+ "id": "FBbt_00003678",
+ "label": "ellipsoid body"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003679",
+ "label": "fan-shaped body"
+ },
+ {
+ "id": "FBbt_00003678",
+ "label": "ellipsoid body"
+ }
+ ],
+ "calls": [
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsSynaptic",
+ "fn": "get_neurons_with_synapses_in"
+ },
+ {
+ "id": "FBbt_00003679",
+ "query_type": "NeuronsPresynapticHere",
+ "fn": "get_neurons_with_presynaptic_terminals_in"
+ }
+ ],
+ "unmapped": []
+ },
+ "status_count": 8,
+ "problems": []
+ }
+ ],
+ "ok": true,
+ "request_id": "78d589ce-1d11-4011-a541-64f4ab72fede",
+ "response_id": "chatcmpl-53e6e95344b7671ee0300cfdaab1dc58",
+ "images_count": 8,
+ "graphs_count": 0,
+ "response": "Neurons with synaptic terminals in the [fan-shaped body](https://www.virtualflybrain.org/reports/FBbt_00003679 \"Open fan-shaped body in Virtual Fly Brain\") include [229](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPartHere \"Run in VFB: Neurons with some part in fan-shaped body\") neuron types, such as [PFNa_PB4](https://www.virtualflybrain.org/reports/FBbt_00111398 \"Open PFNa_PB4 in Virtual Fly Brain\"), [PFNa_PB5](https://www.virtualflybrain.org/reports/FBbt_00111399 \"Open PFNa_PB5 in Virtual Fly Brain\"), [PFNd_PB2](https://www.virtualflybrain.org/reports/FBbt_00111391 \"Open PFNd_PB2 in Virtual Fly Brain\"), [PFNd_PB3](https://www.virtualflybrain.org/reports/FBbt_00111392 \"Open PFNd_PB3 in Virtual Fly Brain\"), [PFNd_PB5](https://www.virtualflybrain.org/reports/FBbt_00111394 \"Open PFNd_PB5 in Virtual Fly Brain\"). The first 12 results of the \"Neurons with synaptic terminals in fan-shaped body\" query are: PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [PFL1_PB5](https://www.virtualflybrain.org/reports/FBbt_00111438 \"Open PFL1_PB5 in Virtual Fly Brain\"), [PFL3](https://www.virtualflybrain.org/reports/FBbt_00111443 \"Open PFL3 in Virtual Fly Brain\"), [PFL2](https://www.virtualflybrain.org/reports/FBbt_00111451 \"Open PFL2 in Virtual Fly Brain\").\n\nAdditionally, VFB records [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003679,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in fan-shaped body\") neurons with presynaptic terminals in the fan-shaped body, including PFNd_PB2, PFNd_PB3, PFNd_PB5, PFNa_PB4, PFNa_PB5, PFNa_PB6, PFNa_PB7, PFNa_PB9, PFNp_PB7, [protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron](https://www.virtualflybrain.org/reports/FBbt_00111463 \"Open protocerebral bridge glomerulus 8-fan-shaped body-ipsilateral ventral gall surround neuron in Virtual Fly Brain\"), [adult ExR1 neuron of DM3 lineage](https://www.virtualflybrain.org/reports/FBbt_00053034 \"Open adult ExR1 neuron of DM3 lineage in Virtual Fly Brain\"), adult ExR1 neuron of DM4 lineage.",
+ "quality_flags": {
+ "has_tool_status": true,
+ "no_tool_factual_answer": false,
+ "tool_claim_without_tool": false,
+ "disambiguation_only_answer": false,
+ "investigation_plan_answer": false,
+ "not_verified_or_no_results_answer": false,
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+ "slow_followup_turn": false,
+ "slowest_followup_ms": 15550
+ }
+ },
+ {
+ "attempt_index": 55,
+ "task_index": 55,
+ "task_id": "C4",
+ "tier": 7,
+ "title": "Refinement onto a cell type",
+ "question": "What is a Kenyon cell?",
+ "requires_graph": false,
+ "min_graphs": 0,
+ "repetition": 1,
+ "duration_ms": 13695,
+ "status_messages": [
+ {
+ "message": "Thinking...",
+ "phase": "llm"
+ },
+ {
+ "message": "Running the query behind that suggestion",
+ "phase": "mcp"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 140,
+ "conversation": true,
+ "turns": [
+ {
+ "turn": 1,
+ "question": "What is a Kenyon cell?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 5439,
+ "ok": true,
+ "response": "A [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") is an intrinsic neuron of the mushroom body.",
+ "followons": [
+ {
+ "id": "FBbt_00003686",
+ "query_type": "ListAllAvailableImages",
+ "query": "Which images of Kenyon cell does VFB have?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "UpstreamClassConnectivity",
+ "query": "What connects to the Kenyon cell upstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "DownstreamClassConnectivity",
+ "query": "What does the Kenyon cell connect to downstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "anatScRNAseqQuery",
+ "query": "What single-cell transcriptomic clusters are there for Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "SubclassesOf",
+ "query": "What are the subtypes of the Kenyon cell?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "calls": [],
+ "unmapped": []
+ },
+ "status_count": 7,
+ "problems": []
+ },
+ {
+ "turn": 2,
+ "question": "What are its subtypes?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 8256,
+ "ok": true,
