jbrowse-plugin-msaview 5.6.0 → 5.8.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/MsaViewPanel/model.d.ts +79 -43
- package/dist/chunks/{AboutDialog-HCCCEJ6V.js → AboutDialog-N23GOSSA.js} +2 -2
- package/dist/chunks/{AboutDialog-HCCCEJ6V.js.map → AboutDialog-N23GOSSA.js.map} +1 -1
- package/dist/chunks/AnnotationFileDialog-FVQNLVEU.js +2 -0
- package/dist/chunks/AnnotationFileDialog-FVQNLVEU.js.map +7 -0
- package/dist/chunks/{ExportSVGDialog-YUFLYBYW.js → ExportSVGDialog-3SA6HFZB.js} +2 -2
- package/dist/chunks/{ExportSVGDialog-YUFLYBYW.js.map → ExportSVGDialog-3SA6HFZB.js.map} +1 -1
- package/dist/chunks/{FeatureDialog-NBDB5SWU.js → FeatureDialog-LSD37OFH.js} +2 -2
- package/dist/chunks/{FeatureDialog-NBDB5SWU.js.map → FeatureDialog-LSD37OFH.js.map} +3 -3
- package/dist/chunks/GapThresholdDialog-TD527ERL.js +2 -0
- package/dist/chunks/GapThresholdDialog-TD527ERL.js.map +7 -0
- package/dist/chunks/GoToDialog-M5ICFHVT.js +2 -0
- package/dist/chunks/GoToDialog-M5ICFHVT.js.map +7 -0
- package/dist/chunks/{HelpDialog-UCUYPCOI.js → HelpDialog-KB7HMUOR.js} +2 -2
- package/dist/chunks/{HelpDialog-UCUYPCOI.js.map → HelpDialog-KB7HMUOR.js.map} +1 -1
- package/dist/chunks/{LaunchMsaViewDialog-BG4MX2BW.js → LaunchMsaViewDialog-GR4BB3W2.js} +2 -2
- package/dist/chunks/{LaunchMsaViewDialog-BG4MX2BW.js.map → LaunchMsaViewDialog-GR4BB3W2.js.map} +1 -1
- package/dist/chunks/MetadataDialog-CM2V36UG.js +2 -0
- package/dist/chunks/MetadataDialog-CM2V36UG.js.map +7 -0
- package/dist/chunks/MsaViewPanel-YVMUOMSJ.js +2 -0
- package/dist/chunks/{MsaViewPanel-XSXFJWWY.js.map → MsaViewPanel-YVMUOMSJ.js.map} +1 -1
- package/dist/chunks/{TrackInfoDialog-YXCIGFYM.js → TrackInfoDialog-KAER67NZ.js} +2 -2
- package/dist/chunks/{TrackInfoDialog-YXCIGFYM.js.map → TrackInfoDialog-KAER67NZ.js.map} +1 -1
- package/dist/chunks/TreeNodeInfoDialog-G4NOFRUB.js +2 -0
- package/dist/chunks/{TreeNodeInfoDialog-QCWDJTM4.js.map → TreeNodeInfoDialog-G4NOFRUB.js.map} +2 -2
- package/dist/chunks/chunk-6GRHBYHB.js +6 -0
- package/dist/chunks/chunk-6GRHBYHB.js.map +7 -0
- package/dist/chunks/chunk-7ZQPYLN2.js +2 -0
- package/dist/chunks/chunk-7ZQPYLN2.js.map +7 -0
- package/dist/chunks/chunk-A6AI2XFP.js +2 -0
- package/dist/chunks/chunk-A6AI2XFP.js.map +7 -0
- package/dist/chunks/chunk-BICRHYID.js +164 -0
- package/dist/chunks/chunk-BICRHYID.js.map +7 -0
- package/dist/chunks/chunk-CH7JHGQF.js +2 -0
- package/dist/chunks/chunk-CH7JHGQF.js.map +7 -0
- package/dist/chunks/{chunk-35FWLG3N.js → chunk-DN4LFP5T.js} +1 -1
- package/dist/chunks/{chunk-35FWLG3N.js.map → chunk-DN4LFP5T.js.map} +1 -1
- package/dist/chunks/{chunk-5OSSOQH4.js → chunk-DXB6E5M4.js} +1 -1
- package/dist/chunks/{chunk-5OSSOQH4.js.map → chunk-DXB6E5M4.js.map} +1 -1
- package/dist/chunks/{chunk-4TEPHD3L.js → chunk-DYDEKAIN.js} +2 -2
- package/dist/chunks/{chunk-KSCGTF4R.js → chunk-EKTRLQV7.js} +2 -2
- package/dist/chunks/chunk-J2OCCRDG.js +6 -0
- package/dist/chunks/chunk-J2OCCRDG.js.map +7 -0
- package/dist/chunks/chunk-K55ZVN73.js +5 -0
- package/dist/chunks/chunk-K55ZVN73.js.map +7 -0
- package/dist/chunks/chunk-KYQ2SO7B.js +2 -0
- package/dist/chunks/{chunk-QQKPT6EL.js.map → chunk-KYQ2SO7B.js.map} +1 -1
- package/dist/chunks/{chunk-NLAW2OYS.js → chunk-M2AAIXY5.js} +2 -2
- package/dist/chunks/{chunk-AQ2THRTR.js → chunk-QWXSEUZI.js} +2 -2
- package/dist/chunks/{chunk-GAY2PLS6.js → chunk-RFKEQQMZ.js} +1 -1
- package/dist/chunks/{chunk-GAY2PLS6.js.map → chunk-RFKEQQMZ.js.map} +1 -1
- package/dist/chunks/chunk-SYZYE3AS.js +2 -0
- package/dist/chunks/chunk-SYZYE3AS.js.map +7 -0
- package/dist/chunks/chunk-WNIBTLFE.js +2 -0
- package/dist/chunks/{chunk-XTQQNBQ5.js.map → chunk-WNIBTLFE.js.map} +2 -2
- package/dist/chunks/chunk-XZBGVA3Q.js +8 -0
- package/dist/chunks/chunk-XZBGVA3Q.js.map +7 -0
- package/dist/chunks/{chunk-666BV764.js → chunk-YLUFN5D7.js} +2 -2
- package/dist/chunks/{chunk-666BV764.js.map → chunk-YLUFN5D7.js.map} +1 -1
- package/dist/chunks/dist-OFRIFLPB.js +2 -0
- package/dist/chunks/{dist-GXYZN4ZR.js → dist-QVW6GF25.js} +1 -1
- package/dist/chunks/{dist-GXYZN4ZR.js.map → dist-QVW6GF25.js.map} +1 -1
- package/dist/chunks/{model-SEEQQSQO.js → model-GRN6F5EO.js} +2 -2
- package/dist/chunks/{model-SEEQQSQO.js.map → model-GRN6F5EO.js.map} +1 -1
- package/dist/chunks/{renderToSvg-5DMIQ72S.js → renderToSvg-DDCUEDRY.js} +2 -2
- package/dist/jbrowse-plugin-msaview.esm.js +2 -2
- package/dist/jbrowse-plugin-msaview.esm.js.map +1 -1
- package/dist/version.d.ts +1 -1
- package/dist/version.js +1 -1
- package/package.json +2 -2
- package/src/version.ts +1 -1
- package/dist/chunks/AnnotationFileDialog-CPJ4X7XW.js +0 -2
- package/dist/chunks/AnnotationFileDialog-CPJ4X7XW.js.map +0 -7
- package/dist/chunks/MetadataDialog-DSA3545E.js +0 -2
- package/dist/chunks/MetadataDialog-DSA3545E.js.map +0 -7
- package/dist/chunks/MsaViewPanel-XSXFJWWY.js +0 -2
- package/dist/chunks/TreeNodeInfoDialog-QCWDJTM4.js +0 -2
- package/dist/chunks/chunk-ASUKJX5J.js +0 -2
- package/dist/chunks/chunk-ASUKJX5J.js.map +0 -7
- package/dist/chunks/chunk-F726IWCW.js +0 -2
- package/dist/chunks/chunk-F726IWCW.js.map +0 -7
- package/dist/chunks/chunk-FFHB7WP7.js +0 -18
- package/dist/chunks/chunk-FFHB7WP7.js.map +0 -7
- package/dist/chunks/chunk-JDQUBCHM.js +0 -2
- package/dist/chunks/chunk-JDQUBCHM.js.map +0 -7
- package/dist/chunks/chunk-QQKPT6EL.js +0 -2
- package/dist/chunks/chunk-WMDOEOAH.js +0 -6
- package/dist/chunks/chunk-WMDOEOAH.js.map +0 -7
- package/dist/chunks/chunk-XTQQNBQ5.js +0 -2
- package/dist/chunks/chunk-XXCNVFGP.js +0 -11
- package/dist/chunks/chunk-XXCNVFGP.js.map +0 -7
- package/dist/chunks/chunk-ZQSWX57C.js +0 -2
- package/dist/chunks/chunk-ZQSWX57C.js.map +0 -7
- package/dist/chunks/dist-GZKCGB2N.js +0 -2
- /package/dist/chunks/{chunk-4TEPHD3L.js.map → chunk-DYDEKAIN.js.map} +0 -0
- /package/dist/chunks/{chunk-KSCGTF4R.js.map → chunk-EKTRLQV7.js.map} +0 -0
- /package/dist/chunks/{chunk-NLAW2OYS.js.map → chunk-M2AAIXY5.js.map} +0 -0
- /package/dist/chunks/{chunk-AQ2THRTR.js.map → chunk-QWXSEUZI.js.map} +0 -0
- /package/dist/chunks/{dist-GZKCGB2N.js.map → dist-OFRIFLPB.js.map} +0 -0
- /package/dist/chunks/{renderToSvg-5DMIQ72S.js.map → renderToSvg-DDCUEDRY.js.map} +0 -0
|
@@ -112,7 +112,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
112
112
|
id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
113
113
|
displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
114
114
|
minimized: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
115
|
-
}, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "drawMsaLetters" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & Omit<Omit<Omit<{}, "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "treeAreaWidth" | "treeOrder" | "treeWidth"> & {
|
|
115
|
+
}, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "showTreeScaleBar" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "domainFill" | "drawMsaLetters" | "embeddedMode" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & Omit<Omit<Omit<{}, "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "showTreeScaleBar" | "treeAreaWidth" | "treeOrder" | "treeWidth"> & {
|
|
116
116
|
drawLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
117
117
|
labelsAlignRight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
118
118
|
treeAreaWidth: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<number>>;
|
|
@@ -123,22 +123,25 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
123
123
|
drawNodeBubbles: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
124
124
|
drawNodeLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
125
125
|
showTreeOverview: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
126
|
+
showTreeScaleBar: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
126
127
|
overviewHeight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
127
128
|
}, "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats"> & {
|
|
128
129
|
bgColor: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
129
130
|
colorSchemeName: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
130
131
|
customColorScheme: import("@jbrowse/mobx-state-tree").IType<Record<string, string> | undefined, Record<string, string> | undefined, Record<string, string> | undefined>;
|
|
131
132
|
showColumnStats: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
132
|
-
msaFormat: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<import("
|
|
133
|
-
}, "id" | "type" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "drawMsaLetters" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & {
|
|
133
|
+
msaFormat: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<import("react-msaview").MSAFormat>>;
|
|
134
|
+
}, "id" | "type" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "domainFill" | "drawMsaLetters" | "embeddedMode" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & {
|
|
134
135
|
id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
