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Improve search of authorized and unauthorized studies #4603

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Improve search of authorized and unauthorized studies #4603

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8b211a8
fix 9915 improve search of authorized studies
jagnathan Feb 15, 2023
6c849ad
Updated logic and refactoring and prettier changes
jagnathan Apr 21, 2023
2961c91
fix 9915 improve search of authorized studies
jagnathan Feb 15, 2023
9211a09
Updated logic and refactoring and prettier changes
jagnathan Apr 21, 2023
32dddd8
Merge branch 'fix-9915-improved-findability' of https://github.com/ja…
jagnathan May 2, 2023
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107 changes: 68 additions & 39 deletions src/shared/components/query/CancerStudySelector.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -57,6 +57,9 @@ export default class CancerStudySelector extends React.Component<
onCheckAllFiltered: () => {
this.logic.mainView.toggleAllFiltered();
},
onCheckAuthorizedFiltered: () => {
this.logic.mainView.toggleAllAuthorizedAndFiltered();
},
onClearFilter: () => {
this.store.setSearchText('');
},
Expand Down Expand Up @@ -193,9 +196,16 @@ export default class CancerStudySelector extends React.Component<
shownAndSelectedStudies,
} = this.logic.mainView.getSelectionReport();

const shownAndAuthorizedStudies = shownStudies.filter(study => {
return study.readPermission;
});
const quickSetButtons = this.logic.mainView.quickSelectButtons(
getServerConfig().skin_quick_select_buttons
);
const shownStudiesLengthstring =
shownStudies.length < this.store.cancerStudies.result.length
? 'matching filter'
: '';

return (
<FlexCol
Expand Down Expand Up @@ -307,45 +317,64 @@ export default class CancerStudySelector extends React.Component<
</div>
</Then>
<Else>
<label>
<input
type="checkbox"
data-test="selectAllStudies"
style={{ top: -2 }}
onClick={
this.handlers
.onCheckAllFiltered
}
checked={
shownAndSelectedStudies.length ===
shownStudies.length
}
/>
<strong>
{shownAndSelectedStudies.length ===
shownStudies.length
? `Deselect all listed studies ${
shownStudies.length <
this.store
.cancerStudies
.result.length
? 'matching filter'
: ''
} (${
shownStudies.length
})`
: `Select all listed studies ${
shownStudies.length <
this.store
.cancerStudies
.result.length
? 'matching filter'
: ''
} (${
shownStudies.length
})`}
</strong>
</label>
<If
condition={
getServerConfig()
.skin_home_page_show_unauthorized_studies ===
false
}
>
<Then>
<label>
<input
type="checkbox"
data-test="selectAllStudies"
style={{ top: -2 }}
onClick={
this.handlers
.onCheckAllFiltered
}
checked={
shownAndSelectedStudies.length ===
shownStudies.length
}
/>
<strong>
{shownAndSelectedStudies.length ===
shownStudies.length
? `Deselect all listed studies ${shownStudiesLengthstring} (${shownStudies.length})`
: `Select all listed studies ${shownStudiesLengthstring} (${shownStudies.length})`}
</strong>
</label>
</Then>
<Else>
<label>
<input
type="checkbox"
data-test="selectAuthorizedStudies"
style={{ top: -2 }}
onClick={
this.handlers
.onCheckAuthorizedFiltered
}
checked={
shownAndSelectedStudies.length ===
shownAndAuthorizedStudies.length &&
shownAndAuthorizedStudies.length >
0
}
/>
<strong>
{shownAndSelectedStudies.length ===
shownAndAuthorizedStudies.length &&
shownAndAuthorizedStudies.length >
0
? `Deselect all authorized studies ${shownStudiesLengthstring} (${shownAndAuthorizedStudies.length})`
: `Select all authorized studies ${shownStudiesLengthstring} (${shownAndAuthorizedStudies.length})`}
</strong>
</label>
</Else>
</If>
</Else>
</If>
</If>
Expand Down
19 changes: 17 additions & 2 deletions src/shared/components/query/QueryStore.ts
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Original file line number Diff line number Diff line change
Expand Up @@ -129,7 +129,7 @@ export class QueryStore {

