jbrowse-plugin-msaview 5.5.0 → 5.6.0

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Files changed (35) hide show
  1. package/dist/MsaViewPanel/afterCreateAutoruns.js +1 -1
  2. package/dist/MsaViewPanel/connectedDomains.d.ts +29 -11
  3. package/dist/MsaViewPanel/connectedDomains.js +47 -20
  4. package/dist/MsaViewPanel/connectedDomains.test.js +63 -24
  5. package/dist/MsaViewPanel/domainTrack.d.ts +7 -8
  6. package/dist/MsaViewPanel/domainTrack.js +5 -18
  7. package/dist/MsaViewPanel/domainTrack.test.js +29 -27
  8. package/dist/MsaViewPanel/loadProteinDomains.js +2 -1
  9. package/dist/MsaViewPanel/loadProteinDomains.test.js +2 -0
  10. package/dist/MsaViewPanel/model.d.ts +5 -5
  11. package/dist/MsaViewPanel/model.js +5 -5
  12. package/dist/MsaViewPanel/model.test.js +33 -21
  13. package/dist/chunks/{model-7RBDANXP.js → model-SEEQQSQO.js} +6 -6
  14. package/dist/chunks/model-SEEQQSQO.js.map +7 -0
  15. package/dist/jbrowse-plugin-msaview.esm.js +1 -1
  16. package/dist/jbrowse-plugin-msaview.esm.js.map +1 -1
  17. package/dist/utils/domainCache.js +17 -9
  18. package/dist/utils/ncbiDomains.d.ts +4 -1
  19. package/dist/utils/ncbiDomains.js +1 -0
  20. package/dist/version.d.ts +1 -1
  21. package/dist/version.js +1 -1
  22. package/package.json +1 -1
  23. package/src/MsaViewPanel/afterCreateAutoruns.ts +1 -1
  24. package/src/MsaViewPanel/connectedDomains.test.ts +67 -24
  25. package/src/MsaViewPanel/connectedDomains.ts +70 -26
  26. package/src/MsaViewPanel/domainTrack.test.ts +29 -27
  27. package/src/MsaViewPanel/domainTrack.ts +7 -20
  28. package/src/MsaViewPanel/loadProteinDomains.test.ts +2 -0
  29. package/src/MsaViewPanel/loadProteinDomains.ts +13 -11
  30. package/src/MsaViewPanel/model.test.ts +33 -21
  31. package/src/MsaViewPanel/model.ts +7 -7
  32. package/src/utils/domainCache.ts +17 -9
  33. package/src/utils/ncbiDomains.ts +5 -1
  34. package/src/version.ts +1 -1
  35. package/dist/chunks/model-7RBDANXP.js.map +0 -7
package/dist/MsaViewPanel/model.test.js CHANGED
@@ -199,6 +199,7 @@ describe('connectedDomains', () => {
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  accession: 'cd2',
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  name: 'heme binding site',
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  description: '',
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+ featureType: 'Site',
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  start: 2,
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  end: 4,
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  },
@@ -219,32 +220,43 @@ describe('connectedDomains', () => {
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  `${a.id}:${a.accession}`,
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  c.fill,
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  ]));
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- expect(model.connectedDomains).toEqual([
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- {
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- name: 'Hb beta-like',
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- accession: 'cd1',
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- color: fills.get('QUERY:cd1'),
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- regions: [
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- { refName: 'chr1', start: 100, end: 107 },
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- { refName: 'chr1', start: 200, end: 208 },
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- ],
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- },
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- {
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- name: 'heme binding site',
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- accession: 'cd2',
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- color: fills.get('QUERY:cd2'),
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- regions: [
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- { refName: 'chr1', start: 103, end: 107 },
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- { refName: 'chr1', start: 200, end: 205 },
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- ],
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+ expect(model.connectedDomains).toEqual({
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+ features: [
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+ {
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+ name: 'Hb beta-like',
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+ accession: 'cd1',
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+ kind: 'domain',
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+ regions: [
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+ { refName: 'chr1', start: 100, end: 107 },
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+ { refName: 'chr1', start: 200, end: 208 },
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+ ],
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+ },
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+ {
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+ name: 'heme binding site',
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+ accession: 'cd2',
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+ kind: 'site',
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+ regions: [
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+ { refName: 'chr1', start: 103, end: 107 },
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+ { refName: 'chr1', start: 200, end: 205 },
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+ ],
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+ },
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+ ],
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+ color: {
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+ field: 'accession',
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+ domain: ['cd1', 'cd2'],
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+ range: [fills.get('QUERY:cd1'), fills.get('QUERY:cd2')],
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+ labels: ['Hb beta-like', 'heme binding site'],
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  },
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- ]);
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+ });
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  });
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  test('follows the overlay and the legend filter', () => {
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  const model = domainView();
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  model.setFilter('cd2', false);
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- expect(model.connectedDomains.map(d => d.accession)).toEqual(['cd1']);
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+ expect(model.connectedDomains.color.domain).toEqual(['cd1']);
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  model.setShowDomains(false);
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- expect(model.connectedDomains).toEqual([]);
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+ expect(model.connectedDomains).toEqual({
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+ features: [],
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+ color: { field: 'accession', domain: [], range: [], labels: [] },
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+ });
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  });
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  });