135
136
|
showDomains: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
137
|
+
domainFill: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
136
138
|
showDomainLegend: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
137
139
|
hideGaps: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
138
140
|
allowedGappyness: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
139
141
|
subFeatureRows: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
140
142
|
type: import("@jbrowse/mobx-state-tree").ILiteralType<"MsaView">;
|
|
141
143
|
drawMsaLetters: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
144
|
+
embeddedMode: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
142
145
|
scrollZoom: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
143
146
|
scrollZoomAxis: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<"both" | "horizontal" | "vertical">, [undefined]>;
|
|
144
147
|
height: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
@@ -473,7 +476,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
473
476
|
showOnly: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
474
477
|
turnedOffTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>, [undefined]>;
|
|
475
478
|
trackHeights: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<number>>, [undefined]>;
|
|
476
|
-
columnTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec>>, [undefined]>;
|
|
479
|
+
columnTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec>, import("react-msaview").ColumnTrackSpec, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
477
480
|
residueMappings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ResidueMapping, import("react-msaview").ResidueMapping, import("react-msaview").ResidueMapping>>, [undefined]>;
|
|
478
481
|
data: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
|
|
479
482
|
tree: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
@@ -496,9 +499,9 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
496
499
|
selection: import("@jbrowse/mobx-state-tree").IType<import("react-msaview").MsaSelection | undefined, import("react-msaview").MsaSelection | undefined, import("react-msaview").MsaSelection | undefined>;
|
|
497
500
|
region: import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Region | undefined, import("react-msaview").Region | undefined, import("react-msaview").Region | undefined>;
|
|
498
501
|
clades: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Clade, import("react-msaview").Clade, import("react-msaview").Clade>>, [undefined]>;
|
|
499
|
-
encodings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Encoding, import("react-msaview").Encoding, import("react-msaview").Encoding>>, [undefined]>;
|
|
500
|
-
rowPanels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec>>, [undefined]>;
|
|
501
|
-
}, "init" | "querySeqName" | "
|
|
502
|
+
encodings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Encoding, import("react-msaview").Encoding, import("react-msaview").Encoding>, import("react-msaview").Encoding | import("react-msaview").LegacyEncoding, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
503
|
+
rowPanels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec>, import("react-msaview").LegacyRowPanel | import("react-msaview").RowPanelSpec, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
504
|
+
}, "init" | "querySeqName" | "embeddedMode" | "launchCompleted" | "connectedViewId" | "connectedFeature" | "connectedTranscript" | "blastParams" | "orthologParams" | "querySeqOffset" | "uniprotId" | "zoomToBaseLevel" | "dataStoreId" | "mafRegion" | "domainsOnGenome"> & {
|
|
502
505
|
connectedViewId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
503
506
|
connectedFeature: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
|
|
504
507
|
connectedTranscript: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
@@ -546,15 +549,21 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
546
549
|
setDrawNodeBubbles(arg: boolean): void;
|
|
547
550
|
setDrawNodeLabels(arg: boolean): void;
|
|
548
551
|
setShowTreeOverview(arg: boolean): void;
|
|
552
|
+
setShowTreeScaleBar(arg: boolean): void;
|
|
549
553
|
setDrawLabels(arg: boolean): void;
|
|
550
554
|
} & {
|
|
551
555
|
setColorSchemeName(name: string): void;
|
|
552
556
|
setCustomColorScheme(map?: Record<string, string>): void;
|
|
553
557
|
setBgColor(arg: boolean): void;
|
|
554
558
|
setShowColumnStats(arg: boolean): void;
|
|
555
|
-
setMSAFormat(arg?: import("
|
|
559
|
+
setMSAFormat(arg?: import("react-msaview").MSAFormat): void;
|
|
556
560
|
} & {
|
|
557
561
|
headerHeight: number;
|
|
562
|
+
settingsOpen: boolean;
|
|
563
|
+
zoomHeld: {
|
|
564
|
+
col: number;
|
|
565
|
+
row: number;
|
|
566
|
+
};
|
|
558
567
|
hideHeader: boolean;
|
|
559
568
|
importForm: boolean;
|
|
560
569
|
status: {
|
|
@@ -562,6 +571,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
562
571
|
onCancel?: () => void;
|
|
563
572
|
} | undefined;
|
|
564
573
|
highResScaleFactor: number;
|
|
574
|
+
zoomSnapshot: import("react-msaview").ZoomSnapshot | undefined;
|
|
565
575
|
loadingMSA: boolean;
|
|
566
576
|
loadingTree: boolean;
|
|
567
577
|
volatileWidth: number | undefined;
|
|
@@ -584,7 +594,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
584
594
|
dismissedWarnings: string[];
|
|
585
595
|
resetCount: number;
|
|
586
596
|
hostCarriesData: boolean;
|
|
587
|
-
annotations: import("
|
|
597
|
+
annotations: import("react-msaview").Annotation[];
|
|
588
598
|
} & {
|
|
589
599
|
drawRelativeTo(id: string | undefined): void;
|
|
590
600
|
setHideGaps(arg: boolean): void;
|
|
@@ -592,6 +602,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
592
602
|
setLoadingMSA(arg: boolean): void;
|
|
593
603
|
setLoadingTree(arg: boolean): void;
|
|
594
604
|
setWidth(arg: number): void;
|
|
605
|
+
setSettingsOpen(arg: boolean): void;
|
|
595
606
|
setHighResScaleFactor(arg: number): void;
|
|
596
607
|
setHeight(height: number): void;
|
|
597
608
|
setError(error?: unknown): void;
|
|
@@ -608,6 +619,8 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
608
619
|
applyHighlight(owner: string, highlights: import("react-msaview").Highlight[]): void;
|
|
609
620
|
clearHighlight(owner: string): void;
|
|
610
621
|
setShowDomains(arg: boolean): void;
|
|
622
|
+
setDomainFill(arg: boolean): void;
|
|
623
|
+
setCellFill(mode: "residue" | "domain" | "none"): void;
|
|
611
624
|
setShowDomainLegend(arg: boolean): void;
|
|
612
625
|
setSubFeatureRows(arg: boolean): void;
|
|
613
626
|
setMouseClickPos(col?: number, row?: number): void;
|
|
@@ -635,8 +648,6 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
635
648
|
setGFF(result?: string): void;
|
|
636
649
|
} & {
|
|
637
650
|
readonly hideGapsEffective: boolean;
|
|
638
|
-
readonly allAnnotations: import("msa-parsers").Annotation[];
|
|
639
|
-
readonly actuallyShowDomains: boolean;
|
|
640
651
|
readonly hostRestoresData: boolean;
|
|
641
652
|
readonly viewInitialized: boolean;
|
|
642
653
|
readonly width: number;
|
|
@@ -663,7 +674,9 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
663
674
|
readonly rowData: Record<string, Record<string, string> | undefined>;
|
|
664
675
|
rowDataOf(name: string): Record<string, string> | undefined;
|
|
665
676
|
readonly rowFields: string[];
|
|
666
|
-
readonly MSA: import("
|
|
677
|
+
readonly MSA: import("react-msaview").MSAParserType | null;
|
|
678
|
+
readonly allAnnotations: import("react-msaview").Annotation[];
|
|
679
|
+
readonly actuallyShowDomains: boolean;
|
|
667
680
|
readonly numColumns: number;
|
|
668
681
|
readonly inputTree: import("react-msaview").NodeWithIds;
|
|
669
682
|
readonly tree: import("react-msaview").NodeWithIds;
|
|
@@ -727,6 +740,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
727
740
|
color: string | undefined;
|
|
728
741
|
}[];
|
|
729
742
|
readonly colClustalX: Record<string, string>[];
|
|
743
|
+
readonly colSimilarity: Record<string, string>[];
|
|
730
744
|
readonly conservation: number[];
|
|
731
745
|
readonly alphabetMaxBits: number;
|
|
732
746
|
readonly propertyConservation: number[];
|
|
@@ -762,6 +776,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
762
776
|
readonly adapterTrackModels: import("react-msaview").BasicTrack[];
|
|
763
777
|
readonly basePairTrackModels: import("react-msaview").BasicTrack[];
|
|
764
778
|
readonly computedTrackModels: import("react-msaview").BasicTrack[];
|
|
779
|
+
readonly referenceTrackModels: import("react-msaview").BasicTrack[];
|
|
765
780
|
readonly tracks: import("react-msaview").BasicTrack[];
|
|
766
781
|
readonly turnedOnTracks: import("react-msaview").BasicTrack[];
|
|
767
782
|
readonly showHorizontalScrollbar: boolean;
|
|
@@ -794,9 +809,12 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
794
809
|
readonly topBandHeight: number;
|
|
795
810
|
readonly msaAreaHeight: number;
|
|
796
811
|
readonly totalTrackAreaHeight: number;
