@sjcrh/proteinpaint-client 2.227.0 → 2.227.1

package/dist/termCollection-NWTAUSSW.js

@@ -0,0 +1,29 @@
+import {
+  SearchHandler
+} from "./chunk-RTE32A22.js";
+import "./chunk-CXCAQOFB.js";
+import "./chunk-HJ6L54YS.js";
+import "./chunk-ILAYJZBC.js";
+import "./chunk-CNFTQSNE.js";
+import "./chunk-DOC3HBOV.js";
+import "./chunk-TVJOSRCH.js";
+import "./chunk-3CIL7KH7.js";
+import "./chunk-T4XPCSLP.js";
+import "./chunk-VVWZ4BOI.js";
+import "./chunk-W5J3LTYS.js";
+import "./chunk-2IAELUCN.js";
+import "./chunk-CFYWQJ7F.js";
+import "./chunk-2N345NXD.js";
+import "./chunk-HBNB5TRH.js";
+import "./chunk-PF4DSFDR.js";
+import "./chunk-4OLM3KSB.js";
+import "./chunk-PWYMHUXY.js";
+import "./chunk-TLT4YIG3.js";
+import "./chunk-5R63Q5KH.js";
+import "./chunk-I6Y4O3RR.js";
+import "./chunk-Q5RDQNIT.js";
+import "./chunk-HS5PO5ZQ.js";
+export {
+  SearchHandler
+};
+//# sourceMappingURL=termCollection-NWTAUSSW.js.map

package/dist/{termCollection.unit.spec-B7KAAOFT.js → termCollection.unit.spec-WE3JMSUI.js}

@@ -1,12 +1,12 @@
 import {
   SearchHandler
-} from "./chunk-C4BKP67I.js";
+} from "./chunk-RTE32A22.js";
 import {
   require_tape
 } from "./chunk-PJYCTAMC.js";
-import "./chunk-YBXQBSFY.js";
+import "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -292,4 +292,4 @@ function getTermCollectionDetails(overrides = {}) {
   if (test["_ok"]) holder.remove();
   test.end();
 });
-//# sourceMappingURL=termCollection.unit.spec-B7KAAOFT.js.map
+//# sourceMappingURL=termCollection.unit.spec-WE3JMSUI.js.map

package/dist/{termCollectionFractionSelection-A72QM36J.js → termCollectionFractionSelection-5FLFLMIY.js}

@@ -5,9 +5,9 @@ import {
   mayRenderFractionSelection,
   pickCollectionFraction,
   renderFractionSelection
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -35,4 +35,4 @@ export {
   pickCollectionFraction,
   renderFractionSelection
 };
-//# sourceMappingURL=termCollectionFractionSelection-A72QM36J.js.map
+//# sourceMappingURL=termCollectionFractionSelection-5FLFLMIY.js.map

package/dist/{termCollectionFractionSelection.unit.spec-JR77QEIG.js → termCollectionFractionSelection.unit.spec-CCFGGXAA.js}

@@ -4,9 +4,9 @@ import {
 import {
   mayRenderFractionSelection,
   renderFractionSelection
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -181,4 +181,4 @@ function getCollectionTerm(overrides = {}) {
   if (test["_ok"]) holder.remove();
   test.end();
 });
-//# sourceMappingURL=termCollectionFractionSelection.unit.spec-JR77QEIG.js.map
+//# sourceMappingURL=termCollectionFractionSelection.unit.spec-CCFGGXAA.js.map