+ "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") include [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, such as [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 of these subclasses are KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
+ "followons": [
+ {
+ "id": "FBbt_00003686",
+ "query_type": "ListAllAvailableImages",
+ "query": "Which images of Kenyon cell does VFB have?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "UpstreamClassConnectivity",
+ "query": "What connects to the Kenyon cell upstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "DownstreamClassConnectivity",
+ "query": "What does the Kenyon cell connect to downstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "anatScRNAseqQuery",
+ "query": "What single-cell transcriptomic clusters are there for Kenyon cell?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "calls": [
+ {
+ "id": "FBbt_00003686",
+ "query_type": "SubclassesOf",
+ "fn": "get_subclasses_of"
+ }
+ ],
+ "unmapped": []
+ },
+ "status_count": 6,
+ "problems": []
+ }
+ ],
+ "ok": true,
+ "request_id": "93b91a52-3fe9-4522-988e-0fafe37cd95c",
+ "response_id": "chatcmpl-66623745f4b766d748abba53150c3967",
+ "images_count": 8,
+ "graphs_count": 0,
+ "response": "The subtypes of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") include [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses, such as [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 of these subclasses are KCab-c(i), KCab-c(o), larval gamma Kenyon cell, KCg-s, KCg-s4, KCg-t, larval alpha'/beta' Kenyon cell, KCab-sc, alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA, Kenyon cell of main calyx, single-claw Kenyon cell, and multi-claw Kenyon cell.",
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+ {
+ "attempt_index": 56,
+ "task_index": 56,
+ "task_id": "C5",
+ "tier": 7,
+ "title": "A presentation directive is not part of the term name",
+ "question": "What are the anatomical parts of the medulla? List them.",
+ "requires_graph": false,
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+ "phase": "llm"
+ },
+ {
+ "message": "Planning the answer",
+ "phase": "llm"
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+ {
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+ "phase": "mcp"
+ },
+ {
+ "message": "Reading VFB term info",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
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+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 330,
+ "conversation": true,
+ "turns": [
+ {
+ "turn": 1,
+ "question": "What are the anatomical parts of the medulla? List them.",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 8464,
+ "ok": true,
+ "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is divided into 10 layers: 1-6 make up the outer (distal) medulla, the seventh (or serpentine) layer exhibits a distinct architecture and layers 8-10 make up the inner (proximal) medulla. Some anatomical parts of the medulla include adult chandelier glial cell, adult distal medulla astrocyte-like glial cell, [distal medulla glial cell](https://www.virtualflybrain.org/reports/FBbt_00100528 \"Open distal medulla glial cell in Virtual Fly Brain\"), medulla layer, adult distal medulla ensheathing glial cell, [plexiform medulla](https://www.virtualflybrain.org/reports/FBbt_00045001 \"Open plexiform medulla in Virtual Fly Brain\"), [medulla dorsal rim area](https://www.virtualflybrain.org/reports/FBbt_00045002 \"Open medulla dorsal rim area in Virtual Fly Brain\"), medulla layer M1, medulla layer M5, inner medulla, medulla layer M8, and medulla layer M9.",
+ "followons": [
+ {
+ "id": "FBbt_00003748",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the medulla?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003748",
+ "label": "medulla"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003748",
+ "label": "medulla"
+ }
+ ],
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+ "id": "FBbt_00003748",
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+ "fn": "get_parts_of"
+ }
+ ],
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+ "status_count": 8,
+ "problems": []
+ },
+ {
+ "turn": 2,
+ "question": "And which neurons have part of their arbour there?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 201677,
+ "ok": true,
+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals of neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, MeSps, and Y3-like. Additionally, neurons such as Dm8b, PS128, Mi10b, CB3849, TmY-ds, [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18 have presynaptic terminals in the medulla, while neurons like CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19 have postsynaptic terminals in the medulla. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
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+ "query": "Which images of medulla does VFB have?"
