@datagrok/bio 2.13.7 → 2.13.8

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Files changed (12) hide show
  1. package/CHANGELOG.md +4 -0
  2. package/dist/package-test.js +2 -2
  3. package/dist/package-test.js.map +1 -1
  4. package/dist/package.js +1 -1
  5. package/dist/package.js.map +1 -1
  6. package/package.json +3 -3
  7. package/src/demo/bio01-similarity-diversity.ts +2 -3
  8. package/src/demo/bio01a-hierarchical-clustering-and-sequence-space.ts +3 -3
  9. package/src/demo/bio01b-hierarchical-clustering-and-activity-cliffs.ts +2 -3
  10. package/src/demo/bio03-atomic-level.ts +1 -4
  11. package/src/demo/bio05-helm-msa-sequence-space.ts +2 -3
  12. package/src/package-test.ts +3 -2
package/package.json CHANGED
@@ -5,7 +5,7 @@
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  "name": "Aleksandr Tanas",
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  "email": "atanas@datagrok.ai"
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  },
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- "version": "2.13.7",
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+ "version": "2.13.8",
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  "description": "Bioinformatics support (import/export of sequences, conversion, visualization, analysis). [See more](https://github.com/datagrok-ai/public/blob/master/packages/Bio/README.md) for details.",
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  "repository": {
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  "type": "git",
@@ -42,13 +42,13 @@
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  "@datagrok-libraries/math": "^1.1.12",
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  "@datagrok-libraries/ml": "^6.6.17",
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  "@datagrok-libraries/tutorials": "^1.3.13",
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- "@datagrok-libraries/utils": "4.2.21",
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+ "@datagrok-libraries/utils": "^4.2.22",
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  "@webgpu/types": "^0.1.40",
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  "ajv": "^8.12.0",
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  "ajv-errors": "^3.0.0",
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  "cash-dom": "^8.0.0",
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  "css-loader": "^6.7.3",
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- "datagrok-api": "^1.20.1",
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+ "datagrok-api": "^1.20.0",
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  "dayjs": "^1.11.4",
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  "fastest-levenshtein": "^1.0.16",
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  "openchemlib": "^7.2.3",
package/src/demo/bio01-similarity-diversity.ts CHANGED
@@ -15,9 +15,8 @@ export async function demoBio01UI() {
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  let df: DG.DataFrame;
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  try {
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- const demoScript = new DemoScript(
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- 'Similarity, Diversity',
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- 'Sequence similarity tracking and evaluation dataset diversity');
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+ const demoScript = new DemoScript('Similarity, Diversity',
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+ 'Sequence similarity tracking and evaluation dataset diversity', false, {autoStartFirstStep: true});
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  await demoScript
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  .step(`Load DNA sequences`, async () => {
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  grok.shell.windows.showContextPanel = false;
package/src/demo/bio01a-hierarchical-clustering-and-sequence-space.ts CHANGED
@@ -23,9 +23,9 @@ export async function demoBio01aUI() {
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  const activityColName = 'activity';
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  try {
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- const demoScript = new DemoScript(
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- 'Sequence Space',
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- 'Exploring sequence space of Macromolecules, comparison with hierarchical clustering results');
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+ const demoScript = new DemoScript('Sequence Space',
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+ 'Exploring sequence space of Macromolecules, comparison with hierarchical clustering results',
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+ false, {autoStartFirstStep: true});
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  await demoScript
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  .step(`Load DNA sequences`, async () => {
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  [df, treeHelper, dendrogramSvc] = await Promise.all([
package/src/demo/bio01b-hierarchical-clustering-and-activity-cliffs.ts CHANGED
@@ -27,9 +27,8 @@ export async function demoBio01bUI() {
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  const dimRedMethod: DimReductionMethods = DimReductionMethods.UMAP;
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  try {
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- const demoScript = new DemoScript(
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- 'Activity Cliffs',
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- 'Activity Cliffs analysis on Macromolecules data');
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+ const demoScript = new DemoScript('Activity Cliffs', 'Activity Cliffs analysis on Macromolecules data', false,
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+ {autoStartFirstStep: true});
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  await demoScript
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  .step(`Load DNA sequences`, async () => {
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  grok.shell.windows.showContextPanel = false;
package/src/demo/bio03-atomic-level.ts CHANGED
@@ -15,10 +15,7 @@ export async function demoBio03UI(): Promise<void> {
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  let dlg: DG.Dialog;
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  try {
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- await new DemoScript(
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- 'Atomic Level',
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- 'Atomic level structure of Macromolecules',
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- )
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+ await new DemoScript('Atomic Level', 'Atomic level structure of Macromolecules', false, {autoStartFirstStep: true})
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  .step(`Loading Macromolecules notation 'Helm'`, async () => {
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  grok.shell.windows.showContextPanel = false;
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  grok.shell.windows.showProperties = false;
package/src/demo/bio05-helm-msa-sequence-space.ts CHANGED
@@ -38,9 +38,8 @@ export async function demoBio05UI(): Promise<void> {
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  let pepseaDcStartPromise: Promise<void>;
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  try {
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- const demoScript = new DemoScript(
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- 'Helm, MSA, Sequence Space',
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- 'MSA and composition analysis on Helm data');
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+ const demoScript = new DemoScript('Helm, MSA, Sequence Space', 'MSA and composition analysis on Helm data',
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+ false, {autoStartFirstStep: true});
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  await demoScript
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  .step(`Load peptides with non-natural aminoacids in 'HELM' notation`, async () => {
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  [pepseaDcStatus, df] = await Promise.all([
package/src/package-test.ts CHANGED
@@ -44,8 +44,9 @@ export {tests};
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  //input: string category {optional: true}
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  //input: string test {optional: true}
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  //input: object testContext {optional: true}
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+ //input: bool stressTest {optional: true}
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  //output: dataframe result
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- export async function test(category: string, test: string, testContext: TestContext): Promise<DG.DataFrame> {
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- const data = await runTests({category, test, testContext});
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+ export async function test(category: string, test: string, testContext: TestContext, stressTest?: boolean): Promise<DG.DataFrame> {
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+ const data = await runTests({category, test, testContext, stressTest});
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  return DG.DataFrame.fromObjects(data)!;
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  }