package/dist/{tk-WV2G2UPY.js → tk-CTHINOMN.js}

@@ -4,7 +4,7 @@ import {
   printCategory,
   rangequery_rglst,
   setLeftlabelsMaxWidth
-} from "./chunk-ZO7KUAIF.js";
+} from "./chunk-TIU2GGWN.js";
 import {
   makeJunctionCustomTerm
 } from "./chunk-FIWVGOSE.js";
@@ -12,19 +12,19 @@ import {
   rehydrateFilter
 } from "./chunk-7NVFEGCE.js";
 import "./chunk-LVFWXUUX.js";
-import "./chunk-46GCGTHJ.js";
+import "./chunk-2BXMWQTJ.js";
 import {
   legend_newrow
-} from "./chunk-72FUMSAN.js";
+} from "./chunk-FYHUHKUC.js";
 import "./chunk-V2OJLJSK.js";
 import "./chunk-4FTH4L3A.js";
 import "./chunk-6UHSGC6G.js";
 import {
   axisstyle,
   table2col
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import {
   Menu
 } from "./chunk-CNFTQSNE.js";
@@ -700,7 +700,7 @@ function showJunctionDiagram(j, tk, holder) {
       holder.text("unknown strand for " + isoform);
       return;
     }
-    import("./spliceevent.noeventdiagram-ORQJ62ON.js").then((p) => {
+    import("./spliceevent.noeventdiagram-G3JQUZKK.js").then((p) => {
       p.samegene({
         isoform,
         reverse: strand == "-",
@@ -710,7 +710,7 @@ function showJunctionDiagram(j, tk, holder) {
     });
     return;
   }
-  import("./spliceevent.noeventdiagram-ORQJ62ON.js").then((p) => {
+  import("./spliceevent.noeventdiagram-G3JQUZKK.js").then((p) => {
     p.differentgenes({
       ongene: j.info,
       holder
@@ -744,7 +744,7 @@ function showEventdiagram_a53ss(j, e, tk, holder, block, isClickMenu) {
   if (isClickMenu) {
     mayGroupSelect(tk, block, j, otherJs, `${e.gene} ${e.isoform} E${e.exon5idx + 1} ${e.type}`, holder);
   }
-  import("./spliceevent.a53ss.diagram-XWEN4UMO.js").then((p) => {
+  import("./spliceevent.a53ss.diagram-6C4OQOVF.js").then((p) => {
     const text = p.default({
       event: e2,
       holder
@@ -829,7 +829,7 @@ function showEventdiagram_skipalt_fetchreadcount(j, e, tk, holder, block, isClic
       holder
     );
   }
-  import("./spliceevent.exonskip.diagram-HBXQOUT4.js").then((p) => {
+  import("./spliceevent.exonskip.diagram-FKSR3JEL.js").then((p) => {
     const [junction2readcounttext, junctionlst] = p.default({
       event: e2,
       holder,
@@ -1070,7 +1070,7 @@ async function initTermdb(tk, block) {
         dslabel: tk.dslabel
       }
     };
-    const _ = await import("./vocabulary-LJEERZJ6.js");
+    const _ = await import("./vocabulary-HTRYJUD7.js");
     tk.vocabApi = _.vocabInit(arg);
     if (!tk.vocabApi.app) {
       tk.vocabApi.app = { opts: { genome: block.genome } };
@@ -1221,4 +1221,4 @@ export {
   getParameter,
   loadTk
 };
-//# sourceMappingURL=tk-WV2G2UPY.js.map
+//# sourceMappingURL=tk-CTHINOMN.js.map

package/dist/{tk-GRGKFATN.js → tk-F3TSB4IB.js}

@@ -1,17 +1,17 @@
 import {
   loadTk,
   rangequery_rglst
-} from "./chunk-ZO7KUAIF.js";
+} from "./chunk-TIU2GGWN.js";
 import "./chunk-7NVFEGCE.js";
 import "./chunk-LVFWXUUX.js";
-import "./chunk-46GCGTHJ.js";
-import "./chunk-72FUMSAN.js";
+import "./chunk-2BXMWQTJ.js";
+import "./chunk-FYHUHKUC.js";
 import "./chunk-V2OJLJSK.js";
 import "./chunk-4FTH4L3A.js";
 import "./chunk-6UHSGC6G.js";
-import "./chunk-YBXQBSFY.js";
+import "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -35,4 +35,4 @@ export {
   loadTk,
   rangequery_rglst
 };
-//# sourceMappingURL=tk-GRGKFATN.js.map
+//# sourceMappingURL=tk-F3TSB4IB.js.map

