@platforma-open/milaboratories.sequence-properties.model 1.1.1 → 1.2.0

package/.turbo/turbo-build.log

@@ -1,6 +1,6 @@
  WARN  Issue while reading "/home/runner/work/sequence-properties/sequence-properties/.npmrc". Failed to replace env in config: ${NPMJS_TOKEN}
 
-> @platforma-open/milaboratories.sequence-properties.model@1.1.1 build /home/runner/work/sequence-properties/sequence-properties/model
+> @platforma-open/milaboratories.sequence-properties.model@1.2.0 build /home/runner/work/sequence-properties/sequence-properties/model
 > ts-builder build --target block-model && block-tools build-model
 
 Building block-model project...
@@ -8,21 +8,21 @@ Building block-model project...
 [PLUGIN_TIMINGS] Warning: Your build spent significant time in plugin `rolldown-plugin-dts:generate`. See https://rolldown.rs/options/checks#plugintimings for more details.
 
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 [log]
-[success] rolldown v1.0.0-rc.16 Finished in 5.42 s
+[success] rolldown v1.0.0-rc.16 Finished in 10.54 s
 Build completed successfully

package/.turbo/turbo-check.log

@@ -1,19 +1,19 @@
  WARN  Issue while reading "/home/runner/work/sequence-properties/sequence-properties/.npmrc". Failed to replace env in config: ${NPMJS_TOKEN}
 
-> @platforma-open/milaboratories.sequence-properties.model@1.1.1 check /home/runner/work/sequence-properties/sequence-properties/model
+> @platforma-open/milaboratories.sequence-properties.model@1.2.0 check /home/runner/work/sequence-properties/sequence-properties/model
 > ts-builder check --target block-model
 
 ↳ tsc --noEmit --project ./tsconfig.json --customConditions ,
 Linting project...
 ↳ oxlint --config /home/runner/work/sequence-properties/sequence-properties/model/.oxlintrc.json --deny-warnings
 Found 0 warnings and 0 errors.
-Finished in 8ms on 3 files with 90 rules using 2 threads.
+Finished in 13ms on 3 files with 90 rules using 2 threads.
 Linting completed successfully
 Checking formatting...
 ↳ oxfmt --check --config /home/runner/work/sequence-properties/sequence-properties/model/.oxfmtrc.json
 Checking formatting...
 
 All matched files use the correct format.
-Finished in 252ms on 7 files using 2 threads.
+Finished in 255ms on 7 files using 2 threads.
 Format check completed successfully
 All checks passed!

package/CHANGELOG.md

@@ -1,5 +1,29 @@
 # @platforma-open/MiLaboratories.sequence-properties.model
 
+## 1.2.0
+
+### Minor Changes
+
+- c6e975d: Add Scatterplot and Histogram tabs to the Sequence Properties block. Both
+  panels read the existing `propertiesPf` p-frame and pick modality-aware
+  defaults: peptide charge / hydrophobicity in peptide mode, chain "A" CDR3
+  charge / hydrophobicity in antibody/TCR mode. Axis pickers list every
+  numeric scalar PColumn emitted by the run, excluding the 2-axis AA fraction
+  column. R21 / R21a reference line at GRAVY = 0 deferred — see
+  docs/spec-deviations.md SD-009.
+
+## 1.1.2
+
+### Patch Changes
+
+- 9d628d9: **Workflow (SD-008):** Derive receptor from `pl7.app/vdj/chain` when `pl7.app/vdj/receptor` is absent. Bulk MiXCR axes carry the chain key (`IGHeavy`, `IGLight`, `TCRAlpha`, `TCRBeta`, `TCRGamma`, `TCRDelta`) without the receptor key, which previously fired R13b's "Receptor type not detected" warning on every bulk run. Detection precedence now: axis receptor → axis chain → per-column receptor → per-column chain → IG default + warning. Inputs that carry receptor explicitly are unaffected.
+
+  **Model:** Default-visible single upstream amino-acid sequence column matching the analysed coverage tier — peptide (`pl7.app/sequence`, feature=peptide) for peptide mode; full-chain VDJRegion (`pl7.app/vdj/sequence`, feature=VDJRegion or VDJRegionInFrame, chain A) for `full_chain` tier; CDR3 (`pl7.app/vdj/sequence`, feature=CDR3, chain A) for `cdr3_only` and `partial` tiers. Chain B (light / beta / delta) and secondary alleles stay available via the column picker.
+
+  **UI:** Move the "Input dataset" picker into a Settings slide-out drawer (matches the convention used by clonotype-clustering and other sibling blocks). Drawer auto-opens on first load when no input is selected, auto-closes when the workflow starts running.
+
+  **Software:** Switch the Python runenv from `runenv-python-3:3.12.10` to `runenv-python-3:3.12.10-scientific-slim`. The scientific-slim image now ships biopython, so the per-block dependency install is faster and matches the convention used by sibling python blocks (e.g. `titeseq-analysis`).
+
 ## 1.1.1
 
