From 342196532f1f931994e18b31308dc92c307d6fa4 Mon Sep 17 00:00:00 2001 From: matej Date: Wed, 25 Sep 2024 19:15:39 +0200 Subject: [PATCH 1/6] #1514 replaced project_id occurrences with project and adjusted functionality with current B/E --- js/components/preview/utils.js | 4 +- js/components/target/redux/dispatchActions.js | 20 ++++++- js/reducers/api/actions.js | 56 +++++++++---------- js/reducers/api/actions.test.js | 4 +- js/reducers/api/apiReducers.js | 4 +- js/utils/genericList.js | 14 ++--- 6 files changed, 59 insertions(+), 43 deletions(-) diff --git a/js/components/preview/utils.js b/js/components/preview/utils.js index 474c35159..3f010531a 100644 --- a/js/components/preview/utils.js +++ b/js/components/preview/utils.js @@ -34,8 +34,8 @@ export const extractTargetFromURLParam = param => { export const getProjectsForTarget = (target, projectsList) => { let result = null; - if (target && projectsList && target.project_id && target.project_id.length > 0) { - const projects = projectsList.filter(project => target.project_id.includes(project.id)); + if (target && projectsList && target.project && target.project.length > 0) { + const projects = projectsList.filter(project => target.project.includes(project.id)); result = [...projects]; } return result; diff --git a/js/components/target/redux/dispatchActions.js b/js/components/target/redux/dispatchActions.js index 04798e816..586802817 100644 --- a/js/components/target/redux/dispatchActions.js +++ b/js/components/target/redux/dispatchActions.js @@ -154,7 +154,23 @@ export const getTargetProjectCombinations = (targets, projects) => { targetItems.forEach(([targetId, target]) => { if (!target.isLegacy) { const updatedTarget = target; - target.project_id.forEach(projectId => { + if (Array.isArray(target.project)) { + target.project.forEach(projectId => { + console.log('target.project array member', projectId); + const project = projects.find(project => project.id === projectId); + // const project = projects[projectId]; + if (project) { + updatedTarget.project = project; + result.push({ updatedTarget }); + } else { + console.log( + `User don't have access to project ${projectId} which is associated with target ${target.title}` + ); + } + }); + } else { + console.log('target.project', target.project); + const projectId = typeof target.project === 'object' ? target.project.id : target.project; const project = projects.find(project => project.id === projectId); // const project = projects[projectId]; if (project) { @@ -165,7 +181,7 @@ export const getTargetProjectCombinations = (targets, projects) => { `User don't have access to project ${projectId} which is associated with target ${target.title}` ); } - }); + } } else { result.push({ updatedTarget: { ...target, project: { target_access_string: 'Legacy' } } }); } diff --git a/js/reducers/api/actions.js b/js/reducers/api/actions.js index 68ab62e2c..f21069edb 100644 --- a/js/reducers/api/actions.js +++ b/js/reducers/api/actions.js @@ -7,7 +7,7 @@ export const setOpenDiscourseErrorModal = open => { return { type: constants.SET_OPEN_DISCOURSE_ERROR_MODAL, payload: open }; }; -export const setTargetIdList = function(input_json) { +export const setTargetIdList = function (input_json) { return { type: constants.SET_TARGET_ID_LIST, target_id_list: input_json @@ -28,14 +28,14 @@ export const replaceTarget = target => { }; }; -export const setDuckYankData = function(input_json) { +export const setDuckYankData = function (input_json) { return { type: constants.SET_DUCK_YANK_DATA, duck_yank_data: input_json }; }; -export const setTargetOn = function(target_id, skipTracking = false) { +export const setTargetOn = function (target_id, skipTracking = false) { return { type: constants.SET_TARGET_ON, target_on: target_id, @@ -43,62 +43,62 @@ export const setTargetOn = function(target_id, skipTracking = false) { }; }; -export const setPanddaSiteList = function(pandda_site_list) { +export const setPanddaSiteList = function (pandda_site_list) { return { type: constants.SET_PANNDA_SITE_LIST, pandda_site_list: pandda_site_list }; }; -export const setPanddaEventList = function(pandda_event_list) { +export const setPanddaEventList = function (pandda_event_list) { return { type: constants.SET_PANNDA_EVENT_LIST, pandda_event_list: pandda_event_list }; }; -export const setPanddaSiteOn = function(pandda_site_id) { +export const setPanddaSiteOn = function (pandda_site_id) { return { type: constants.SET_PANNDA_SITE_ON, pandda_site_id: pandda_site_id }; }; -export const setPanddaEventOn = function(pandda_event_id) { +export const setPanddaEventOn = function (pandda_event_id) { return { type: constants.SET_PANNDA_EVENT_ON, pandda_event_id: pandda_event_id }; }; -export const setMolGroupOn = function(mol_group_id) { +export const setMolGroupOn = function (mol_group_id) { return { type: constants.SET_MOL_GROUP_ON, mol_group_on: mol_group_id }; }; -export const setMolGroupOff = function(mol_group_id) { +export const setMolGroupOff = function (mol_group_id) { return { type: constants.SET_MOL_GROUP_OFF, mol_group_off: mol_group_id }; }; -export const setMolGroupList = function(mol_group_list) { +export const setMolGroupList = function (mol_group_list) { return { type: constants.SET_MOL_GROUP_LIST, mol_group_list: mol_group_list }; }; -export const setMoleculeList = function(molecule_list) { +export const setMoleculeList = function (molecule_list) { return { type: constants.SET_MOLECULE_LIST, molecule_list: molecule_list }; }; -export const setCachedMolLists = function(cached_mol_lists) { +export const setCachedMolLists = function (cached_mol_lists) { return { type: constants.SET_CACHED_MOL_LISTS, cached_mol_lists: cached_mol_lists @@ -182,70 +182,70 @@ export const removeLHSCompound = cmp => { }; }; -export const setSavingState = function(savingState) { +export const setSavingState = function (savingState) { return { type: constants.SET_SAVING_STATE, savingState: savingState }; }; -export const setSeshListSaving = function(seshListSaving) { +export const setSeshListSaving = function (seshListSaving) { return { type: constants.SET_SESH_LIST_SAVING, seshListSaving }; }; -export const setLatestSnapshot = function(uuid) { +export const setLatestSnapshot = function (uuid) { return { type: constants.SET_LATEST_SNAPSHOT, latestSnapshot: uuid }; }; -export const setLatestSession = function(uuid) { +export const setLatestSession = function (uuid) { return { type: constants.SET_LATEST_SESSION, latestSession: uuid }; }; -export const setSessionTitle = function(sessionTitle) { +export const setSessionTitle = function (sessionTitle) { return { type: constants.SET_SESSION_TITLE, sessionTitle: sessionTitle }; }; -export const setSessionId = function(id) { +export const setSessionId = function (id) { return { type: constants.SET_SESSION_ID, sessionId: id }; }; -export const setSessionIdList = function(input_json) { +export const setSessionIdList = function (input_json) { return { type: constants.SET_SESSION_ID_LIST, sessionIdList: input_json }; }; -export const updateSessionIdList = function(input_json) { +export const updateSessionIdList = function (input_json) { return { type: constants.UPDATE_SESSION_ID_LIST, sessionIdList: input_json }; }; -export const setTargetUnrecognised = function(bool) { +export const setTargetUnrecognised = function (bool) { return { type: constants.SET_TARGET_UNRECOGNISED, targetUnrecognised: bool }; }; -export const setUuid = function(uuid) { +export const setUuid = function (uuid) { return { type: constants.SET_UUID, uuid: uuid @@ -294,7 +294,7 @@ export const setAllDataLoaded = allDataLoaded => { }; }; -export const reloadApiState = function(apiReducers) { +export const reloadApiState = function (apiReducers) { const cachedMolList = apiReducers.cached_mol_lists; let fixedCachedMolList = {}; if (cachedMolList) { @@ -326,7 +326,7 @@ export const reloadApiState = function(apiReducers) { app_on: apiReducers.app_on, sessionIdList: apiReducers.sessionIdList, latestSession: apiReducers.latestSession, - project_id: apiReducers.project_id, + project: apiReducers.project, group_id: apiReducers.group_id, group_type: apiReducers.group_type, pandda_event_on: apiReducers.pandda_event_on, @@ -346,7 +346,7 @@ export const updateTag = (item, skipTracking = false) => { }; }; -export const setTagList = function(tagList, skipTracking = false) { +export const setTagList = function (tagList, skipTracking = false) { return { type: constants.SET_TAG_LIST, tagList: tagList, @@ -354,7 +354,7 @@ export const setTagList = function(tagList, skipTracking = false) { }; }; -export const appendTagList = function(item, skipTracking = false) { +export const appendTagList = function (item, skipTracking = false) { return { type: constants.APPEND_TAG_LIST, item: item, @@ -362,7 +362,7 @@ export const appendTagList = function(item, skipTracking = false) { }; }; -export const removeFromTagList = function(item, skipTracking = false) { +export const removeFromTagList = function (item, skipTracking = false) { return { type: constants.REMOVE_FROM_TAG_LIST, item: item, @@ -370,7 +370,7 @@ export const removeFromTagList = function(item, skipTracking = false) { }; }; -export const setCategoryList = function(categoryList, skipTracking = false) { +export const setCategoryList = function (categoryList, skipTracking = false) { return { type: constants.SET_CATEGORY_LIST, categoryList: categoryList, diff --git a/js/reducers/api/actions.test.js b/js/reducers/api/actions.test.js index 84b6ae57d..f5f5df7b0 100644 --- a/js/reducers/api/actions.test.js +++ b/js/reducers/api/actions.test.js @@ -67,7 +67,7 @@ describe("testing selection reducer's actions", () => { id: 1, uuid: 'f1b396af-87a6-4c59-8cb2-1eb37d08bc16', title: 'Created on 13/01/2020, 15:20:10', - scene: 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created: '2020-01-13T14:20:11.434086Z', modified: '2020-01-13T14:20:11.434145Z', user_id: 3, @@ -134,7 +134,7 @@ describe("testing selection reducer's actions", () => { app_on: 'apiReducers.app_on', sessionIdList: 'apiReducers.sessionIdList', latestSession: 'apiReducers.latestSession', - project_id: 'apiReducers.project_id', + project: 'apiReducers.project', group_id: 'apiReducers.group_id', group_type: 'apiReducers.group_type', pandda_event_on: 'apiReducers.pandda_event_on', diff --git a/js/reducers/api/apiReducers.js b/js/reducers/api/apiReducers.js index 557750369..a2ce50660 100644 --- a/js/reducers/api/apiReducers.js +++ b/js/reducers/api/apiReducers.js @@ -6,7 +6,7 @@ import { savingStateConst } from '../../components/snapshot/constants'; import { tags } from '../../components/preview/tags/redux/tempData'; export const INITIAL_STATE = { - project_id: undefined, + project: undefined, target_id: undefined, target_id_list: [], legacy_target_id_list: [], @@ -353,7 +353,7 @@ export default function apiReducers(state = INITIAL_STATE, action = {}) { case constants.RELOAD_API_STATE: return Object.assign({}, state, { - project_id: action.project_id, + project: action.project, target_on_name: action.target_on_name, target_on: action.target_on, target_id: action.target_id, diff --git a/js/utils/genericList.js b/js/utils/genericList.js index 23a309b45..8041dfd19 100644 --- a/js/utils/genericList.js +++ b/js/utils/genericList.js @@ -8,7 +8,7 @@ import { base_url as base_url_const } from '../components/routes/constants'; // START of functions from GenericList export const getUrl = ({ list_type, - project_id, + project, target_on, group_type, mol_group_on, @@ -28,8 +28,8 @@ export const getUrl = ({ let get_params = {}; if (list_type === listTypes.TARGET) { base_url += 'targets/'; - if (project_id !== undefined) { - get_params.project_id = project_id; + if (project !== undefined) { + get_params.project = project; } } else if (list_type === OBJECT_TYPE.MOLECULE_GROUP) { if (target_on !== undefined) { @@ -66,8 +66,8 @@ export const getUrl = ({ } } else if (list_type === listTypes.SESSIONS) { base_url += 'viewscene/?user_id=' + userId; - if (project_id !== undefined) { - get_params.project_id = project_id; + if (project !== undefined) { + get_params.project = project; setSeshListSaving(true); } } else { @@ -201,7 +201,7 @@ export function getNumberFromCode(inputCode) { if (codeAfterIdentifier != null) { let startingNumber = (codeAfterIdentifier.match(/\d+/) || [0]) - .map(function(v) { + .map(function (v) { return +v; }) .shift(); @@ -212,7 +212,7 @@ export function getNumberFromCode(inputCode) { let codeAfterSubIdentifier = codeAfterIdentifier.split(CONSTANTS.sub_identifier)[1]; if (codeAfterSubIdentifier != null) { let startingSubNumber = (codeAfterSubIdentifier.match(/\d+/) || [0]) - .map(function(v) { + .map(function (v) { return +v; }) .shift(); From fad9c223b90b1e58d014e2dd74f074cb0ef95718 Mon Sep 17 00:00:00 2001 From: matej Date: Tue, 1 Oct 2024 16:33:33 +0200 Subject: [PATCH 2/6] #1514 added target_access_string to /api/download_structures, replaced /api/molgroup with /api/siteobservationgroup, minor fixes --- js/components/projects/index.js | 2 +- .../modals/downloadStructuresDialog.js | 16 ++++---- js/components/target/redux/dispatchActions.js | 37 ++++++------------- js/utils/genericList.js | 3 +- 4 files changed, 23 insertions(+), 35 deletions(-) diff --git a/js/components/projects/index.js b/js/components/projects/index.js index 35f566a02..0f8568195 100644 --- a/js/components/projects/index.js +++ b/js/components/projects/index.js @@ -771,7 +771,7 @@ export const Projects = memo(({ }) => { - +
{project.target.title === undefined ? project.target : project.target.title}
 diff --git a/js/components/snapshot/modals/downloadStructuresDialog.js b/js/components/snapshot/modals/downloadStructuresDialog.js index a3a83f798..443464004 100644 --- a/js/components/snapshot/modals/downloadStructuresDialog.js +++ b/js/components/snapshot/modals/downloadStructuresDialog.js @@ -130,7 +130,7 @@ const createFlagObjectFromFlagList = flagList => { ); }; -export const DownloadStructureDialog = memo(({}) => { +export const DownloadStructureDialog = memo(({ }) => { const newDownload = '--- NEW DOWNLOAD ---'; const dispatch = useDispatch(); const classes = useStyles(); @@ -147,6 +147,7 @@ export const DownloadStructureDialog = memo(({}) => { const taggedMolecules = useSelector(state => selectJoinedMoleculeList(state)); const downloadTags = useSelector(state => state.apiReducers.downloadTags); const currentSnapshot = useSelector(state => state.projectReducers.currentSnapshot); + const currentProject = useSelector(state => state.targetReducers.currentProject); const [structuresSelection, setStructuresSelection] = useState('allStructures'); @@ -236,6 +237,7 @@ export const DownloadStructureDialog = memo(({}) => { } else { requestObject = { target_name: targetName, + target_access_string: currentProject?.target_access_string, proteins: proteinNames, ...mapFiles, ...crystallographicFiles, @@ -253,12 +255,12 @@ export const DownloadStructureDialog = memo(({}) => { const prepareDownloadClicked = () => async (dispatch, getState) => { const options = { link: { linkAction: downloadStructuresZip, linkText: 'Click to Download', linkParams: [] } }; if (selectedDownload !== newDownload) { - const donwloadTag = findDownload(selectedDownload); - if (donwloadTag) { + const downloadTag = findDownload(selectedDownload); + if (downloadTag) { setGeneralError(false); setZipPreparing(true); setAlreadyInProgress(false); - getDownloadStructuresUrl(donwloadTag.additional_info.requestObject) + getDownloadStructuresUrl(downloadTag.additional_info.requestObject) .then(resp => { if (resp.status === 208) { //same download is already preparing for someone else @@ -276,7 +278,7 @@ export const DownloadStructureDialog = memo(({}) => { if (resp) { const fileSizeInBytes = resp.headers['content-length']; setFileSize(getFileSizeString(fileSizeInBytes)); - const url = generateUrlFromTagName(donwloadTag.tag); + const url = generateUrlFromTagName(downloadTag.tag); options.link.linkParams = [url]; setDownloadTagUrl(url); setZipPreparing(false); @@ -534,8 +536,8 @@ export const DownloadStructureDialog = memo(({}) => { diff --git a/js/components/target/redux/dispatchActions.js b/js/components/target/redux/dispatchActions.js index 586802817..cada2aa8c 100644 --- a/js/components/target/redux/dispatchActions.js +++ b/js/components/target/redux/dispatchActions.js @@ -154,33 +154,18 @@ export const getTargetProjectCombinations = (targets, projects) => { targetItems.forEach(([targetId, target]) => { if (!target.isLegacy) { const updatedTarget = target; - if (Array.isArray(target.project)) { - target.project.forEach(projectId => { - console.log('target.project array member', projectId); - const project = projects.find(project => project.id === projectId); - // const project = projects[projectId]; - if (project) { - updatedTarget.project = project; - result.push({ updatedTarget }); - } else { - console.log( - `User don't have access to project ${projectId} which is associated with target ${target.title}` - ); - } - }); + console.log('target.project', target.project); + // TODO debug this? + const projectId = typeof