package/dist/{tp.ui-NATRJ5EN.js → tp.ui-4QDX3FGM.js}

@@ -1,18 +1,18 @@
 import {
   blocklazyload
-} from "./chunk-SORR4JHU.js";
+} from "./chunk-7MEBMH77.js";
 import {
   bulkin,
   content2flag
-} from "./chunk-DXF3YDRG.js";
-import "./chunk-UBTNM5RO.js";
+} from "./chunk-IT7EE7LY.js";
+import "./chunk-VBUDRJJG.js";
 import {
   getsjcharts
 } from "./chunk-MKAF2BHB.js";
 import "./chunk-6UHSGC6G.js";
 import {
   block_init_default
-} from "./chunk-HGIPR72Y.js";
+} from "./chunk-NB4C446B.js";
 import {
   appear2 as appear,
   disappear2 as disappear,
@@ -21,9 +21,9 @@ import {
   font,
   newpane,
   sayerror
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import {
   Menu
 } from "./chunk-CNFTQSNE.js";
@@ -205,7 +205,7 @@ function tp_getgeneexpression(arg) {
           height: 650
         }
       };
-      import("./ep-S4PI4AUJ.js").then((p) => {
+      import("./ep-BZE65IX2.js").then((p) => {
         new p.default(par);
       });
     }
@@ -792,7 +792,7 @@ function tp_gene_default(cohort, ds2clst, butt, folder, defaulthide, host) {
   }
 }
 async function barplot(bars, color, label, pos) {
-  const barplot2 = await import("./plot.barplot-PA2PDVOB.js");
+  const barplot2 = await import("./plot.barplot-4T2UEIYX.js");
   return barplot2.default(bars, color, label, pos);
 }
 
@@ -961,7 +961,7 @@ function tp_e2pca_default(cohort, folder) {
         sayerror(holder, "Error getting vector file: " + data.error);
         return;
       }
-      import("./e2pca-DD6DA7X3.js").then((p) => {
+      import("./e2pca-VJRNE6BU.js").then((p) => {
         const [err, numdata2plot] = p.e2pca_plot({
           holder,
           toprow,
@@ -1052,7 +1052,7 @@ function boxplot4sampleannotation(cohort, obj) {
     });
   }
   obj.boxplotdiv.selectAll("*").remove();
-  import("./plot.boxplot-IHIEWQWG.js").then((p) => {
+  import("./plot.boxplot-C4OXCRFB.js").then((p) => {
     const err = p.default({
       list: samplegroups,
       holder: obj.boxplotdiv,
@@ -1450,4 +1450,4 @@ function cohort2assaytracks(ct) {
 export {
   tpui as default
 };
-//# sourceMappingURL=tp.ui-NATRJ5EN.js.map
+//# sourceMappingURL=tp.ui-4QDX3FGM.js.map

package/dist/{tvs.categorical-U2ZYLPSW.js → tvs.categorical-24OT3XZI.js}

@@ -1,8 +1,8 @@
 import {
   handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -25,4 +25,4 @@ import "./chunk-HS5PO5ZQ.js";
 export {
   handler
 };
-//# sourceMappingURL=tvs.categorical-U2ZYLPSW.js.map
+//# sourceMappingURL=tvs.categorical-24OT3XZI.js.map

package/dist/{tvs.condition-6EBZALR4.js → tvs.condition-X4SXCVGN.js}

@@ -1,8 +1,8 @@
 import {
   escapeHtml
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -157,4 +157,4 @@ function validateConditionTvs(tvs) {
 export {
   handler
 };
-//# sourceMappingURL=tvs.condition-6EBZALR4.js.map
+//# sourceMappingURL=tvs.condition-X4SXCVGN.js.map

package/dist/{tvs.dt-H626ESMQ.js → tvs.dt-FRBJRSWI.js}

@@ -3,9 +3,9 @@ import {
   getTvsByOrigin,
   getTvsOrigins,
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -31,4 +31,4 @@ export {
   getTvsOrigins,
   handler
 };
-//# sourceMappingURL=tvs.dt-H626ESMQ.js.map
+//# sourceMappingURL=tvs.dt-FRBJRSWI.js.map

package/dist/{tvs.dtcnv.categorical-6S7INDYC.js → tvs.dtcnv.categorical-4RRSO735.js}

@@ -1,8 +1,8 @@
 import {
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -28,4 +28,4 @@ var handler2 = Object.assign({}, handler, { type: "dtcnv" });
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtcnv.categorical-6S7INDYC.js.map
+//# sourceMappingURL=tvs.dtcnv.categorical-4RRSO735.js.map

package/dist/{tvs.dtcnv.continuous-MLYNEMHI.js → tvs.dtcnv.continuous-HXY2PBUA.js}