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+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. The medulla is also a target of synaptic terminals of neurons such as Dm8b, MC, PS128, medulla intrinsic neuron vGlutMinew1a, TmY27, Mi10b, medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, CB3849, TmY-ds, MeSps, and Y3-like. Additionally, neurons such as Dm8b, PS128, Mi10b, CB3849, TmY-ds, [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18 have presynaptic terminals in the medulla, while neurons like CB3849, TmY-ds, [Y6](https://www.virtualflybrain.org/reports/FBbt_00007580 \"Open Y6 in Virtual Fly Brain\"), [extra l-LNv neuron](https://www.virtualflybrain.org/reports/FBbt_00047183 \"Open extra l-LNv neuron in Virtual Fly Brain\"), Dm7, Mi6, Mi8, Tm10, Tm13, Tm14, Tm18, and Tm19 have postsynaptic terminals in the medulla. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
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+ "task_index": 57,
+ "task_id": "C6",
+ "tier": 7,
+ "title": "Innervation asked of a pronoun",
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+ {
+ "message": "Running the query behind that suggestion",
+ "phase": "mcp"
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+ "event_count": 163,
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+ "turns": [
+ {
+ "turn": 1,
+ "question": "Tell me about the antennal lobe.",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 12137,
+ "ok": true,
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is a synaptic neuropil domain of the deutocerebrum that is the main target for innervation from the antennal nerve. It is a region in the Drosophila nervous system. VFB holds various data related to the antennal lobe, including transgene expression in antennal lobe commissural pioneer interneuron, downstream connectivity classes for antennal lobe commissural pioneer interneuron, and upstream connectivity classes for antennal lobe commissural pioneer interneuron. Users can search for synaptic input in the antennal lobe via the Virtual Fly Brain web application.",
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+ "query": "Which images of antennal lobe does VFB have?"
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+ {
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+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the antennal lobe?"
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+ {
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+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the antennal lobe?"
+ },
+ {
+ "id": "FBbt_00003924",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the antennal lobe?"
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+ "query": "What are the anatomical parts of the antennal lobe?"
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+ ],
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+ "problems": []
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+ {
+ "turn": 2,
+ "question": "Which neurons innervate it?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 5682,
+ "ok": true,
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by several types of neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), [PLP077](https://www.virtualflybrain.org/reports/FBbt_20001577 \"Open PLP077 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac2](https://www.virtualflybrain.org/reports/FBbt_00110014 \"Open adult olfactory receptor neuron Ir75d ac2 in Virtual Fly Brain\"), adult olfactory receptor neuron Ir75d ac4, pharyngeal VL1 neuron, ORN_VM6, adult olfactory receptor neuron Or35a ac3I, adult olfactory receptor neuron Or35a ac3II, adult olfactory receptor neuron Or85b ab3, and adult olfactory receptor neuron Or85b ab11. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe.",
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+ "query": "Which images of antennal lobe does VFB have?"
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+ "query": "What are the anatomical parts of the antennal lobe?"
+ },
+ {
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+ "query": "What are the subtypes of the antennal lobe?"
+ }
+ ],
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+ "label": "antennal lobe"
+ }
+ ],
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+ "label": "antennal lobe"
+ }
+ ],
+ "calls": [
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+ "id": "FBbt_00003924",
+ "query_type": "NeuronsPresynapticHere",
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+ }
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+ "images_count": 6,
+ "graphs_count": 0,
+ "response": "The [antennal lobe](https://www.virtualflybrain.org/reports/FBbt_00003924 \"Open antennal lobe in Virtual Fly Brain\") is innervated by several types of neurons, including [larval antennal lobe picky local neuron](https://www.virtualflybrain.org/reports/FBbt_00111694 \"Open larval antennal lobe picky local neuron in Virtual Fly Brain\"), [larval antennal lobe broad local neuron](https://www.virtualflybrain.org/reports/FBbt_00111700 \"Open larval antennal lobe broad local neuron in Virtual Fly Brain\"), [PLP077](https://www.virtualflybrain.org/reports/FBbt_20001577 \"Open PLP077 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac1](https://www.virtualflybrain.org/reports/FBbt_00110011 \"Open adult olfactory receptor neuron Ir75d ac1 in Virtual Fly Brain\"), [adult olfactory receptor neuron Ir75d ac2](https://www.virtualflybrain.org/reports/FBbt_00110014 \"Open adult olfactory receptor neuron Ir75d ac2 in Virtual Fly Brain\"), adult olfactory receptor neuron Ir75d ac4, pharyngeal VL1 neuron, ORN_VM6, adult olfactory receptor neuron Or35a ac3I, adult olfactory receptor neuron Or35a ac3II, adult olfactory receptor neuron Or85b ab3, and adult olfactory receptor neuron Or85b ab11. VFB records show that there are [266](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003924,NeuronsPresynapticHere \"Run in VFB: Neurons with presynaptic terminals in antennal lobe\") neurons with presynaptic terminals in the antennal lobe.",
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+ "task_index": 58,
+ "task_id": "C7",
+ "tier": 7,
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+ "message": "Running the query behind that suggestion",
+ "phase": "mcp"
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+ {
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+ "phase": "mcp"
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+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
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+ "turn": 1,
+ "question": "What is the medulla?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 5711,
+ "ok": true,
+ "response": "The [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") is the second optic neuropil, sandwiched between the lamina and the lobula complex. It is divided into 10 layers: 1-6 make up the outer medulla, the seventh layer exhibits a distinct architecture and layers 8-10 make up the inner medulla.",
+ "followons": [
+ {
+ "id": "FBbt_00003748",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the medulla?"