|
|
797
|
-
readonly annotationTypes: Map<string, import("
|
|
798
|
-
readonly
|
|
799
|
-
|
|
812
|
+
readonly annotationTypes: Map<string, import("react-msaview").Annotation>;
|
|
813
|
+
readonly defaultOffAccessions: Set<string>;
|
|
814
|
+
featureOff(accession: string): boolean;
|
|
815
|
+
readonly filteredAnnotations: import("react-msaview").Annotation[];
|
|
816
|
+
readonly cellFill: "residue" | "domain" | "none";
|
|
817
|
+
readonly annotationsByRow: Record<string, import("react-msaview").Annotation[]>;
|
|
800
818
|
} & {
|
|
801
819
|
readonly showVerticalScrollbar: boolean;
|
|
802
820
|
} & {
|
|
@@ -808,6 +826,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
808
826
|
readonly msaCanvasWidth: number;
|
|
809
827
|
readonly maxScrollX: number;
|
|
810
828
|
readonly blocks2d: (readonly [number, number])[];
|
|
829
|
+
readonly wheelZooming: boolean;
|
|
811
830
|
readonly isLoading: boolean;
|
|
812
831
|
readonly dataWarnings: string[];
|
|
813
832
|
readonly warnings: string[];
|
|
@@ -827,18 +846,21 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
827
846
|
zoomIn(): void;
|
|
828
847
|
zoomOut(): void;
|
|
829
848
|
zoomToPos(scaleFactor: number, offsetX: number, offsetY: number, axis?: "both" | "horizontal" | "vertical"): void;
|
|
849
|
+
wheelZoomToPos(scaleFactor: number, offsetX: number, offsetY: number): void;
|
|
850
|
+
endWheelZoom(): void;
|
|
830
851
|
doScrollY(deltaY: number): void;
|
|
831
852
|
setScrollY(n: number): void;
|
|
832
|
-
setAnnotations(annotations: import("
|
|
853
|
+
setAnnotations(annotations: import("react-msaview").Annotation[]): void;
|
|
833
854
|
applyGFFText(gffText: string): void;
|
|
834
855
|
doScrollX(deltaX: number): void;
|
|
835
856
|
setScrollX(n: number): void;
|
|
836
|
-
setColumnTracks(tracks: import("react-msaview").ColumnTrackSpec[]): void;
|
|
857
|
+
setColumnTracks(tracks: (import("react-msaview").ColumnTrackSpec | import("react-msaview").LegacyColumnTrack)[]): void;
|
|
837
858
|
setRowData(rowData: import("react-msaview").RowDataInput): void;
|
|
838
|
-
setEncodings(encodings: import("react-msaview").Encoding[]): void;
|
|
839
|
-
setRowPanels(panels: import("react-msaview").RowPanelSpec[]): void;
|
|
859
|
+
setEncodings(encodings: (import("react-msaview").Encoding | import("react-msaview").LegacyEncoding)[]): void;
|
|
860
|
+
setRowPanels(panels: (import("react-msaview").RowPanelSpec | import("react-msaview").LegacyRowPanel)[]): void;
|
|
840
861
|
setResidueMappings(mappings: import("react-msaview").ResidueMapping[]): void;
|
|
841
862
|
toggleTrack(id: string): void;
|
|
863
|
+
setTracksShown(ids: string[], shown: boolean): void;
|
|
842
864
|
setStatus(status?: {
|
|
843
865
|
msg: string;
|
|
844
866
|
onCancel?: () => void;
|
|
@@ -848,24 +870,24 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
848
870
|
readonly hoveredCell: import("react-msaview").Cell | undefined;
|
|
849
871
|
readonly clickedCell: import("react-msaview").Cell | undefined;
|
|
850
872
|
readonly viewport: import("react-msaview").Viewport | undefined;
|
|
851
|
-
readonly segmentDomainTypes: import("
|
|
852
|
-
readonly categoricalDomainTypes: import("
|
|
873
|
+
readonly segmentDomainTypes: import("react-msaview").Annotation[];
|
|
874
|
+
readonly categoricalDomainTypes: import("react-msaview").Annotation[];
|
|
853
875
|
readonly fillPalette: {
|
|
854
876
|
[x: string]: string;
|
|
855
877
|
};
|
|
856
878
|
readonly featureFillEncoding: import("react-msaview").ResolvedEncoding | undefined;
|
|
857
|
-
readonly featureColors: Map<import("
|
|
879
|
+
readonly featureColors: Map<import("react-msaview").Annotation, {
|
|
858
880
|
fill: string;
|
|
859
881
|
stroke: string;
|
|
860
882
|
}>;
|
|
861
|
-
readonly featureLabels: Map<import("
|
|
883
|
+
readonly featureLabels: Map<import("react-msaview").Annotation, string> | undefined;
|
|
862
884
|
readonly segmentLabels: Map<string, string>;
|
|
863
|
-
readonly visibleDomainTypes: import("
|
|
885
|
+
readonly visibleDomainTypes: import("react-msaview").Annotation[];
|
|
864
886
|
readonly legends: import("react-msaview").Legend[];
|
|
865
887
|
readonly domainUnderline: boolean;
|
|
866
888
|
readonly domainBands: Map<string, import("react-msaview").DomainBand[]>;
|
|
867
889
|
readonly domainBandsByStart: Map<string, import("react-msaview").DomainBand[]>;
|
|
868
|
-
readonly mouseOverDomains: import("
|
|
890
|
+
readonly mouseOverDomains: import("react-msaview").Annotation[];
|
|
869
891
|
readonly referenceRowIndex: number | undefined;
|
|
870
892
|
readonly hoveredRowIndices: number[];
|
|
871
893
|
readonly highlightedColumnRuns: {
|
|
@@ -894,25 +916,29 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
894
916
|
rowData: Record<string, string> | undefined;
|
|
895
917
|
};
|
|
896
918
|
readonly resolvedEncodings: import("react-msaview").ResolvedEncoding[];
|
|
919
|
+
readonly resolvedScales: Map<string, import("react-msaview").SharedScale>;
|
|
920
|
+
scaleOf(channel: import("react-msaview").ColorChannel, table: import("react-msaview").ScaleTable): import("react-msaview").SharedScale;
|
|
897
921
|
readonly rowPanelScales: ({
|
|
898
922
|
header: string;
|
|
899
|
-
kind: "strip";
|
|
900
923
|
field: string;
|
|
901
|
-
|
|
924
|
+
kind: "strip";
|
|
902
925
|
legend: import("react-msaview").LegendEntry[];
|
|
926
|
+
colors: Map<string, string>;
|
|
927
|
+
legendKey?: string | undefined;
|
|
903
928
|
legendTitle?: string | undefined;
|
|
904
929
|
} | {
|
|
905
930
|
header: string;
|
|
906
931
|
x: "column" | "position";
|
|
907
|
-
kind: "features";
|
|
908
932
|
field?: string | undefined;
|
|
909
|
-
|
|
933
|
+
kind: "features";
|
|
934
|
+
legend: import("react-msaview").LegendEntry[];
|
|
935
|
+
colors: Map<import("react-msaview").Annotation, {
|
|
910
936
|
fill: string;
|
|
911
937
|
stroke: string;
|
|
912
938
|
}>;
|
|
913
|
-
|
|
939
|
+
legendKey?: string | undefined;
|
|
914
940
|
legendTitle?: string | undefined;
|
|
915
|
-
labels?: Map<import("
|
|
941
|
+
labels?: Map<import("react-msaview").Annotation, string> | undefined;
|
|
916
942
|
})[];
|
|
917
943
|
readonly resolvedRowPanels: import("react-msaview").ResolvedRowPanel[];
|
|
918
944
|
readonly featureAlignShifts: Map<string, Map<string, number>>;
|
|
@@ -922,6 +948,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
922
948
|
} & {
|
|
923
949
|
setHeaderHeight(arg: number): void;
|
|
924
950
|
setHideHeader(arg: boolean): void;
|
|
951
|
+
setEmbeddedMode(arg: boolean): void;
|
|
925
952
|
setImportForm(arg: boolean): void;
|
|
926
953
|
treeOverviewClick(y: number): void;
|
|
927
954
|
setTrackHeight(heightKey: string, height: number): void;
|
|
@@ -930,7 +957,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
930
957
|
exportNewick(): void;
|
|
931
958
|
setFilter(accession: string, shown: boolean): void;
|
|
932
959
|
fit(): void;
|
|
933
|
-
fitVertically(): void;
|
|
960
|
+
fitVertically(maxRowHeight?: any): void;
|
|
934
961
|
zoomToRegion(region: import("react-msaview").Region): void;
|
|
935
962
|
revealRegion(region: import("react-msaview").Region): void;
|
|
936
963
|
zoomToSelection(): void;
|
|
@@ -941,7 +968,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
941
968
|
col: number;
|
|
942
969
|
row?: number;
|
|
943
970
|
}): void;
|
|
944
|
-
fitHorizontally(): void;
|
|
971
|
+
fitHorizontally(maxColWidth?: any): void;
|
|
945
972
|
afterCreate(): void;
|
|
946
973
|
} & {
|
|
947
974
|
rid: string | undefined;
|
|
@@ -1143,7 +1170,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1143
1170
|
id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
1144
1171
|
displayName: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
1145
1172
|
minimized: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1146
|
-
}, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "drawMsaLetters" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & Omit<Omit<Omit<{}, "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "treeAreaWidth" | "treeOrder" | "treeWidth"> & {
|
|
1173
|
+
}, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "showTreeScaleBar" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "domainFill" | "drawMsaLetters" | "embeddedMode" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & Omit<Omit<Omit<{}, "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "showTreeScaleBar" | "treeAreaWidth" | "treeOrder" | "treeWidth"> & {
|
|
1147
1174
|
drawLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1148
1175
|
labelsAlignRight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1149
1176
|
treeAreaWidth: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<number>>;
|
|
@@ -1154,22 +1181,25 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1154
1181
|
drawNodeBubbles: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1155
1182
|
drawNodeLabels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1156