@@ -4,9 +4,9 @@ import {
   getTvsOrigins,
   handler2 as handler,
   renderCnvConfig
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -69,4 +69,4 @@ function get_pill_label(tvs, self) {
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtcnv.continuous-MLYNEMHI.js.map
+//# sourceMappingURL=tvs.dtcnv.continuous-HXY2PBUA.js.map

package/dist/{tvs.dtfusion-2OLY6X7G.js → tvs.dtfusion-67LXBQA4.js}

@@ -1,8 +1,8 @@
 import {
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -28,4 +28,4 @@ var handler2 = Object.assign({}, handler, { type: "dtfusion" });
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtfusion-2OLY6X7G.js.map
+//# sourceMappingURL=tvs.dtfusion-67LXBQA4.js.map

package/dist/{tvs.dtitd-Z6MEL5SH.js → tvs.dtitd-MCJZCNV2.js}

@@ -1,8 +1,8 @@
 import {
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -28,4 +28,4 @@ var handler2 = Object.assign({}, handler, { type: "dtitd" });
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtitd-Z6MEL5SH.js.map
+//# sourceMappingURL=tvs.dtitd-MCJZCNV2.js.map

package/dist/{tvs.dtsnvindel-HPBQSCYV.js → tvs.dtsnvindel-K5YIIBQJ.js}

@@ -1,8 +1,8 @@
 import {
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -28,4 +28,4 @@ var handler2 = Object.assign({}, handler, { type: "dtsnvindel" });
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtsnvindel-HPBQSCYV.js.map
+//# sourceMappingURL=tvs.dtsnvindel-K5YIIBQJ.js.map

package/dist/{tvs.dtsv-BRRNX64J.js → tvs.dtsv-RP7FUB2N.js}

@@ -1,8 +1,8 @@
 import {
   handler2 as handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -28,4 +28,4 @@ var handler2 = Object.assign({}, handler, { type: "dtsv" });
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.dtsv-BRRNX64J.js.map
+//# sourceMappingURL=tvs.dtsv-RP7FUB2N.js.map

package/dist/{tvs.multivalue-H2G7WKAL.js → tvs.multivalue-CROMWUCP.js}

@@ -1,8 +1,8 @@
 import {
   handler
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -81,4 +81,4 @@ function validateMultivalueTvs(tvs) {
 export {
   handler2 as handler
 };
-//# sourceMappingURL=tvs.multivalue-H2G7WKAL.js.map
+//# sourceMappingURL=tvs.multivalue-CROMWUCP.js.map

package/dist/{tvs.numeric-OKYGMQSK.js → tvs.numeric-IYYYV6ZJ.js}

@@ -1,11 +1,11 @@
 import {
   format_val_text,
   handler
-} from "./chunk-J37WYVIZ.js";
+} from "./chunk-W3K3N275.js";
 import "./chunk-OZUF7O2S.js";
-import "./chunk-YBXQBSFY.js";
+import "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -29,4 +29,4 @@ export {
   format_val_text,
   handler
 };
-//# sourceMappingURL=tvs.numeric-OKYGMQSK.js.map
+//# sourceMappingURL=tvs.numeric-IYYYV6ZJ.js.map

package/dist/{tvs.samplelst-46FGACU7.js → tvs.samplelst-5DXKRFYM.js}

@@ -1,9 +1,9 @@
 import {
   escapeHtml,
   renderTable
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -92,4 +92,4 @@ export {
   addTable,
   handler
 };
-//# sourceMappingURL=tvs.samplelst-46FGACU7.js.map
+//# sourceMappingURL=tvs.samplelst-5DXKRFYM.js.map

package/dist/{tvs.survival-QL4KC3SQ.js → tvs.survival-W5RXODBT.js}

@@ -1,8 +1,8 @@
 import {
   escapeHtml
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -107,4 +107,4 @@ function validateCategoricalTvs(tvs) {
 export {
   handler
 };
-//# sourceMappingURL=tvs.survival-QL4KC3SQ.js.map
+//# sourceMappingURL=tvs.survival-W5RXODBT.js.map

package/dist/{tvs.termCollection-22DFW3PF.js → tvs.termCollection-OSJYIWDX.js}

@@ -1,12 +1,12 @@
 import {
   format_val_text
-} from "./chunk-J37WYVIZ.js";
+} from "./chunk-W3K3N275.js";
 import "./chunk-OZUF7O2S.js";
 import {
   renderFractionSelection
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -115,4 +115,4 @@ export {
   addFilterTable,
   handler
 };
-//# sourceMappingURL=tvs.termCollection-22DFW3PF.js.map
+//# sourceMappingURL=tvs.termCollection-OSJYIWDX.js.map