@computed
get queryParser() {
return new QueryParser(this.referenceGenomes);
return new QueryParser(this.referenceGenomes, this.readPermissions);
}

initialize(urlWithInitialParams?: string) {
Expand Down Expand Up @@ -1236,7 +1236,12 @@ export class QueryStore {
return client
.getAllSamplesOfPatientInStudyUsingGET({ studyId, patientId })
.then(
samples => ({ studyId, patientId, samples, error: undefined }),
samples => ({
studyId,
patientId,
samples,
error: undefined,
}),
error => ({
studyId,
patientId,
Expand Down Expand Up @@ -1479,6 +1484,16 @@ export class QueryStore {
return new Set(referenceGenomes);
}

@computed get readPermissions(): Set<string> {
const studies = Array.from(this.treeData.map_node_meta.keys()).filter(
s => typeof (s as CancerStudy).readPermission !== 'undefined'
);
const readPermissions = studies.map(n =>
(n as CancerStudy).readPermission.toString()
);
return new Set(readPermissions);
}

@computed get selectableSelectedStudies() {
return this.selectableSelectedStudyIds
.map(
Expand Down
36 changes: 36 additions & 0 deletions src/shared/components/query/StudyListLogic.ts
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Original file line number Diff line number Diff line change
Expand Up @@ -400,6 +400,42 @@ export class FilteredCancerTreeView {
);
}

@action toggleAllAuthorizedAndFiltered() {
const {
selectableSelectedStudyIds,
selectableSelectedStudies,
shownStudies,
shownAndSelectedStudies,
} = this.getSelectionReport();

let updatedSelectableSelectedStudyIds: string[] = [];
const shownAndAuthorizedStudies = shownStudies.filter(study => {
return study.readPermission;
});
if (
shownAndAuthorizedStudies.length === shownAndSelectedStudies.length
) {
// deselect
updatedSelectableSelectedStudyIds = _.without(
this.store.selectableSelectedStudyIds,
...shownAndAuthorizedStudies.map(
(study: CancerStudy) => study.studyId
)
);
} else {
updatedSelectableSelectedStudyIds = _.union(
this.store.selectableSelectedStudyIds,
shownAndAuthorizedStudies.map(
(study: CancerStudy) => study.studyId
)
);
}

this.store.selectableSelectedStudyIds = updatedSelectableSelectedStudyIds.filter(
id => !_.includes(this.store.deletedVirtualStudies, id)
);
}

@action selectAllMatchingStudies(match: string | string[]) {
const {
selectableSelectedStudyIds,
Expand Down
5 changes: 3 additions & 2 deletions src/shared/components/query/filteredSearch/Phrase.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -167,7 +167,8 @@ function matchPhrase(phrase: string, fullText: string) {

/**
* Full match using lowercase
* Need to convert boolean to string before applying lowercase
*/
function matchPhraseFull(phrase: string, fullText: string) {
return fullText.toLowerCase() === phrase.toLowerCase();
function matchPhraseFull(phrase: string, toMatch: boolean | string | number) {
return _.toString(toMatch).toLowerCase() === phrase.toLowerCase();
}
12 changes: 10 additions & 2 deletions src/shared/components/query/filteredSearch/field/CheckboxFilterField.spec.ts
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Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,10 @@ import {
} from 'shared/components/query/filteredSearch/field/CheckboxFilterField';
import { CancerTreeSearchFilter } from 'shared/lib/query/textQueryUtils';
import { ListPhrase } from 'shared/components/query/filteredSearch/Phrase';
import {
toFilterFieldOption,
toFilterFieldValue,
} from 'shared/components/query/filteredSearch/field/FilterFieldOption';

describe('CheckboxFilterField', () => {
describe('createQueryUpdate', () => {
Expand All @@ -12,7 +16,7 @@ describe('CheckboxFilterField', () => {
nodeFields: ['studyId'],
form: {
input: FilterCheckbox,
options: ['a', 'b', 'c', 'd', 'e'],
options: ['a', 'b', 'c', 'd', 'e'].map(toFilterFieldOption),
label: 'Test label',
},
} as CancerTreeSearchFilter;
Expand Down Expand Up @@ -48,7 +52,11 @@ describe('CheckboxFilterField', () => {
it('removes all update when only And', () => {
const checked = dummyFilter.form.options;
const toRemove: ListPhrase[] = [];
const result = createQueryUpdate(toRemove, checked, dummyFilter);
const result = createQueryUpdate(
toRemove,
checked.map(toFilterFieldValue),
dummyFilter
);
expect(result.toAdd?.length).toEqual(0);
});