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+ {
+ "id": "FBbt_00003748",
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+ "query": "Which neurons have part of their arbour in the medulla?"
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+ "query": "Which neurons receive output from the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
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+ },
+ {
+ "turn": 2,
+ "question": "Which neuron images have a part in the medulla?",
+ "focus": {
+ "id": "FBbt_00003748",
+ "query_type": "ImagesNeurons"
+ },
+ "clicked": 0,
+ "duration_ms": 9022,
+ "ok": true,
+ "response": "There are images of neurons with parts in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"). The first 12 neurons with some part in the medulla are: T4a_R (MaleCNS:113529); T4a_L (MaleCNS:74469); T4a_L (MaleCNS:107619); T4a_R (MaleCNS:153494); T4a_L (MaleCNS:90547); T4a_R (MaleCNS:95926); T4a_L (MaleCNS:207048); [T4a_L (MaleCNS:97069)](https://www.virtualflybrain.org/reports/VFB_jrmc10fb \"Open T4a_L (MaleCNS:97069) in Virtual Fly Brain\"); T4a_L (MaleCNS:166703); T4a_R (MaleCNS:113836); [T4a_L (MaleCNS:543841)](https://www.virtualflybrain.org/reports/VFB_jrmc10fd \"Open T4a_L (MaleCNS:543841) in Virtual Fly Brain\"); [T4a_L (MaleCNS:150592)](https://www.virtualflybrain.org/reports/VFB_jrmc10fa \"Open T4a_L (MaleCNS:150592) in Virtual Fly Brain\"). VFB holds [226,524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in the medulla.",
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+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the medulla?"
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+ "query": "Which neurons have synaptic terminals in the medulla?"
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+ "fn": "get_neurons_with_part_in"
+ }
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+ "status_count": 8,
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+ {
+ "turn": 3,
+ "question": "Which driver lines label the medulla?",
+ "focus": {
+ "id": "FBbt_00003748",
+ "query_type": "TransgeneExpressionHere"
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+ "clicked": 0,
+ "duration_ms": 8081,
+ "ok": true,
+ "response": "The first 12 driver lines that label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") are: [PBac{544.SVS-1}B4[CPTI100035] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143533 \"Open PBac{544.SVS-1}B4[CPTI100035] expression pattern in Virtual Fly Brain\"); [PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143547 \"Open PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern in Virtual Fly Brain\"); [PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143524 \"Open PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144033 \"Open PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144076 \"Open PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern in Virtual Fly Brain\"); PBac{681.P.FSVS-1}CG11138[CPTI001659] expression pattern; PBac{681.P.FSVS-1}CG6983[CPTI001802] expression pattern; PBac{681.P.FSVS-1}CG7920[CPTI002166] expression pattern; PBac{681.P.FSVS-1}CG9336[CPTI001654] expression pattern; PBac{681.P.FSVS-1}Pka-R2[CPTI001580] expression pattern; PBac{681.P.FSVS-1}cpx[CPTI001473] expression pattern; PBac{681.P.FSVS-1}larp[CPTI002498] expression pattern. VFB holds [2342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") records of transgene expression in the medulla.",
+ "followons": [
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+ "query": "Which neuron images have a part in the medulla?"
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+ "query": "Which neurons have part of their arbour in the medulla?"
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+ "query": "Which neurons have synaptic terminals in the medulla?"
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+ {
+ "id": "FBbt_00003748",
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+ "query": "Which neurons receive output from the medulla?"
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+ }
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+ "fn": "get_neurons_with_part_in"
+ },
+ {
+ "id": "FBbt_00003748",
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+ "graphs_count": 0,
+ "response": "The first 12 driver lines that label the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") are: [PBac{544.SVS-1}B4[CPTI100035] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143533 \"Open PBac{544.SVS-1}B4[CPTI100035] expression pattern in Virtual Fly Brain\"); [PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143547 \"Open PBac{544.SVS-1}Fer2LCH[CPTI100064] expression pattern in Virtual Fly Brain\"); [PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0143524 \"Open PBac{566.P.SVS-1}IA-2[CPTI100013] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144033 \"Open PBac{602.P.SVS-1}CG7675[CPTI000703] expression pattern in Virtual Fly Brain\"); [PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern](https://www.virtualflybrain.org/reports/VFBexp_FBti0144076 \"Open PBac{602.P.SVS-1}dlg1[CPTI000207] expression pattern in Virtual Fly Brain\"); PBac{681.P.FSVS-1}CG11138[CPTI001659] expression pattern; PBac{681.P.FSVS-1}CG6983[CPTI001802] expression pattern; PBac{681.P.FSVS-1}CG7920[CPTI002166] expression pattern; PBac{681.P.FSVS-1}CG9336[CPTI001654] expression pattern; PBac{681.P.FSVS-1}Pka-R2[CPTI001580] expression pattern; PBac{681.P.FSVS-1}cpx[CPTI001473] expression pattern; PBac{681.P.FSVS-1}larp[CPTI002498] expression pattern. VFB holds [2342](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,TransgeneExpressionHere \"Run in VFB: Transgene expression in medulla\") records of transgene expression in the medulla.",
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+ "task_index": 59,
+ "task_id": "C8",
+ "tier": 7,
+ "title": "Driver lines asked warm",
+ "question": "What is the mushroom body?",
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+ "repetition": 1,
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+ "phase": "llm"
+ },
+ {
+ "message": "Running the query behind that suggestion",
+ "phase": "mcp"
+ },
+ {
+ "message": "Resolving 1 term in VFB",
+ "phase": "mcp"
+ },
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+ "message": "Querying VFB",
+ "phase": "mcp"
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+ {
+ "message": "Checking the answer is covered",
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+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
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+ ],
+ "event_count": 264,
+ "conversation": true,
+ "turns": [
+ {
+ "turn": 1,
+ "question": "What is the mushroom body?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 9050,
+ "ok": true,
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is a bilaterally paired neuropil structure situated postero-dorsally in the protocerebrum that functions in olfactory associative learning and memory. The mushroom body is divided into the calyx, which is closest to the cortex and receives sensory interneuron afferents; the pedunculus, which is a thick axon bundle extending from the calyx to the base of the lobes; and the mushroom body lobe system, which consists of a vertical branch and a medial branch, which have different structures at different life stages.",
+ "followons": [
+ {
+ "id": "FBbt_00005801",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the mushroom body?"