package/dist/{vocabulary-LJEERZJ6.js → vocabulary-HTRYJUD7.js}

@@ -2,9 +2,9 @@ import {
   getVocabFromSamplesArray,
   q_to_param,
   vocabInit
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import "./chunk-CNFTQSNE.js";
 import "./chunk-DOC3HBOV.js";
 import "./chunk-TVJOSRCH.js";
@@ -29,4 +29,4 @@ export {
   q_to_param,
   vocabInit
 };
-//# sourceMappingURL=vocabulary-LJEERZJ6.js.map
+//# sourceMappingURL=vocabulary-HTRYJUD7.js.map

package/dist/{wsi.direct-3GGVEVQ4.js → wsi.direct-UHVG525G.js}

@@ -154,9 +154,9 @@ import {
   ColorScale,
   renderTable,
   sayerror
-} from "./chunk-YBXQBSFY.js";
+} from "./chunk-CXCAQOFB.js";
 import "./chunk-HJ6L54YS.js";
-import "./chunk-QKVKQD6S.js";
+import "./chunk-ILAYJZBC.js";
 import {
   Menu
 } from "./chunk-CNFTQSNE.js";
@@ -11597,4 +11597,4 @@ export {
   tooltipRows,
   viewBboxUm
 };
-//# sourceMappingURL=wsi.direct-3GGVEVQ4.js.map
+//# sourceMappingURL=wsi.direct-UHVG525G.js.map

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sjcrh/proteinpaint-client",
-  "version": "2.227.0",
+  "version": "2.227.1",
   "description": "a genomics visualization tool for exploring a cohort's genotype and phenotype data",
   "type": "module",
   "main": "dist/app.js",