1183
|
showTreeOverview: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1184
|
+
showTreeScaleBar: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1157
1185
|
overviewHeight: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
1158
1186
|
}, "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats"> & {
|
|
1159
1187
|
bgColor: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1160
1188
|
colorSchemeName: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
1161
1189
|
customColorScheme: import("@jbrowse/mobx-state-tree").IType<Record<string, string> | undefined, Record<string, string> | undefined, Record<string, string> | undefined>;
|
|
1162
1190
|
showColumnStats: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1163
|
-
msaFormat: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<import("
|
|
1164
|
-
}, "id" | "type" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "drawMsaLetters" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & {
|
|
1191
|
+
msaFormat: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<import("react-msaview").MSAFormat>>;
|
|
1192
|
+
}, "id" | "type" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "domainFill" | "drawMsaLetters" | "embeddedMode" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & {
|
|
1165
1193
|
id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
|
|
1166
1194
|
showDomains: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1195
|
+
domainFill: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1167
1196
|
showDomainLegend: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1168
1197
|
hideGaps: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1169
1198
|
allowedGappyness: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
1170
1199
|
subFeatureRows: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1171
1200
|
type: import("@jbrowse/mobx-state-tree").ILiteralType<"MsaView">;
|
|
1172
1201
|
drawMsaLetters: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1202
|
+
embeddedMode: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1173
1203
|
scrollZoom: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1174
1204
|
scrollZoomAxis: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<"both" | "horizontal" | "vertical">, [undefined]>;
|
|
1175
1205
|
height: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<number>, [undefined]>;
|
|
@@ -1504,7 +1534,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1504
1534
|
showOnly: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
1505
1535
|
turnedOffTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>>, [undefined]>;
|
|
1506
1536
|
trackHeights: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<number>>, [undefined]>;
|
|
1507
|
-
columnTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec>>, [undefined]>;
|
|
1537
|
+
columnTracks: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec, import("react-msaview").ColumnTrackSpec>, import("react-msaview").ColumnTrackSpec, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
1508
1538
|
residueMappings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").ResidueMapping, import("react-msaview").ResidueMapping, import("react-msaview").ResidueMapping>>, [undefined]>;
|
|
1509
1539
|
data: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
|
|
1510
1540
|
tree: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
@@ -1527,9 +1557,9 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1527
1557
|
selection: import("@jbrowse/mobx-state-tree").IType<import("react-msaview").MsaSelection | undefined, import("react-msaview").MsaSelection | undefined, import("react-msaview").MsaSelection | undefined>;
|
|
1528
1558
|
region: import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Region | undefined, import("react-msaview").Region | undefined, import("react-msaview").Region | undefined>;
|
|
1529
1559
|
clades: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Clade, import("react-msaview").Clade, import("react-msaview").Clade>>, [undefined]>;
|
|
1530
|
-
encodings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Encoding, import("react-msaview").Encoding, import("react-msaview").Encoding>>, [undefined]>;
|
|
1531
|
-
rowPanels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec>>, [undefined]>;
|
|
1532
|
-
}, "init" | "querySeqName" | "
|
|
1560
|
+
encodings: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").Encoding, import("react-msaview").Encoding, import("react-msaview").Encoding>, import("react-msaview").Encoding | import("react-msaview").LegacyEncoding, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
1561
|
+
rowPanels: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISnapshotProcessor<import("@jbrowse/mobx-state-tree").IType<import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec, import("react-msaview").RowPanelSpec>, import("react-msaview").LegacyRowPanel | import("react-msaview").RowPanelSpec, import("@jbrowse/mobx-state-tree")._NotCustomized>>, [undefined]>;
|
|
1562
|
+
}, "init" | "querySeqName" | "embeddedMode" | "launchCompleted" | "connectedViewId" | "connectedFeature" | "connectedTranscript" | "blastParams" | "orthologParams" | "querySeqOffset" | "uniprotId" | "zoomToBaseLevel" | "dataStoreId" | "mafRegion" | "domainsOnGenome"> & {
|
|
1533
1563
|
connectedViewId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
1534
1564
|
connectedFeature: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
|
|
1535
1565
|
connectedTranscript: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
|
|
@@ -1545,12 +1575,12 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1545
1575
|
mafRegion: import("@jbrowse/mobx-state-tree").IType<MafRegion | undefined, MafRegion | undefined, MafRegion | undefined>;
|
|
1546
1576
|
embeddedMode: import("@jbrowse/mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
|
|
1547
1577
|
domainsOnGenome: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<boolean>, [undefined]>;
|
|
1548
|
-
}>, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "drawMsaLetters" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & ({
|
|
1578
|
+
}>, "id" | "type" | "drawLabels" | "drawNodeBubbles" | "drawNodeLabels" | "drawTree" | "labelsAlignRight" | "overviewHeight" | "showBranchLen" | "showTreeOverview" | "showTreeScaleBar" | "treeAreaWidth" | "treeOrder" | "treeWidth" | "bgColor" | "colorSchemeName" | "customColorScheme" | "msaFormat" | "showColumnStats" | "allowedGappyness" | "clades" | "colWidth" | "collapsed" | "columnTracks" | "currentAlignment" | "data" | "domainFill" | "drawMsaLetters" | "embeddedMode" | "encodings" | "features" | "gffFilehandle" | "height" | "hideGaps" | "highlightColumns" | "highlights" | "msaFilehandle" | "region" | "relativeTo" | "residueMappings" | "rotated" | "rowHeight" | "rowPanels" | "scrollX" | "scrollY" | "scrollZoom" | "scrollZoomAxis" | "selection" | "showDomainLegend" | "showDomains" | "showOnly" | "subFeatureRows" | "trackHeights" | "treeFilehandle" | "treeMetadataFilehandle" | "treeRoot" | "turnedOffFeatures" | "turnedOffTracks"> & ({
|
|
1549
1579
|
bgColor: boolean;
|
|
1550
1580
|
colorSchemeName: string;
|
|
1551
1581
|
customColorScheme: Record<string, string> | undefined;
|
|
1552
1582
|
showColumnStats: boolean;
|
|
1553
|
-
msaFormat: import("
|
|
1583
|
+
msaFormat: import("react-msaview").MSAFormat | undefined;
|
|
1554
1584
|
drawLabels: boolean;
|
|
1555
1585
|
labelsAlignRight: boolean;
|
|
1556
1586
|
treeAreaWidth: number | undefined;
|
|
@@ -1561,16 +1591,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1561
1591
|
drawNodeBubbles: boolean;
|
|
1562
1592
|
drawNodeLabels: boolean;
|
|
1563
1593
|
showTreeOverview: boolean;
|
|
1594
|
+
showTreeScaleBar: boolean;
|
|
1564
1595
|
overviewHeight: number;
|
|
1565
1596
|
columnTracks: import("react-msaview").ColumnTrackSpec[];
|
|
1566
1597
|
id: string;
|
|
1567
1598
|
showDomains: boolean;
|
|
1599
|
+
domainFill: boolean;
|
|
1568
1600
|
showDomainLegend: boolean;
|
|
1569
1601
|
hideGaps: boolean;
|
|
1570
1602
|
allowedGappyness: number;
|
|
1571
1603
|
subFeatureRows: boolean;
|
|
1572
1604
|
type: "MsaView";
|
|
1573
1605
|
drawMsaLetters: boolean;
|
|
1606
|
+
embeddedMode: boolean;
|
|
1574
1607
|
scrollZoom: boolean;
|
|
1575
1608
|
scrollZoomAxis: "both" | "horizontal" | "vertical";
|
|
1576
1609
|
height: number;
|
|
@@ -1687,7 +1720,7 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1687
1720
|
colorSchemeName: string;
|
|
1688
1721
|
customColorScheme: Record<string, string> | undefined;
|
|
1689
1722
|
showColumnStats: boolean;
|
|
1690
|
-
msaFormat: import("
|
|
1723
|
+
msaFormat: import("react-msaview").MSAFormat | undefined;
|
|
1691
1724
|
drawLabels: boolean;
|
|
1692
1725
|
labelsAlignRight: boolean;
|
|
1693
1726
|
treeAreaWidth: number | undefined;
|
|
@@ -1698,16 +1731,19 @@ export default function stateModelFactory(): import("@jbrowse/mobx-state-tree").