 ### Patch Changes

package/dist/bundle.js

@@ -9961,7 +9961,26 @@
 	});
 	//#endregion
 	//#region src/dataModel.ts
-	const blockDataModel = new DataModelBuilder().from("Ver_2026_04_28").init(() => ({ tableState: createPlDataTableStateV2() }));
+	const DEFAULT_SCATTER_STATE = {
+		title: "",
+		template: "dots",
+		currentTab: null
+	};
+	const DEFAULT_HISTOGRAM_STATE = {
+		title: "",
+		template: "bins",
+		currentTab: null,
+		layersSettings: { bins: { fillColor: "#99e099" } }
+	};
+	const blockDataModel = new DataModelBuilder().from("Ver_2026_04_28").migrate("Ver_2026_05_05", (v1) => ({
+		...v1,
+		graphStateScatter: { ...DEFAULT_SCATTER_STATE },
+		graphStateHistogram: { ...DEFAULT_HISTOGRAM_STATE }
+	})).init(() => ({
+		tableState: createPlDataTableStateV2(),
+		graphStateScatter: { ...DEFAULT_SCATTER_STATE },
+		graphStateHistogram: { ...DEFAULT_HISTOGRAM_STATE }
+	}));
 	//#endregion
 	//#region src/index.ts
 	const inputAnchorSpecs = [
@@ -9989,6 +10008,9 @@
 		if (ctx.data.inputAnchor === void 0) return void 0;
 		const ownCols = ctx.outputs?.resolve("propertiesPf")?.getPColumns();
 		if (ownCols === void 0) return void 0;
+		const info = ctx.outputs?.resolve("info")?.getDataAsJson();
+		if (info === void 0) return void 0;
+		const tier = info.coverageTier;
 		const sources = [new ArrayColumnProvider(ctx.resultPool.selectColumns((spec) => !spec.annotations?.[Annotation.Trace]?.includes("milaboratories.sequence-properties"))), new ArrayColumnProvider(ownCols)];
 		return createPlDataTableV3(ctx, {
 			tableState: ctx.data.tableState,
@@ -9998,15 +10020,63 @@
 				selector: { mode: "enrichment" }
 			},
 			displayOptions: { visibility: [{
+				match: (spec) => {
+					if (spec.domain?.["pl7.app/vdj/scClonotypeChain/index"] === "secondary") return false;
+					if (spec.domain?.["pl7.app/alphabet"] !== "aminoacid") return false;
+					const isVdj = spec.name === "pl7.app/vdj/sequence";
+					const isUniversal = spec.name === "pl7.app/sequence";
+					if (!isVdj && !isUniversal) return false;
+					const feature = isVdj ? spec.domain?.["pl7.app/vdj/feature"] : spec.domain?.["pl7.app/feature"];
+					if (tier === "peptide") return isUniversal && feature === "peptide";
+					const chain = spec.domain?.["pl7.app/vdj/scClonotypeChain"];
+					if (chain !== void 0 && chain !== "A") return false;
+					if (tier === "full_chain") return feature === "VDJRegion" || feature === "VDJRegionInFrame";
+					if (tier === "cdr3_only" || tier === "partial") return feature === "CDR3";
+					return false;
+				},
+				visibility: "default"
+			}, {
 				match: (spec) => !spec.annotations?.[Annotation.Trace]?.includes("milaboratories.sequence-properties") && spec.annotations?.["pl7.app/isLinkerColumn"] !== "true",
 				visibility: "optional"
 			}] }
 		});
-	}).title(() => "Sequence Properties").subtitle((ctx) => ctx.data.defaultBlockLabel ?? "").sections(() => [{
-		type: "link",
-		href: "/",
-		label: "Main"
-	}]).done();
+	}).outputWithStatus("propertiesPfHandle", (ctx) => {
+		const allPCols = ctx.outputs?.resolve("propertiesPf")?.getPColumns();
+		if (allPCols === void 0) return void 0;
+		const pCols = allPCols.filter((c) => c.spec.name !== "pl7.app/aaFraction");
+		const inputAnchor = ctx.data.inputAnchor;
+		const upstreamMeta = inputAnchor !== void 0 ? (ctx.resultPool.getAnchoredPColumns({ main: inputAnchor }, [{ axes: [{
+			anchor: "main",
+			idx: 0
+		}] }, { axes: [{
+			anchor: "main",
+			idx: 1
+		}] }]) ?? []).filter((c) => !c.spec.annotations?.[Annotation.Trace]?.includes("milaboratories.sequence-properties")) : [];
+		return ctx.createPFrame([...pCols, ...upstreamMeta]);
+	}).output("propertiesPfCols", (ctx) => {
+		const pCols = ctx.outputs?.resolve("propertiesPf")?.getPColumns();
+		if (pCols === void 0) return void 0;
+		return pCols.map((c) => ({
+			columnId: c.id,
+			spec: c.spec
+		}));
+	}).title(() => "Sequence Properties").subtitle((ctx) => ctx.data.defaultBlockLabel ?? "").sections(() => [
+		{
+			type: "link",
+			href: "/",
+			label: "Main"
+		},
+		{
+			type: "link",
+			href: "/scatter",
+			label: "Scatterplot"
+		},
+		{
+			type: "link",
+			href: "/histogram",
+			label: "Histogram"
+		}
+	]).done();
 	//#endregion
 	exports.blockDataModel = blockDataModel;
 	exports.platforma = platforma$1;