package/dist/chunk-PVJ6IIFA.js.map

@@ -1,7 +0,0 @@
-{
-  "version": 3,
-  "sources": ["../plots/disco/launch.adhoc.ts"],
-  "sourcesContent": ["import type { Genome } from '#types'\nimport type { Selection } from 'd3-selection'\nimport { appInit } from '../plot.app'\nimport { showErrorsWithCounter } from '../../dom/sayerror'\nimport { mclass } from '#shared/common.js'\n\ntype SnvEntry = {\n\tdt: 1\n\tchr: string\n\tposition: number\n\tgene: string\n\tmname: string\n\tclass: string\n\tvafs?: Array<{ id: string; totalCount: number; altCount: number }>\n}\ntype CnvEntry = {\n\tdt: 4\n\tchr: string\n\tstart: number\n\tstop: number\n\tvalue: number\n}\ntype SvEntry4Cols = {\n\tdt: number\n\tchrA: string\n\tposA: number\n\tchrB: string\n\tposB: number\n}\n\ntype SvEntry6Cols = {\n\tdt: number\n\tchrA: string\n\tposA: number\n\tgeneA: string\n\tchrB: string\n\tposB: number\n\tgeneB: string\n}\n\ntype SvEntry = SvEntry4Cols | SvEntry6Cols\n\ntype MutationListEntry = SnvEntry | CnvEntry | SvEntry\n\n/** When disco is embedded, the arguments below are nested under arg.disco */\nexport type DiscoPlotArgs = {\n\t/**optional array of preparsed mutation events, from runpp() */\n\tmlst?: MutationListEntry[]\n\n\t/**tabular text of snv data, with follow columns.\n\t1. chr\n\t2. position\n\t3. gene\n\t4. aachange\n\t5. class\n\tOptionally, provide DNA total/alt read counts in columns 6-7 and RNA total/alt \n\tread counts in columns 8-9.\n\teach line is parsed into an object:\n\t{dt:1, chr:, position:, gene:, class:} */\n\tsnvText?: string\n\t/**tp path to a text file of same content as snvText */\n\tsnvFile?: string\n\t/**url of a text file of same content as snvText */\n\tsnvUrl?: string\n\n\t/**tabular text of sv/fusion data, with follow columns\n\t1. chrA\n\t2. posA\n\t3. geneA\n\t4. chrB\n\t5. posB\n\t6. geneB\n\teach line is parsed into an object:\n\t{dt:2, chrA, posA, geneA, chrB, posB, geneB} */\n\tsvText?: string\n\tsvFile?: string\n\tsvUrl?: string\n\n\t/**tabular text of cnv data, with following columns\n\t1. chr\n\t2. start\n\t3. stop\n\t4. value\n\teach line is parsed into an object\n\t{chr, start, stop, value} */\n\tcnvText?: string\n\tcnvFile?: string\n\tcnvUrl?: string\n\tsettings?: any\n}\n\n//... more datatypes can be added later\n\n/**\n * parse input data into mlst[] and pass to disco\n * TODO display data error on ui\n * TODO later make this script a native part of disco, so that runpp() directly invokes plot.app.js...\n * @param arg\n * @param genomeObj\n * @param holder\n * @returns\n */\n\nexport async function launch(arg: DiscoPlotArgs, genomeObj: Genome, holder: Selection<HTMLDivElement, any, any, any>) {\n\tconst [mlst, errors] = await getMlst(arg)\n\n\tif (errors?.length) {\n\t\treturn showErrorsWithCounter(errors, holder)\n\t}\n\n\tconst opts = {\n\t\tholder,\n\t\tvocabApi: {\n\t\t\t// api is required by plot.app.js, so create a mock one for the adhoc data\n\t\t\tvocab: { terms: [] },\n\t\t\tmain: () => {\n\t\t\t\treturn //fix so linter doesn't yell while this is in development\n\t\t\t},\n\t\t\tgetTermdbConfig: () => {\n\t\t\t\treturn {}\n\t\t\t}\n\t\t},\n\t\tstate: {\n\t\t\targs: {\n\t\t\t\tdata: mlst,\n\t\t\t\tgenome: genomeObj\n\t\t\t},\n\t\t\tplots: [\n\t\t\t\t{\n\t\t\t\t\tchartType: 'Disco',\n\t\t\t\t\tsubfolder: 'disco',\n\t\t\t\t\textension: 'ts',\n\t\t\t\t\t/** NOTE: Users should only override the settings in the default\n\t\t\t\t\t * settings.Disco:{}, not the entire settings:{} object.*/\n\t\t\t\t\toverrides: { Disco: arg?.settings || {} }\n\t\t\t\t}\n\t\t\t]\n\t\t}\n\t}\n\n\tconst plotAppApi = await appInit(opts)\n\treturn plotAppApi\n}\n\n/**\n * from multiple possible data sources, parse mutation events and put everything into one array and return, for disco rendering\n * app drawer will supply data for \"snvText, svText, cnvText\"\n * while the \"File\" and \"Url\" can come from url parameters e.g. host?disco=1&snvFile=path/to/file\n * @param arg\n * @returns\n */\nasync function getMlst(arg: DiscoPlotArgs): Promise<[MutationListEntry[], string[] | null]> {\n\tif (Array.isArray(arg.mlst)) {\n\t\t// has