+ }
+ ],
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+ {
+ "id": "FBbt_00005801",
+ "label": "mushroom body"
+ }
+ ],
+ "reproduction": {
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+ "id": "FBbt_00005801",
+ "label": "mushroom body"
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+ "status_count": 6,
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+ {
+ "turn": 2,
+ "question": "Which driver lines label it?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 9862,
+ "ok": true,
+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is labeled by multiple driver lines, including PBac{544.SVS-1}Bsg[CPTI100062], PBac{566.P.SVS-1}Bsg[CPTI100005], PBac{566.P.SVS-1}IA-2[CPTI100013], PBac{566.P.SVS-1}sgg[CPTI100027], PBac{602.P.SVS-1}Fas2[CPTI000483], PBac{602.P.SVS-1}HDAC4[CPTI000077], PBac{602.P.SVS-1}Pax[CPTI000161], PBac{602.P.SVS-1}Sema1a[CPTI000505], PBac{602.P.SVS-1}Tm1[CPTI000760], PBac{602.P.SVS-1}dlg1[CPTI000207], PBac{602.P.SVS-1}dlp[CPTI000445], and PBac{602.P.SVS-1}hzg[CPTI000737]. Additionally, split-GAL4 lines are available for labeling specific cell types in the adult CNS and third-instar larvae.",
+ "followons": [
+ {
+ "id": "FBbt_00005801",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the mushroom body?"
+ },
+ {
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+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the mushroom body?"
+ },
+ {
+ "id": "FBbt_00005801",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the mushroom body?"
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+ "query": "What are the anatomical parts of the mushroom body?"
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+ ],
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+ ],
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+ ],
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+ "response": "The [mushroom body](https://www.virtualflybrain.org/reports/FBbt_00005801 \"Open mushroom body in Virtual Fly Brain\") is labeled by multiple driver lines, including PBac{544.SVS-1}Bsg[CPTI100062], PBac{566.P.SVS-1}Bsg[CPTI100005], PBac{566.P.SVS-1}IA-2[CPTI100013], PBac{566.P.SVS-1}sgg[CPTI100027], PBac{602.P.SVS-1}Fas2[CPTI000483], PBac{602.P.SVS-1}HDAC4[CPTI000077], PBac{602.P.SVS-1}Pax[CPTI000161], PBac{602.P.SVS-1}Sema1a[CPTI000505], PBac{602.P.SVS-1}Tm1[CPTI000760], PBac{602.P.SVS-1}dlg1[CPTI000207], PBac{602.P.SVS-1}dlp[CPTI000445], and PBac{602.P.SVS-1}hzg[CPTI000737]. Additionally, split-GAL4 lines are available for labeling specific cell types in the adult CNS and third-instar larvae.",
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+ "tier": 7,
+ "title": "A follow-up that changes the term, not the query",
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+ {
+ "message": "Querying VFB",
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+ {
+ "message": "Checking the answer is covered",
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+ {
+ "message": "Writing the answer",
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+ {
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+ {
+ "message": "Querying VFB",
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+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Querying VFB",
+ "phase": "mcp"
+ },
+ {
+ "message": "Checking the answer is covered",
+ "phase": "llm"
+ },
+ {
+ "message": "Writing the answer",
+ "phase": "llm"
+ }
+ ],
+ "event_count": 143,
+ "conversation": true,
+ "turns": [
+ {
+ "turn": 1,
+ "question": "Which neurons provide input to the medulla?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 5699,
+ "ok": true,
+ "response": "Neurons that provide input to the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), [Dm7](https://www.virtualflybrain.org/reports/FBbt_00003774 \"Open Dm7 in Virtual Fly Brain\"), Mi6, Mi8, Tm10, Tm13, Tm14, and Tm18. VFB records show that these neurons have presynaptic terminals in the medulla.",
+ "followons": [
+ {
+ "id": "FBbt_00003748",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPartHere",
+ "query": "Which neurons have part of their arbour in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsSynaptic",
+ "query": "Which neurons have synaptic terminals in the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "PartsOf",
+ "query": "What are the anatomical parts of the medulla?"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "LineageClonesIn",
+ "query": "Which lineage clones are found in the medulla?"