Expand Down
59 changes: 32 additions & 27 deletions src/shared/components/query/filteredSearch/field/CheckboxFilterField.tsx
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Original file line number Diff line number Diff line change
Expand Up @@ -13,11 +13,15 @@ import {
} from 'shared/lib/query/textQueryUtils';
import { FieldProps } from 'shared/components/query/filteredSearch/field/FilterFormField';
import { ListPhrase } from 'shared/components/query/filteredSearch/Phrase';
import {
FilterFieldOption,
toFilterFieldValue,
} from 'shared/components/query/filteredSearch/field/FilterFieldOption';

export type CheckboxFilterField = {
input: typeof FilterCheckbox;
label: string;
options: string[];
options: FilterFieldOption[];
};

export const FilterCheckbox: FunctionComponent<FieldProps> = props => {
Expand All @@ -43,53 +47,53 @@ export const FilterCheckbox: FunctionComponent<FieldProps> = props => {
});

for (const option of options) {
const isChecked = isOptionChecked(option, relevantClauses);
const isChecked = isOptionChecked(option.value, relevantClauses);
if (isChecked) {
checkedOptions.push(option);
checkedOptions.push(option.value);
}
}

return (
<div className="filter-checkbox">
<h5>{props.filter.form.label}</h5>
<div>
{options.map((option: string) => {
const id = `input-${option}`;
let isChecked = checkedOptions.includes(option);
{options.map((option: FilterFieldOption) => {
const id = `input-${option.displayValue}-${option.value}`;
let isChecked = checkedOptions.includes(option.value);
return (
<div
style={{
display: 'inline-block',
padding: '0 1em 0 0',
}}
>
<input
type="checkbox"
id={id}
value={option}
checked={isChecked}
onClick={() => {
isChecked = !isChecked;
updatePhrases(option, isChecked);
const update = createQueryUpdate(
toRemove,
checkedOptions,
props.filter
);
props.onChange(update);
}}
style={{
display: 'inline-block',
}}
/>
<label
htmlFor={id}
style={{
display: 'inline-block',
padding: '0 0 0 0.2em',
}}
>
{option}
<input
type="checkbox"
id={id}
value={option.displayValue}
checked={isChecked}
onClick={() => {
isChecked = !isChecked;
updatePhrases(option.value, isChecked);
const update = createQueryUpdate(
toRemove,
checkedOptions,
props.filter
);
props.onChange(update);
}}
style={{
display: 'inline-block',
}}
/>{' '}
{option.displayValue}
</label>
</div>
);
Expand Down Expand Up @@ -159,7 +163,8 @@ export function createQueryUpdate(
toAdd = [];
} else if (onlyNot || moreAnd) {
const phrase = options
.filter(o => !optionsToAdd.includes(o))
.filter(o => !optionsToAdd.includes(o.value))
.map(toFilterFieldValue)
.join(FILTER_VALUE_SEPARATOR);
toAdd = [new NotSearchClause(createListPhrase(prefix, phrase, fields))];
} else {
Expand Down
12 changes: 12 additions & 0 deletions src/shared/components/query/filteredSearch/field/FilterFieldOption.ts
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Original file line number Diff line number Diff line change
@@ -0,0 +1,12 @@
export type FilterFieldOption = {
value: string;
displayValue: string;
};

export function toFilterFieldOption(option: string) {
return { value: option, displayValue: option };
}

export function toFilterFieldValue(option: FilterFieldOption) {
return option.value;
}
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