preformatted in runpp()\n\t\treturn [arg.mlst, null]\n\t}\n\n\t// parse data from text and files and append to one mlst[] array\n\tconst mlst = [] as MutationListEntry[]\n\tconst errors = [] as string[]\n\n\tif (arg.snvText) parseSnvText(arg.snvText, mlst, errors)\n\tif (arg.svText) parseSvText(arg.svText, mlst, errors)\n\tif (arg.cnvText) parseCnvText(arg.cnvText, mlst, errors)\n\n\t// if (arg.snvFile) {\n\t// }\n\t// if (arg.snvUrl) {\n\t// }\n\t// if (arg.svFile) {\n\t// }\n\t// if (arg.svUrl) {\n\t// }\n\t// if (arg.cnvFile) {\n\t// }\n\t// if (arg.cnvUrl) {\n\t// }\n\n\treturn [mlst, errors]\n}\n\nfunction parseSnvText(text: string, mlst: MutationListEntry[], errors: string[]) {\n\t// TODO share a parser for snvindel text file with samples (with header line and non-fixed columns), but should not require sample here\n\tfor (const line of text.trim().split('\\n')) {\n\t\tconst l = line.trim().split('\\t')\n\n\t\tif (![5, 7, 9].includes(l.length)) {\n\t\t\terrors.push('snv input not equal to 5, 7, or 9 columns')\n\t\t\tcontinue\n\t\t}\n\n\t\tlet m: SnvEntry\n\t\ttry {\n\t\t\tm = {\n\t\t\t\tdt: 1,\n\t\t\t\tchr: l[0],\n\t\t\t\tposition: Number(l[1]),\n\t\t\t\tgene: l[2],\n\t\t\t\tmname: l[3],\n\t\t\t\tclass: validateMutation(l[4], errors)\n\t\t\t}\n\t\t\tconst vafs = parseOptionalVafs(l, errors)\n\t\t\tif (vafs.length) m.vafs = vafs\n\t\t} catch (e: any) {\n\t\t\terrors.push(e)\n\t\t\tcontinue\n\t\t}\n\t\tmlst.push(m)\n\t}\n}\n\nfunction parseOptionalVafs(line: string[], errors: string[]) {\n\tconst vafs: Array<{ id: string; totalCount: number; altCount: number }> = []\n\tconst addVaf = (id: string, totalIndex: number, altIndex: number) => {\n\t\tif (line.length <= altIndex) return\n\t\tconst totalCount = Number(line[totalIndex])\n\t\tconst altCount = Number(line[altIndex])\n\t\tif (\n\t\t\t!Number.isInteger(totalCount) ||\n\t\t\t!Number.isInteger(altCount) ||\n\t\t\ttotalCount <= 0 ||\n\t\t\taltCount < 0 ||\n\t\t\taltCount > totalCount\n\t\t) {\n\t\t\terrors.push(`${id} total/alt counts must be integers with total > 0, alt >= 0, and alt cannot exceed total`)\n\t\t\treturn\n\t\t}\n\n\t\tvafs.push({ id, totalCount, altCount })\n\t}\n\n\taddVaf('DNA', 5, 6)\n\taddVaf('RNA', 7, 8)\n\treturn vafs\n}\n\nfunction parseSvText(text: string, mlst: MutationListEntry[], errors: string[]) {\n\tfor (const line of text.trim().split('\\n')) {\n\t\tconst l = line.trim().split('\\t')\n\t\tif (l.length < 4 || l.length > 6) {\n\t\t\terrors.push('sv input not equal to 4 or 6 columns')\n\t\t\tcontinue\n\t\t}\n\t\tlet m: SvEntry\n\t\ttry {\n\t\t\tconst length: number = l.length\n\t\t\tif (length == 4) {\n\t\t\t\tm = {\n\t\t\t\t\tdt: 2,\n\t\t\t\t\tchrA: l[0],\n\t\t\t\t\tposA: Number(l[1]),\n\t\t\t\t\tchrB: l[2],\n\t\t\t\t\tposB: Number(l[3])\n\t\t\t\t}\n\t\t\t} else {\n\t\t\t\tm = {\n\t\t\t\t\tdt: 2,\n\t\t\t\t\tchrA: l[0],\n\t\t\t\t\tposA: Number(l[1]),\n\t\t\t\t\tgeneA: l[2],\n\t\t\t\t\tchrB: l[3],\n\t\t\t\t\tposB: Number(l[4]),\n\t\t\t\t\tgeneB: l[5]\n\t\t\t\t}\n\t\t\t}\n\t\t} catch (e: any) {\n\t\t\terrors.push(e)\n\t\t\tcontinue\n\t\t}\n\t\tmlst.push(m)\n\t}\n}\n\nfunction parseCnvText(text: string, mlst: MutationListEntry[], errors: string[]) {\n\tfor (const line of text.trim().split('\\n')) {\n\t\tconst l = line.trim().split('\\t')\n\t\tif (l.length != 4) {\n\t\t\terrors.push('cnv input not equal to 4 columns')\n\t\t\tcontinue\n\t\t}\n\t\tlet m: CnvEntry\n\t\ttry {\n\t\t\tm = {\n\t\t\t\tdt: 4,\n\t\t\t\tchr: l[0],\n\t\t\t\tstart: Number(l[1]),\n\t\t\t\tstop: Number(l[2]),\n\t\t\t\tvalue: Number(l[3])\n\t\t\t}\n\t\t} catch (e: any) {\n\t\t\terrors.push(e)\n\t\t\tcontinue\n\t\t}\n\t\tmlst.push(m)\n\t}\n}\n\nfunction validateMutation(mutation: string, errors: string[]) {\n\tconst mut2check = mutation.toLowerCase()\n\tconst foundMutation = Object.values(mclass).find(\n\t\t(m: any) => m.key.toLowerCase() === mut2check || m.label.toLowerCase() === mut2check\n\t) as any\n\tif (foundMutation) {\n\t\treturn foundMutation.key\n\t} else {\n\t\terrors.push(`Invalid mutation class: ${mutation}`)\n\t}\n}\n"],
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