+ }
+ ],
+ "context_terms": [
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+ "label": "medulla"
+ }
+ ],
+ "reproduction": {
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+ "label": "medulla"
+ }
+ ],
+ "calls": [
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPresynapticHere",
+ "fn": "get_neurons_with_presynaptic_terminals_in"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPostsynapticHere",
+ "fn": "get_neurons_with_postsynaptic_terminals_in"
+ }
+ ],
+ "unmapped": []
+ },
+ "status_count": 9,
+ "problems": []
+ },
+ {
+ "turn": 2,
+ "question": "And the lobula?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 21224,
+ "ok": true,
+ "response": "Neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that these neurons have synaptic terminals in the lobula.",
+ "followons": [
+ {
+ "id": "FBbt_00003852",
+ "query_type": "NeuronsPresynapticHere",
+ "query": "Which neurons provide input to the lobula?"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "NeuronsPostsynapticHere",
+ "query": "Which neurons receive output from the lobula?"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "PartsOf",
+ "query": "What are the anatomical parts of the lobula?"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "TractsNervesInnervatingHere",
+ "query": "Which tracts and nerves innervate the lobula?"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "LineageClonesIn",
+ "query": "Which lineage clones are found in the lobula?"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "ImagesNeurons",
+ "query": "Which neuron images have a part in the lobula?"
+ }
+ ],
+ "context_terms": [
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+ "label": "lobula"
+ },
+ {
+ "id": "FBbt_00003748",
+ "label": "medulla"
+ }
+ ],
+ "reproduction": {
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+ "id": "FBbt_00003852",
+ "label": "lobula"
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+ {
+ "id": "FBbt_00003748",
+ "label": "medulla"
+ }
+ ],
+ "calls": [
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+ "query_type": "ListAllAvailableImages",
+ "fn": "get_instances"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "NeuronsPartHere",
+ "fn": "get_neurons_with_part_in"
+ },
+ {
+ "id": "FBbt_00003852",
+ "query_type": "NeuronsSynaptic",
+ "fn": "get_neurons_with_synapses_in"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPresynapticHere",
+ "fn": "get_neurons_with_presynaptic_terminals_in"
+ },
+ {
+ "id": "FBbt_00003748",
+ "query_type": "NeuronsPostsynapticHere",
+ "fn": "get_neurons_with_postsynaptic_terminals_in"
+ }
+ ],
+ "unmapped": []
+ },
+ "status_count": 13,
+ "problems": []
+ }
+ ],
+ "ok": true,
+ "request_id": "b0ce27c3-0a4d-4369-8c3c-5abd1483c888",
+ "response_id": "chatcmpl-ab54fb807578801a1420e8a2b0243aad",
+ "images_count": 4,
+ "graphs_count": 0,
+ "response": "Neurons that provide input to the [lobula](https://www.virtualflybrain.org/reports/FBbt_00003852 \"Open lobula in Virtual Fly Brain\") include [AVLP391](https://www.virtualflybrain.org/reports/FBbt_20000500 \"Open AVLP391 in Virtual Fly Brain\"), [PLP031](https://www.virtualflybrain.org/reports/FBbt_20001531 \"Open PLP031 in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [lobula columnar neuron vGlutLcnnew2](https://www.virtualflybrain.org/reports/FBbt_00110100 \"Open lobula columnar neuron vGlutLcnnew2 in Virtual Fly Brain\"), [OA-AL2b](https://www.virtualflybrain.org/reports/FBbt_00110145 \"Open OA-AL2b in Virtual Fly Brain\"), adult histaminergic HP3 neuron, translobula neuron, Tl1, Tl2, Tm1a, SIP063, and SLP339. VFB records show that these neurons have synaptic terminals in the lobula.",
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+ "response": "The [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") is a handle bar-shaped synaptic neuropil located just posterior to the fan-shaped body. Its lateral edge ends at the posterior end of the inferior clamp near the medial equatorial fascicle. It forms a dorso-posteriorly located part of the central complex embedded in the cortex between the calyces of the two mushroom bodies, and is composed of a row of 18 connected slices, 9 on each side of the midline, numbered 1-9 from medial to lateral.",
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+ "question": "How does it relate to the ellipsoid body?",