|
|
|
1698
1731
|
drawNodeBubbles: boolean;
|
|
1699
1732
|
drawNodeLabels: boolean;
|
|
1700
1733
|
showTreeOverview: boolean;
|
|
1734
|
+
showTreeScaleBar: boolean;
|
|
1701
1735
|
overviewHeight: number;
|
|
1702
1736
|
columnTracks?: undefined;
|
|
1703
1737
|
id: string;
|
|
1704
1738
|
showDomains: boolean;
|
|
1739
|
+
domainFill: boolean;
|
|
1705
1740
|
showDomainLegend: boolean;
|
|
1706
1741
|
hideGaps: boolean;
|
|
1707
1742
|
allowedGappyness: number;
|
|
1708
1743
|
subFeatureRows: boolean;
|
|
1709
1744
|
type: "MsaView";
|
|
1710
1745
|
drawMsaLetters: boolean;
|
|
1746
|
+
embeddedMode: boolean;
|
|
1711
1747
|
scrollZoom: boolean;
|
|
1712
1748
|
scrollZoomAxis: "both" | "horizontal" | "vertical";
|
|
1713
1749
|
height: number;
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
import{a as l}from"./chunk-
|
|
2
|
-
//# sourceMappingURL=AboutDialog-
|
|
1
|
+
import{a as l}from"./chunk-WNIBTLFE.js";import{a as i}from"./chunk-DNFD5II2.js";import{a as m}from"./chunk-BX4Z274Q.js";import{a}from"./chunk-J6KYLXRD.js";import{b as r}from"./chunk-FY3BTKY4.js";var e=r(a(),1),o=r(i(),1),t=r(m(),1);function c({onClose:n}){return e.default.createElement(o.Dialog,{open:!0,title:"About",onClose:()=>{n()}},e.default.createElement(t.DialogContent,null,e.default.createElement(t.Typography,null,"MSAView ",l," (",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/gmod/react-msaview"},"Github"),")"),e.default.createElement("ul",null,e.default.createElement("li",null,e.default.createElement(t.Typography,null,"We use some color schemes from the"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/biotite-dev/biotite"},"biotite")," ","project, and their license is reproduced"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://github.com/biotite-dev/biotite/blob/master/LICENSE.rst"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this page for some information on jalview colorings"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://www.jalview.org/help/html/colourSchemes/"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this page for some info on the clustal, cinema, maeditor, and lesk color schemes"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"http://www.bioinformatics.nl/~berndb/aacolour.html"},"here"))),e.default.createElement("li",null,e.default.createElement(t.Typography,null,"See this paper about the flower color scheme"," ",e.default.createElement(t.Link,{target:"_blank",rel:"noopener",href:"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7245768/"},"here"))))))}export{c as default};
|
|
2
|
+
//# sourceMappingURL=AboutDialog-N23GOSSA.js.map
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"version": 3,
|
|
3
|
-
"sources": ["../../node_modules/.pnpm/react-msaview@9.
|
|
3
|
+
"sources": ["../../node_modules/.pnpm/react-msaview@9.4.0_a4121c98828e538e8b3708814bbfe622/node_modules/react-msaview/src/components/dialogs/AboutDialog.tsx"],
|
|
4
4
|
"sourcesContent": ["import React from 'react'\n\nimport { Dialog } from '@jbrowse/core/ui'\nimport { DialogContent, Link, Typography } from '@mui/material'\n\nimport { version } from '../../version.ts'\n\nexport default function AboutDialog({ onClose }: { onClose: () => void }) {\n return (\n <Dialog\n open\n title=\"About\"\n onClose={() => {\n onClose()\n }}\n >\n <DialogContent>\n <Typography>\n MSAView {version} (\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"https://github.com/gmod/react-msaview\"\n >\n Github\n </Link>\n )\n </Typography>\n\n <ul>\n <li>\n <Typography>\n We use some color schemes from the{' '}\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"https://github.com/biotite-dev/biotite\"\n >\n biotite\n </Link>{' '}\n project, and their license is reproduced{' '}\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"https://github.com/biotite-dev/biotite/blob/master/LICENSE.rst\"\n >\n here\n </Link>\n </Typography>\n </li>\n <li>\n <Typography>\n See this page for some information on jalview colorings{' '}\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"https://www.jalview.org/help/html/colourSchemes/\"\n >\n here\n </Link>\n </Typography>\n </li>\n <li>\n <Typography>\n See this page for some info on the clustal, cinema, maeditor, and\n lesk color schemes{' '}\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"http://www.bioinformatics.nl/~berndb/aacolour.html\"\n >\n here\n </Link>\n </Typography>\n </li>\n <li>\n <Typography>\n See this paper about the flower color scheme{' '}\n <Link\n target=\"_blank\"\n rel=\"noopener\"\n href=\"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7245768/\"\n >\n here\n </Link>\n </Typography>\n </li>\n </ul>\n </DialogContent>\n </Dialog>\n )\n}\n"],
|
|
5
5
|
"mappings": "mMAAA,IAAAA,EAAkB,SAElBC,EAAuB,SACvBC,EAAgD,SAIlC,SAAPC,EAA6B,CAAE,QAAAC,CAAO,EAA2B,CACtE,OACE,EAAAC,QAAA,cAAC,SAAM,CACL,KAAI,GACJ,MAAM,QACN,QAAS,IAAK,CACZD,EAAO,CACT,CAAC,EAED,EAAAC,QAAA,cAAC,gBAAa,KACZ,EAAAA,QAAA,cAAC,aAAU,gBACAC,OACT,EAAAD,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,uCAAuC,EAAA,QAAA,OAOhD,EAAAA,QAAA,cAAA,KAAA,KACE,EAAAA,QAAA,cAAA,KAAA,KACE,EAAAA,QAAA,cAAC,aAAU,0CAC0B,IACnC,EAAAA,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,wCAAwC,EAAA,SAAA,EAGvC,+CACiC,IACzC,EAAAA,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,gEAAgE,EAAA,MAAA,CAGhE,CACI,EAEf,EAAAA,QAAA,cAAA,KAAA,KACE,EAAAA,QAAA,cAAC,aAAU,+DAC+C,IACxD,EAAAA,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,kDAAkD,EAAA,MAAA,CAGlD,CACI,EAEf,EAAAA,QAAA,cAAA,KAAA,KACE,EAAAA,QAAA,cAAC,aAAU,4FAEU,IACnB,EAAAA,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,oDAAoD,EAAA,MAAA,CAGpD,CACI,EAEf,EAAAA,QAAA,cAAA,KAAA,KACE,EAAAA,QAAA,cAAC,aAAU,oDACoC,IAC7C,EAAAA,QAAA,cAAC,OAAI,CACH,OAAO,SACP,IAAI,WACJ,KAAK,uDAAuD,EAAA,MAAA,CAGvD,CACI,CACV,CACF,CACS,CAGtB",
|
|
6
6
|
"names": ["import_react", "import_ui", "import_material", "AboutDialog", "onClose", "React", "version"]
|
|
@@ -0,0 +1,2 @@
|
|
|
1
|
+
import{g as d}from"./chunk-XZBGVA3Q.js";import"./chunk-K55ZVN73.js";import"./chunk-73KAPCJ2.js";import{a as x}from"./chunk-CVLB4VFP.js";import{a as C}from"./chunk-DNFD5II2.js";import{a as w}from"./chunk-BX4Z274Q.js";import{a as y}from"./chunk-J6KYLXRD.js";import{b as i}from"./chunk-FY3BTKY4.js";var e=i(y(),1),c=i(C(),1),t=i(w(),1),E=i(x(),1);var T="https://gmod.org/JBrowseMSA/tutorials/protein_family";async function b(l){let o=await fetch(l);if(!o.ok)throw new Error(`HTTP ${o.status} fetching ${l} ${await o.text()}`);return o.text()}var k=(0,E.observer)(function({handleClose:l,model:o}){let[r,h]=(0,e.useState)(),[a,g]=(0,e.useState)("file"),[s,F]=(0,e.useState)(""),[m,u]=(0,e.useState)(),[v,f]=(0,e.useState)(!1);return e.default.createElement(c.Dialog,{maxWidth:"xl",title:"Open annotation file",onClose:()=>{l()},open:!0},e.default.createElement(t.DialogContent,null,m?e.default.createElement(c.ErrorMessage,{error:m}):null,e.default.createElement(t.Typography,null,"Open a GFF3 file of annotations, such as the one `react-msaview-cli interpro` writes, or the JSON an InterProScan run returns."," ",e.default.createElement(t.Link,{href:T,target:"_blank",rel:"noopener noreferrer"},"How to make one")),e.default.createElement("div",{style:{display:"flex",margin:30}},e.default.createElement(t.FormControl,{component:"fieldset"},e.default.createElement(t.RadioGroup,{value:a,onChange:n=>{g(n.target.value)}},e.default.createElement(t.FormControlLabel,{value:"url",control:e.default.createElement(t.Radio,null),label:"URL"}),e.default.createElement(t.FormControlLabel,{value:"file",control:e.default.createElement(t.Radio,null),label:"File"}))),a==="url"?e.default.createElement("div",null,e.default.createElement(t.Typography,null,"Open an annotation file from a URL"),e.default.createElement(t.TextField,{label:"URL",value:s,onChange:n=>{F(n.target.value)}})):e.default.createElement("div",{style:{paddingTop:20}},e.default.createElement(t.Typography,null,"Open an annotation file from your local drive"),e.default.createElement(t.Button,{variant:"outlined",component:"label"},"Choose File",e.default.createElement("input",{type:"file",hidden:!0,onChange:({target:n})=>{let p=n.files?.