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+ "response": "The [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\") are connected by neurons. For example, the [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\") has some part in the ellipsoid body and has synaptic terminals in the ellipsoid body. Similarly, the adult protocerebral bridge glomerulus 4-ellipsoid body canal-ventral gall neuron, the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron, and other neurons also connect the protocerebral bridge and the ellipsoid body. VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body and [102](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsSynaptic \"Run in VFB: Neurons with synaptic terminals in ellipsoid body\") neurons with synaptic terminals in the ellipsoid body.",
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+ "response": "The [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), the adult [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") glomerulus 4-ellipsoid body canal-ventral gall neuron, and the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron are examples of neurons that connect the protocerebral bridge and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\"). VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body.",
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+ "response": "The [adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron](https://www.virtualflybrain.org/reports/FBbt_00111376 \"Open adult protocerebral bridge glomerulus 1-ellipsoid body canal-dorsal gall neuron in Virtual Fly Brain\"), the adult [protocerebral bridge](https://www.virtualflybrain.org/reports/FBbt_00003668 \"Open protocerebral bridge in Virtual Fly Brain\") glomerulus 4-ellipsoid body canal-ventral gall neuron, and the adult protocerebral bridge glomerulus 5-ellipsoid body canal-dorsal gall neuron are examples of neurons that connect the protocerebral bridge and the [ellipsoid body](https://www.virtualflybrain.org/reports/FBbt_00003678 \"Open ellipsoid body in Virtual Fly Brain\"). VFB records show [103](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003678,NeuronsPartHere \"Run in VFB: Neurons with some part in ellipsoid body\") neurons with some part in the ellipsoid body.",
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+ "title": "The answer hands over its own working",
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+ "question": "Which neurons have part of them in the medulla?",
+ "focus": null,
+ "clicked": null,
+ "duration_ms": 14092,
+ "ok": true,
+ "response": "Neurons with some part in the [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\") include [Dm8b](https://www.virtualflybrain.org/reports/FBbt_00110069 \"Open Dm8b in Virtual Fly Brain\"), [MC](https://www.virtualflybrain.org/reports/FBbt_00111640 \"Open MC in Virtual Fly Brain\"), [PS128](https://www.virtualflybrain.org/reports/FBbt_20001883 \"Open PS128 in Virtual Fly Brain\"), [medulla intrinsic neuron vGlutMinew1a](https://www.virtualflybrain.org/reports/FBbt_00110033 \"Open medulla intrinsic neuron vGlutMinew1a in Virtual Fly Brain\"), [TmY27](https://www.virtualflybrain.org/reports/FBbt_00110067 \"Open TmY27 in Virtual Fly Brain\"), [Mi10b](https://www.virtualflybrain.org/reports/FBbt_00110070 \"Open Mi10b in Virtual Fly Brain\"), medulla tangential neuron vGlutMtnew1, medulla tangential neuron vGlutMtnew2, Tm1a, [CB3849](https://www.virtualflybrain.org/reports/FBbt_20007264 \"Open CB3849 in Virtual Fly Brain\"), [TmY-ds](https://www.virtualflybrain.org/reports/FBbt_00052643 \"Open TmY-ds in Virtual Fly Brain\"), and MeSps. VFB holds [226524](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,ImagesNeurons \"Run in VFB: Images of neurons with some part in medulla\") images of neurons with some part in medulla.",
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+ "query": "Which driver lines label the medulla?"
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+ "question": "How would I get that same result in Python with vfbquery?",
+ "focus": null,
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+ "ok": true,
+ "response": "The code below returns the neurons with some part in [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB holds [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
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+ "query": "Which neuron images have a part in the medulla?"
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+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the medulla?"
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+ "query": "Which neurons have part of their arbour in the medulla?"
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+ "query": "Which neurons have synaptic terminals in the medulla?"
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+ "query": "Which neurons receive output from the medulla?"
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+ "query": "Which neurons provide input to the medulla?"
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+ "response": "The code below returns the neurons with some part in [medulla](https://www.virtualflybrain.org/reports/FBbt_00003748 \"Open medulla in Virtual Fly Brain\"), as a table. VFB holds [471](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003748,NeuronsPartHere \"Run in VFB: Neurons with some part in medulla\") neuron types with some part in the medulla.\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nMEDULLA = 'FBbt_00003748' # medulla\n\n# NeuronsPartHere for medulla\nneurons_part_here = vfbquery.get_neurons_with_part_in(MEDULLA)\n```",
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+ "response": "The subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") are 37 in number, including [KCab-c(i)](https://www.virtualflybrain.org/reports/FBbt_00049111 \"Open KCab-c(i) in Virtual Fly Brain\"), [KCab-c](https://www.virtualflybrain.org/reports/FBbt_00110929 \"Open KCab-c in Virtual Fly Brain\"), [KCg-m](https://www.virtualflybrain.org/reports/FBbt_00111061 \"Open KCg-m in Virtual Fly Brain\"), [Kenyon cell of main calyx](https://www.virtualflybrain.org/reports/FBbt_00047926 \"Open Kenyon cell of main calyx in Virtual Fly Brain\"), and [gamma Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00100247 \"Open gamma Kenyon cell in Virtual Fly Brain\"). The first 12 subclasses, along with their VFB ids, are: KCab-c(i); KCab-c(o); larval gamma Kenyon cell; KCg-s; KCg-s4; KCg-t; larval alpha'/beta' Kenyon cell; KCab-sc; alpha'/beta' anterior-posterior type 1 Kenyon cell of lACA; Kenyon cell of main calyx; single-claw Kenyon cell; and multi-claw Kenyon cell. VFB holds [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of Kenyon cell.",
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+ "id": "FBbt_00003686",
+ "query_type": "ListAllAvailableImages",
+ "query": "Which images of Kenyon cell does VFB have?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "UpstreamClassConnectivity",
+ "query": "What connects to the Kenyon cell upstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "DownstreamClassConnectivity",
+ "query": "What does the Kenyon cell connect to downstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "anatScRNAseqQuery",
+ "query": "What single-cell transcriptomic clusters are there for Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "SubclassesOf",
+ "query": "What are the subtypes of the Kenyon cell?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "calls": [
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+ "id": "FBbt_00003686",
+ "query_type": "SubclassesOf",
+ "fn": "get_subclasses_of"
+ }
+ ],
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+ },
+ "status_count": 6,
+ "problems": []
+ },
+ {
+ "turn": 2,
+ "question": "Can you list the VFB IDs so I can reproduce this myself?",
+ "focus": null,
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+ "duration_ms": 19387,
+ "ok": true,
+ "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. The VFB IDs for these subclasses include FBbt_00049111, FBbt_00049112, FBbt_00049827, FBbt_00049830, FBbt_00049832, FBbt_00049833, FBbt_00049835, FBbt_00049838, FBbt_00049859, FBbt_00047926, FBbt_00047993, and FBbt_00047994.\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
+ "followons": [
+ {
+ "id": "FBbt_00003686",
+ "query_type": "ListAllAvailableImages",
+ "query": "Which images of Kenyon cell does VFB have?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "UpstreamClassConnectivity",
+ "query": "What connects to the Kenyon cell upstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "DownstreamClassConnectivity",
+ "query": "What does the Kenyon cell connect to downstream?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "TransgeneExpressionHere",
+ "query": "Which driver lines label the Kenyon cell?"
+ },
+ {
+ "id": "FBbt_00003686",
+ "query_type": "anatScRNAseqQuery",
+ "query": "What single-cell transcriptomic clusters are there for Kenyon cell?"
+ }
+ ],
+ "context_terms": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "reproduction": {
+ "ids": [
+ {
+ "id": "FBbt_00003686",
+ "label": "Kenyon cell"
+ }
+ ],
+ "calls": [
+ {
+ "id": "FBbt_00003686",
+ "query_type": "SubclassesOf",
+ "fn": "get_subclasses_of"
+ }
+ ],
+ "unmapped": []
+ },
+ "status_count": 8,
+ "problems": []
+ }
+ ],
+ "ok": true,
+ "request_id": "de581662-02f3-4cce-a50f-9102ecc8ac90",
+ "response_id": "chatcmpl-5c300edda89efc0f82884d55945921d6",
+ "images_count": 8,
+ "graphs_count": 0,
+ "response": "The code below returns the [37](https://v2.virtualflybrain.org/org.geppetto.frontend/geppetto?q=FBbt_00003686,SubclassesOf \"Run in VFB: Subclasses of Kenyon cell\") subclasses of [Kenyon cell](https://www.virtualflybrain.org/reports/FBbt_00003686 \"Open Kenyon cell in Virtual Fly Brain\") that VFB has annotated, as a table. The VFB IDs for these subclasses include FBbt_00049111, FBbt_00049112, FBbt_00049827, FBbt_00049830, FBbt_00049832, FBbt_00049833, FBbt_00049835, FBbt_00049838, FBbt_00049859, FBbt_00047926, FBbt_00047993, and FBbt_00047994.\n\n```python\n# Reproduce this answer in Python — pip install vfbquery\n#\n# These are the exact ids this conversation resolved and the exact catalogue\n# queries it ran, so this returns the same rows the answer was written from\n# rather than a fresh search that might land on a different term.\nimport vfbquery\n\nKENYON_CELL = 'FBbt_00003686' # Kenyon cell\n\n# SubclassesOf for Kenyon cell\nsubclasses_of = vfbquery.get_subclasses_of(KENYON_CELL)\n```",
+ "quality_flags": {
+ "has_tool_status": true,
+ "no_tool_factual_answer": false,
+ "tool_claim_without_tool": false,
+ "disambiguation_only_answer": false,
+ "investigation_plan_answer": false,
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+ "addressless_followon": false,
+ "context_lost_across_turn": false,
+ "unmatched_claim_after_resolve": false,
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+ "slow_followup_turn": false,
+ "slowest_followup_ms": 19387
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+}