[0];p&&h(p)}})),r?e.default.createElement(t.Typography,null,r.name):null))),e.default.createElement(t.DialogActions,null,e.default.createElement(t.Button,{variant:"contained",color:"primary",disabled:v||(a==="file"?!r:!s.trim()),onClick:()=>{(async()=>{f(!0),u(void 0);try{let n=await(a==="file"&&r?r.text():b(s));o.setGFFFilehandle(void 0),o.setGFF(d(n)),o.setShowDomains(!0),o.setCellFill("domain"),l()}catch(n){console.error(n),u(n)}finally{f(!1)}})()}},"Open annotations"),e.default.createElement(t.Button,{variant:"contained",color:"secondary",onClick:()=>{l()}},"Cancel")))}),O=k;export{O as default};
|
|
2
|
+
//# sourceMappingURL=AnnotationFileDialog-FVQNLVEU.js.map
|
|
@@ -0,0 +1,7 @@
|
|
|
1
|
+
{
|
|
2
|
+
"version": 3,
|
|
3
|
+
"sources": ["../../node_modules/.pnpm/react-msaview@9.4.0_a4121c98828e538e8b3708814bbfe622/node_modules/react-msaview/src/components/dialogs/AnnotationFileDialog.tsx"],
|
|
4
|
+
"sourcesContent": ["import React, { useState } from 'react'\n\nimport { Dialog, ErrorMessage } from '@jbrowse/core/ui'\nimport {\n Button,\n DialogActions,\n DialogContent,\n FormControl,\n FormControlLabel,\n Link,\n Radio,\n RadioGroup,\n TextField,\n Typography,\n} from '@mui/material'\nimport { observer } from 'mobx-react'\nimport { annotationTextToGFF } from 'msa-parsers'\n\nimport type { MsaViewModel } from '../../model.ts'\n\nconst domainsTutorial = 'https://gmod.org/JBrowseMSA/tutorials/protein_family'\n\nasync function fetchText(url: string) {\n const response = await fetch(url)\n if (!response.ok) {\n throw new Error(\n `HTTP ${response.status} fetching ${url} ${await response.text()}`,\n )\n }\n return response.text()\n}\n\nconst AnnotationFileDialog = observer(function ({\n handleClose,\n model,\n}: {\n handleClose: () => void\n model: MsaViewModel\n}) {\n const [file, setFile] = useState<File>()\n const [choice, setChoice] = useState('file')\n const [url, setUrl] = useState('')\n const [error, setError] = useState<unknown>()\n const [loading, setLoading] = useState(false)\n\n // the error is shown here rather than notified: the standalone app and the\n // MSAViewer component have no jbrowse session to notify, and asking one for\n // its notify() threw out of the success path into the catch, which threw\n // again on the same missing session\n return (\n <Dialog\n maxWidth=\"xl\"\n title=\"Open annotation file\"\n onClose={() => {\n handleClose()\n }}\n open\n >\n <DialogContent>\n {error ? <ErrorMessage error={error} /> : null}\n <Typography>\n Open a GFF3 file of annotations, such as the one `react-msaview-cli\n interpro` writes, or the JSON an InterProScan run returns.{' '}\n <Link\n href={domainsTutorial}\n target=\"_blank\"\n rel=\"noopener noreferrer\"\n >\n How to make one\n </Link>\n </Typography>\n\n <div style={{ display: 'flex', margin: 30 }}>\n <FormControl component=\"fieldset\">\n <RadioGroup\n value={choice}\n onChange={event => {\n setChoice(event.target.value)\n }}\n >\n <FormControlLabel value=\"url\" control={<Radio />} label=\"URL\" />\n <FormControlLabel value=\"file\" control={<Radio />} label=\"File\" />\n </RadioGroup>\n </FormControl>\n {choice === 'url' ? (\n <div>\n <Typography>Open an annotation file from a URL</Typography>\n <TextField\n label=\"URL\"\n value={url}\n onChange={event => {\n setUrl(event.target.value)\n }}\n />\n </div>\n ) : (\n <div style={{ paddingTop: 20 }}>\n <Typography>\n Open an annotation file from your local drive\n </Typography>\n <Button variant=\"outlined\" component=\"label\">\n Choose File\n <input\n type=\"file\"\n hidden\n onChange={({ target }) => {\n const chosen = target.files?.[0]\n if (chosen) {\n setFile(chosen)\n }\n }}\n />\n </Button>\n {file ? <Typography>{file.name}</Typography> : null}\n </div>\n )}\n </div>\n </DialogContent>\n <DialogActions>\n <Button\n variant=\"contained\"\n color=\"primary\"\n disabled={loading || (choice === 'file' ? !file : !url.trim())}\n onClick={() => {\n // eslint-disable-next-line @typescript-eslint/no-floating-promises\n ;(async () => {\n setLoading(true)\n setError(undefined)\n try {\n const text = await (choice === 'file' && file\n ? file.text()\n : fetchText(url))\n // through the model's own GFF text, so the annotations travel\n // in the snapshot and the shared URL like every other layer. A\n // filehandle left set would make the snapshot drop that text\n model.setGFFFilehandle(undefined)\n model.setGFF(annotationTextToGFF(text))\n model.setShowDomains(true)\n model.setCellFill('domain')\n handleClose()\n } catch (e) {\n console.error(e)\n setError(e)\n } finally {\n setLoading(false)\n }\n })()\n }}\n >\n Open annotations\n </Button>\n <Button\n variant=\"contained\"\n color=\"secondary\"\n onClick={() => {\n handleClose()\n }}\n >\n Cancel\n </Button>\n </DialogActions>\n </Dialog>\n )\n})\n\nexport default AnnotationFileDialog\n"],
|
|
5
|
+
"mappings": "wSAAA,IAAAA,EAAgC,SAEhCC,EAAqC,SACrCC,EAWO,SACPC,EAAyB,SAKzB,IAAMC,EAAkB,uDAExB,eAAeC,EAAUC,EAAW,CAClC,IAAMC,EAAW,MAAM,MAAMD,CAAG,EAChC,GAAI,CAACC,EAAS,GACZ,MAAM,IAAI,MACR,QAAQA,EAAS,MAAM,aAAaD,CAAG,IAAI,MAAMC,EAAS,KAAI,CAAE,EAAE,EAGtE,OAAOA,EAAS,KAAI,CACtB,CAEA,IAAMC,KAAuB,YAAS,SAAU,CAC9C,YAAAC,EACA,MAAAC,CAAK,EAIN,CACC,GAAM,CAACC,EAAMC,CAAO,KAAI,YAAQ,EAC1B,CAACC,EAAQC,CAAS,KAAI,YAAS,MAAM,EACrC,CAACR,EAAKS,CAAM,KAAI,YAAS,EAAE,EAC3B,CAACC,EAAOC,CAAQ,KAAI,YAAQ,EAC5B,CAACC,EAASC,CAAU,KAAI,YAAS,EAAK,EAM5C,OACE,EAAAC,QAAA,cAAC,SAAM,CACL,SAAS,KACT,MAAM,uBACN,QAAS,IAAK,CACZX,EAAW,CACb,EACA,KAAI,EAAA,EAEJ,EAAAW,QAAA,cAAC,gBAAa,KACXJ,EAAQ,EAAAI,QAAA,cAAC,eAAY,CAAC,MAAOJ,CAAK,CAAA,EAAO,KAC1C,EAAAI,QAAA,cAAC,aAAU,sIAEkD,IAC3D,EAAAA,QAAA,cAAC,OAAI,CACH,KAAMhB,EACN,OAAO,SACP,IAAI,qBAAqB,EAAA,iBAAA,CAGpB,EAGT,EAAAgB,QAAA,cAAA,MAAA,CAAK,MAAO,CAAE,QAAS,OAAQ,OAAQ,EAAE,CAAE,EACzC,EAAAA,QAAA,cAAC,cAAW,CAAC,UAAU,UAAU,EAC/B,EAAAA,QAAA,cAAC,aAAU,CACT,MAAOP,EACP,SAAUQ,GAAQ,CAChBP,EAAUO,EAAM,OAAO,KAAK,CAC9B,CAAC,EAED,EAAAD,QAAA,cAAC,mBAAgB,CAAC,MAAM,MAAM,QAAS,EAAAA,QAAA,cAAC,QAAK,IAAA,EAAK,MAAM,KAAK,CAAA,EAC7D,EAAAA,QAAA,cAAC,mBAAgB,CAAC,MAAM,OAAO,QAAS,EAAAA,QAAA,cAAC,QAAK,IAAA,EAAK,MAAM,MAAM,CAAA,CAAG,CACvD,EAEdP,IAAW,MACV,EAAAO,QAAA,cAAA,MAAA,KACE,EAAAA,QAAA,cAAC,aAAU,KAAA,oCAAA,EACX,EAAAA,QAAA,cAAC,YAAS,CACR,MAAM,MACN,MAAOd,EACP,SAAUe,GAAQ,CAChBN,EAAOM,EAAM,OAAO,KAAK,CAC3B,CAAC,CAAA,CACD,EAGJ,EAAAD,QAAA,cAAA,MAAA,CAAK,MAAO,CAAE,WAAY,EAAE,CAAE,EAC5B,EAAAA,QAAA,cAAC,aAAU,KAAA,+CAAA,EAGX,EAAAA,QAAA,cAAC,SAAM,CAAC,QAAQ,WAAW,UAAU,OAAO,gBAE1C,EAAAA,QAAA,cAAA,QAAA,CACE,KAAK,OACL,OAAM,GACN,SAAU,CAAC,CAAE,OAAAE,CAAM,IAAM,CACvB,IAAMC,EAASD,EAAO,QAAQ,CAAC,EAC3BC,GACFX,EAAQW,CAAM,CAElB,CAAC,CAAA,CACD,EAEHZ,EAAO,EAAAS,QAAA,cAAC,aAAU,KAAET,EAAK,IAAI,EAAiB,IAAI,CAEtD,CACG,EAER,EAAAS,QAAA,cAAC,gBAAa,KACZ,EAAAA,QAAA,cAAC,SAAM,CACL,QAAQ,YACR,MAAM,UACN,SAAUF,IAAYL,IAAW,OAAS,CAACF,EAAO,CAACL,EAAI,KAAI,GAC3D,QAAS,IAAK,EAEV,SAAW,CACXa,EAAW,EAAI,EACfF,EAAS,MAAS,EAClB,GAAI,CACF,IAAMO,EAAO,MAAOX,IAAW,QAAUF,EACrCA,EAAK,KAAI,EACTN,EAAUC,CAAG,GAIjBI,EAAM,iBAAiB,MAAS,EAChCA,EAAM,OAAOe,EAAoBD,CAAI,CAAC,EACtCd,EAAM,eAAe,EAAI,EACzBA,EAAM,YAAY,QAAQ,EAC1BD,EAAW,CACb,OAASiB,EAAG,CACV,QAAQ,MAAMA,CAAC,EACfT,EAASS,CAAC,CACZ,SACEP,EAAW,EAAK,CAClB,CACF,GAAE,CACJ,CAAC,EAAA,kBAAA,EAIH,EAAAC,QAAA,cAAC,SAAM,CACL,QAAQ,YACR,MAAM,YACN,QAAS,IAAK,CACZX,EAAW,CACb,CAAC,EAAA,QAAA,CAGM,CACK,CAGtB,CAAC,EAEDkB,EAAenB",
|
|
6
|
+
"names": ["import_react", "import_ui", "import_material", "import_mobx_react", "domainsTutorial", "fetchText", "url", "response", "AnnotationFileDialog", "handleClose", "model", "file", "setFile", "choice", "setChoice", "setUrl", "error", "setError", "loading", "setLoading", "React", "event", "target", "chosen", "text", "annotationTextToGFF", "e", "AnnotationFileDialog_default"]
|
|
7
|
+
}
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
import{a as p}from"./chunk-
|
|
2
|
-
//# sourceMappingURL=ExportSVGDialog-
|
|
1
|
+
import{a as p}from"./chunk-RFKEQQMZ.js";import{$ as y,_ as v}from"./chunk-SYZYE3AS.js";import{a as L}from"./chunk-CVLB4VFP.js";import{a as D}from"./chunk-DNFD5II2.js";import{a as V}from"./chunk-BX4Z274Q.js";import{a as I}from"./chunk-J6KYLXRD.js";import{b as l}from"./chunk-FY3BTKY4.js";var t=l(I(),1),i=l(D(),1),e=l(V(),1),k=l(L(),1);function z(r){requestAnimationFrame(()=>{requestAnimationFrame(r)})}var P=(0,k.observer)(function({model:r,onClose:c}){let[s,C]=(0,t.useState)(!0),[n,T]=(0,t.useState)(!0),[o,b]=(0,t.useState)("viewport"),[E,w]=(0,t.useState)(),[m,h]=(0,t.useState)(!1),d=(0,e.useTheme)(),{turnedOnTracks:M,numColumns:S,leaves:A,showMsaLetters:F}=r,g=M.length>0,x=y(r,v(r,{theme:d,exportType:"entire",includeTracks:n})),f=F&&o==="entire"?S*A.length:0,G=f>1e5;return t.default.createElement(i.Dialog,{onClose:()=>{c()},open:!0,title:"Export SVG"},t.default.createElement(e.DialogContent,null,E?t.default.createElement(i.ErrorMessage,{error:E}):null,t.default.createElement(e.Typography,null,"Settings:"),t.default.createElement(p,{label:"Include minimap?",disabled:o==="entire",checked:s,onChange:()=>{C(!s)}}),g?t.default.createElement(p,{label:"Include tracks?",checked:n,onChange:()=>{T(!n)}}):null,t.default.createElement("div",null,t.default.createElement(e.FormControl,null,t.default.createElement(e.FormLabel,null,"Export type"),t.default.createElement(e.RadioGroup,{value:o,onChange:a=>{let{value:u}=a.target;(u==="entire"||u==="viewport")&&b(u)}},t.default.createElement(e.FormControlLabel,{value:"entire",control:t.default.createElement(e.Radio,null),label:"Entire MSA"}),t.default.createElement(e.FormControlLabel,{value:"viewport",control:t.default.createElement(e.Radio,null),label:"Current viewport only"})))),G?t.default.createElement(e.Alert,{severity:"warning",style:{marginTop:8}},"The entire MSA is ",Math.round(x.width),"x",Math.round(x.height)," pixels and draws"," ",Math.round(f/1e3),"k residue letters, each its own SVG element. Export may be slow or fail \u2014 zooming out far enough to hide the letters exports the same alignment as an image instead."):null),t.default.createElement(e.DialogActions,null,t.default.createElement(e.Button,{variant:"contained",color:"primary",disabled:m,startIcon:m?t.default.createElement(e.CircularProgress,{size:16,color:"inherit"}):null,onClick:()=>{h(!0),z(()=>{r.exportSVG({theme:d,includeMinimap:s,includeTracks:g&&n,exportType:o}).then(()=>{c()}).catch(a=>{console.error(a),w(a)}).finally(()=>{h(!1)})})}},m?"Exporting\u2026":"Export"),t.default.createElement(e.Button,{variant:"contained",color:"secondary",onClick:()=>{c()}},"Cancel")))}),B=P;export{B as default};
|
|
2
|
+
//# sourceMappingURL=ExportSVGDialog-3SA6HFZB.js.map
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"version": 3,
|
|
3
|
-
"sources": ["../../node_modules/.pnpm/react-msaview@9.
|
|
3
|
+
"sources": ["../../node_modules/.pnpm/react-msaview@9.4.0_a4121c98828e538e8b3708814bbfe622/node_modules/react-msaview/src/components/dialogs/ExportSVGDialog.tsx"],
|
|
4
4
|
"sourcesContent": ["import React, { useState } from 'react'\n\nimport { Dialog, ErrorMessage } from '@jbrowse/core/ui'\nimport {\n Alert,\n Button,\n CircularProgress,\n DialogActions,\n DialogContent,\n FormControl,\n FormControlLabel,\n FormLabel,\n Radio,\n RadioGroup,\n Typography,\n useTheme,\n} from '@mui/material'\nimport { observer } from 'mobx-react'\n\nimport { exportPageSize, getLayout } from '../../exportLayout.ts'\nimport Checkbox2 from '../Checkbox2.tsx'\n\nimport type { MsaViewModel } from '../../model.ts'\n\n// Run after the browser has painted. A requestAnimationFrame callback still\n// runs *before* the frame it was queued for, so one alone hands the main thread\n// to the render with the spinner not yet on screen; the second fires once that\n// frame is out.\nfunction afterPaint(fn: () => void) {\n requestAnimationFrame(() => {\n requestAnimationFrame(fn)\n })\n}\n\nconst ExportSVGDialog = observer(function ({\n model,\n onClose,\n}: {\n model: MsaViewModel\n onClose: () => void\n}) {\n const [includeMinimap, setIncludeMinimap] = useState(true)\n const [includeTracks, setIncludeTracks] = useState(true)\n const [exportType, setExportType] = useState<'entire' | 'viewport'>(\n 'viewport',\n )\n const [error, setError] = useState<unknown>()\n const [exporting, setExporting] = useState(false)\n const theme = useTheme()\n const { turnedOnTracks, numColumns, leaves, showMsaLetters } = model\n const hasTracks = turnedOnTracks.length > 0\n const entire = exportPageSize(\n model,\n getLayout(model, { theme, exportType: 'entire', includeTracks }),\n )\n // the background is one raster image whatever its size, so what the figure\n // actually costs is its residue letters: each is an svg element of its own.\n // Past roughly this many the export runs to tens of seconds and can exhaust\n // the tab's memory outright\n const glyphs =\n showMsaLetters && exportType === 'entire' ? numColumns * leaves.length : 0\n const isLargeExport = glyphs > 100_000\n return (\n <Dialog\n onClose={() => {\n onClose()\n }}\n open\n title=\"Export SVG\"\n >\n <DialogContent>\n {error ? <ErrorMessage error={error} /> : null}\n <Typography>Settings:</Typography>\n <Checkbox2\n label=\"Include minimap?\"\n disabled={exportType === 'entire'}\n checked={includeMinimap}\n onChange={() => {\n setIncludeMinimap(!includeMinimap)\n }}\n />\n {hasTracks ? (\n <Checkbox2\n label=\"Include tracks?\"\n checked={includeTracks}\n onChange={() => {\n setIncludeTracks(!includeTracks)\n }}\n />\n ) : null}\n <div>\n <FormControl>\n <FormLabel>Export type</FormLabel>\n <RadioGroup\n value={exportType}\n onChange={event => {\n const { value } = event.target\n if (value === 'entire' || value === 'viewport') {\n setExportType(value)\n }\n }}\n >\n <FormControlLabel\n value=\"entire\"\n control={<Radio />}\n label=\"Entire MSA\"\n />\n <FormControlLabel\n value=\"viewport\"\n control={<Radio />}\n label=\"Current viewport only\"\n />\n </RadioGroup>\n </FormControl>\n </div>\n {isLargeExport ? (\n <Alert severity=\"warning\" style={{ marginTop: 8 }}>\n The entire MSA is {Math.round(entire.width)}x\n {Math.round(entire.height)} pixels and draws{' '}\n {Math.round(glyphs / 1000)}k residue letters, each its own SVG\n element. Export may be slow or fail \u2014 zooming out far enough to hide\n the letters exports the same alignment as an image instead.\n </Alert>\n ) : null}\n </DialogContent>\n <DialogActions>\n <Button\n variant=\"contained\"\n color=\"primary\"\n // rendering runs on the main thread and a large figure holds it for\n // seconds; without this the button stays live through the freeze and\n // a second click starts a second export\n disabled={exporting}\n startIcon={\n exporting ? <CircularProgress size={16} color=\"inherit\" /> : null\n }\n onClick={() => {\n setExporting(true)\n afterPaint(() => {\n void model\n .exportSVG({\n theme,\n includeMinimap,\n includeTracks: hasTracks && includeTracks,\n exportType,\n })\n .then(() => {\n onClose()\n })\n .catch((e: unknown) => {\n console.error(e)\n setError(e)\n })\n .finally(() => {\n setExporting(false)\n })\n })\n }}\n >\n {exporting ? 'Exporting\u2026' : 'Export'}\n </Button>\n <Button\n variant=\"contained\"\n color=\"secondary\"\n onClick={() => {\n onClose()\n }}\n >\n Cancel\n </Button>\n </DialogActions>\n </Dialog>\n )\n})\n\nexport default ExportSVGDialog\n"],
|
|
5
5
|
"mappings": "+RAAA,IAAAA,EAAgC,SAEhCC,EAAqC,SACrCC,EAaO,SACPC,EAAyB,SAWzB,SAASC,EAAWC,EAAc,CAChC,sBAAsB,IAAK,CACzB,sBAAsBA,CAAE,CAC1B,CAAC,CACH,CAEA,IAAMC,KAAkB,YAAS,SAAU,CACzC,MAAAC,EACA,QAAAC,CAAO,EAIR,CACC,GAAM,CAACC,EAAgBC,CAAiB,KAAI,YAAS,EAAI,EACnD,CAACC,EAAeC,CAAgB,KAAI,YAAS,EAAI,EACjD,CAACC,EAAYC,CAAa,KAAI,YAClC,UAAU,EAEN,CAACC,EAAOC,CAAQ,KAAI,YAAQ,EAC5B,CAACC,EAAWC,CAAY,KAAI,YAAS,EAAK,EAC1CC,KAAQ,YAAQ,EAChB,CAAE,eAAAC,EAAgB,WAAAC,EAAY,OAAAC,EAAQ,eAAAC,CAAc,EAAKhB,EACzDiB,EAAYJ,EAAe,OAAS,EACpCK,EAASC,EACbnB,EACAoB,EAAUpB,EAAO,CAAE,MAAAY,EAAO,WAAY,SAAU,cAAAR,CAAa,CAAE,CAAC,EAM5DiB,EACJL,GAAkBV,IAAe,SAAWQ,EAAaC,EAAO,OAAS,EACrEO,EAAgBD,EAAS,IAC/B,OACE,EAAAE,QAAA,cAAC,SAAM,CACL,QAAS,IAAK,CACZtB,EAAO,CACT,EACA,KAAI,GACJ,MAAM,YAAY,EAElB,EAAAsB,QAAA,cAAC,gBAAa,KACXf,EAAQ,EAAAe,QAAA,cAAC,eAAY,CAAC,MAAOf,CAAK,CAAA,EAAO,KAC1C,EAAAe,QAAA,cAAC,aAAU,KAAA,WAAA,EACX,EAAAA,QAAA,cAACC,EAAS,CACR,MAAM,mBACN,SAAUlB,IAAe,SACzB,QAASJ,EACT,SAAU,IAAK,CACbC,EAAkB,CAACD,CAAc,CACnC,CAAC,CAAA,EAEFe,EACC,EAAAM,QAAA,cAACC,EAAS,CACR,MAAM,kBACN,QAASpB,EACT,SAAU,IAAK,CACbC,EAAiB,CAACD,CAAa,CACjC,CAAC,CAAA,EAED,KACJ,EAAAmB,QAAA,cAAA,MAAA,KACE,EAAAA,QAAA,cAAC,cAAW,KACV,EAAAA,QAAA,cAAC,YAAS,KAAA,aAAA,EACV,EAAAA,QAAA,cAAC,aAAU,CACT,MAAOjB,EACP,SAAUmB,GAAQ,CAChB,GAAM,CAAE,MAAAC,CAAK,EAAKD,EAAM,QACpBC,IAAU,UAAYA,IAAU,aAClCnB,EAAcmB,CAAK,CAEvB,CAAC,EAED,EAAAH,QAAA,cAAC,mBAAgB,CACf,MAAM,SACN,QAAS,EAAAA,QAAA,cAAC,QAAK,IAAA,EACf,MAAM,YAAY,CAAA,EAEpB,EAAAA,QAAA,cAAC,mBAAgB,CACf,MAAM,WACN,QAAS,EAAAA,QAAA,cAAC,QAAK,IAAA,EACf,MAAM,uBAAuB,CAAA,CAC7B,CACS,CACD,EAEfD,EACC,EAAAC,QAAA,cAAC,QAAK,CAAC,SAAS,UAAU,MAAO,CAAE,UAAW,CAAC,CAAE,uBAC5B,KAAK,MAAML,EAAO,KAAK,MACzC,KAAK,MAAMA,EAAO,MAAM,sBAAoB,IAC5C,KAAK,MAAMG,EAAS,GAAI,+KAIzB,IAAI,EAEV,EAAAE,QAAA,cAAC,gBAAa,KACZ,EAAAA,QAAA,cAAC,SAAM,CACL,QAAQ,YACR,MAAM,UAIN,SAAUb,EACV,UACEA,EAAY,EAAAa,QAAA,cAAC,mBAAgB,CAAC,KAAM,GAAI,MAAM,SAAS,CAAA,EAAM,KAE/D,QAAS,IAAK,CACZZ,EAAa,EAAI,EACjBd,EAAW,IAAK,CACTG,EACF,UAAU,CACT,MAAAY,EACA,eAAAV,EACA,cAAee,GAAab,EAC5B,WAAAE,EACD,EACA,KAAK,IAAK,CACTL,EAAO,CACT,CAAC,EACA,MAAO0B,GAAc,CACpB,QAAQ,MAAMA,CAAC,EACflB,EAASkB,CAAC,CACZ,CAAC,EACA,QAAQ,IAAK,CACZhB,EAAa,EAAK,CACpB,CAAC,CACL,CAAC,CACH,CAAC,EAEAD,EAAY,kBAAe,QAAQ,EAEtC,EAAAa,QAAA,cAAC,SAAM,CACL,QAAQ,YACR,MAAM,YACN,QAAS,IAAK,CACZtB,EAAO,CACT,CAAC,EAAA,QAAA,CAGM,CACK,CAGtB,CAAC,EAED2B,EAAe7B",
|
|
6
6
|
"names": ["import_react", "import_ui", "import_material", "import_mobx_react", "afterPaint", "fn", "ExportSVGDialog", "model", "onClose", "includeMinimap", "setIncludeMinimap", "includeTracks", "setIncludeTracks", "exportType", "setExportType", "error", "setError", "exporting", "setExporting", "theme", "turnedOnTracks", "numColumns", "leaves", "showMsaLetters", "hasTracks", "entire", "exportPageSize", "getLayout", "glyphs", "isLargeExport", "React", "Checkbox2", "event", "value", "e", "ExportSVGDialog_default"]
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
import{a as C}from"./chunk-CVLB4VFP.js";import{a as
|
|
2
|
-
//# sourceMappingURL=FeatureDialog-
|
|
1
|
+
import{a as C}from"./chunk-CVLB4VFP.js";import{a as k}from"./chunk-DNFD5II2.js";import{a as F}from"./chunk-BX4Z274Q.js";import{a as T}from"./chunk-J6KYLXRD.js";import{b as c}from"./chunk-FY3BTKY4.js";var e=c(T(),1),p=c(k(),1),t=c(F(),1),s=c(C(),1);function w(n,a){return[n.accession,n.name,n.description].some(o=>o?.toLowerCase().includes(a))}var x=(0,s.observer)(function({model:n,accessions:a}){let o=m=>{for(let u of a)n.setFilter(u,m)};return e.default.createElement("div",null,e.default.createElement(t.Button,{onClick:()=>{o(!0)}},"Toggle all on"),e.default.createElement(t.Button,{onClick:()=>{o(!1)}},"Toggle all off"))}),v=(0,s.observer)(function({model:n}){let{annotationTypes:a,annotations:o,featureColors:m,fillPalette:u}=n,[E,h]=(0,e.useState)(""),g=E.trim().toLowerCase(),d=[...a.values()].filter(l=>!g||w(l,g)),i=new Map,f=new Map;for(let l of o){let{accession:r}=l;i.set(r,(i.get(r)??0)+1),f.has(r)||f.set(r,m.get(l)?.fill??u[r])}return e.default.createElement(e.default.Fragment,null,e.default.createElement(t.TextField,{label:"Filter",size:"small",value:E,onChange:l=>{h(l.target.value)}}),e.default.createElement(x,{model:n,accessions:d.map(l=>l.accession)}),e.default.createElement(t.Table,{size:"small"},e.default.createElement(t.TableHead,null,e.default.createElement(t.TableRow,null,e.default.createElement(t.TableCell,{padding:"checkbox"}),e.default.createElement(t.TableCell,null,"color"),e.default.createElement(t.TableCell,null,"accession"),e.default.createElement(t.TableCell,null,"name"),e.default.createElement(t.TableCell,null,"count"),e.default.createElement(t.TableCell,null,"description"))),e.default.createElement(t.TableBody,null,d.map(({accession:l,name:r,description:b})=>e.default.createElement(t.TableRow,{key:l},e.default.createElement(t.TableCell,{padding:"checkbox"},e.default.createElement(t.Checkbox,{checked:!n.featureOff(l),onChange:()=>{n.setFilter(l,n.featureOff(l))}})),e.default.createElement(t.TableCell,null,e.default.createElement("div",{style:{width:20,height:20,background:f.get(l)}})),e.default.createElement(t.TableCell,null,l),e.default.createElement(t.TableCell,null,r),e.default.createElement(t.TableCell,null,i.get(l)),e.default.createElement(t.TableCell,null,b))))))}),y=(0,s.observer)(function({onClose:n,model:a}){return e.default.createElement(p.Dialog,{onClose:()=>{n()},open:!0,title:"Feature filters",maxWidth:"xl"},e.default.createElement(t.DialogContent,null,e.default.createElement(v,{model:a})))}),D=y;export{D as default};
|
|
2
|
+
//# sourceMappingURL=FeatureDialog-LSD37OFH.js.map
|