target.project === 'object' ? target.project.id : target.project; + const project = projects.find(project => project.id === projectId); + // const project = projects[projectId]; + if (project) { + updatedTarget.project = project; + result.push({ updatedTarget }); } else { - console.log('target.project', target.project); - const projectId = typeof target.project === 'object' ? target.project.id : target.project; - const project = projects.find(project => project.id === projectId); - // const project = projects[projectId]; - if (project) { - updatedTarget.project = project; - result.push({ updatedTarget }); - } else { - console.log( - `User don't have access to project ${projectId} which is associated with target ${target.title}` - ); - } + console.log( + `User don't have access to project ${projectId} which is associated with target ${target.title}` + ); } } else { result.push({ updatedTarget: { ...target, project: { target_access_string: 'Legacy' } } }); diff --git a/js/utils/genericList.js b/js/utils/genericList.js index 8041dfd19..ecab65add 100644 --- a/js/utils/genericList.js +++ b/js/utils/genericList.js @@ -33,8 +33,9 @@ export const getUrl = ({ } } else if (list_type === OBJECT_TYPE.MOLECULE_GROUP) { if (target_on !== undefined) { + // api/molgroup was replaced by api/siteobservationgroup get_params.target_id = target_on; - base_url += 'molgroup/'; + base_url += 'siteobservationgroup/'; get_params.group_type = group_type; } } else if (list_type === listTypes.MOLECULE) { From 65e1edec0ff239a568e0ccd02d016a2a8ce16d7d Mon Sep 17 00:00:00 2001 From: matej Date: Mon, 14 Oct 2024 13:31:35 +0200 Subject: [PATCH 3/6] #1523 adjusted inspiration dialog layout and removed molecular properties headers from it too --- js/components/datasets/inspirationDialog.js | 8 ++++---- .../preview/molecule/moleculeView/moleculeView.js | 4 ++-- 2 files changed, 6 insertions(+), 6 deletions(-) diff --git a/js/components/datasets/inspirationDialog.js b/js/components/datasets/inspirationDialog.js index e018ae13c..23aa4c7c4 100644 --- a/js/components/datasets/inspirationDialog.js +++ b/js/components/datasets/inspirationDialog.js @@ -32,8 +32,8 @@ import GroupNglControlButtonsContext from '../preview/molecule/groupNglControlBu const useStyles = makeStyles(theme => ({ paper: { - width: 472, - height: 294, + width: 505, + // height: 294, overflowY: 'hidden' }, molHeader: { @@ -382,11 +382,11 @@ export const InspirationDialog = memo( <> - {Object.keys(moleculeProperty).map(key => ( + {/* {Object.keys(moleculeProperty).map(key => ( {moleculeProperty[key]} - ))} + ))} */} {allSelectedMolecules.length > 0 && ( ({ image: { border: 'solid 1px', borderColor: theme.palette.background.divider, - borderStyle: 'solid solid solid none', + borderStyle: 'none none none solid', position: 'relative' }, imageMargin: { @@ -1203,7 +1203,7 @@ const MoleculeView = memo( - + {/* Title label */} From 42b36a4edec528f45e25cbdec203187a6b9bc42f Mon Sep 17 00:00:00 2001 From: matej Date: Mon, 14 Oct 2024 20:48:27 +0200 Subject: [PATCH 4/6] #1463 show "Ascending" instead of "ASC" when there is a possible space for it --- .../preview/molecule/observationCmpList.js | 49 ++++++++++++++++--- 1 file changed, 41 insertions(+), 8 deletions(-) diff --git a/js/components/preview/molecule/observationCmpList.js b/js/components/preview/molecule/observationCmpList.js index c8df5b25f..289d7d9eb 100644 --- a/js/components/preview/molecule/observationCmpList.js +++ b/js/components/preview/molecule/observationCmpList.js @@ -225,6 +225,9 @@ const useStyles = makeStyles(theme => ({ //color: theme.palette.black } }, + selectButton: { + padding: '4px 2px !important' + }, formControl: { color: 'inherit', margin: theme.spacing(1), @@ -416,10 +419,40 @@ export const ObservationCmpList = memo(({ hideProjects }) => { const filterRef = useRef(); const tagEditorRef = useRef(); const scrollBarRef = useRef(); + const hitNavigatorRef = useRef(); const [tagEditorAnchorEl, setTagEditorAnchorEl] = useState(null); + const [hitNavigatorWidth, setHitNavigatorWidth] = useState(0); const areLSHCompoundsInitialized = useSelector(state => state.selectionReducers.areLSHCompoundsInitialized); + // just modified https://stackoverflow.com/a/73248253/2331858 + useEffect(() => { + if (hitNavigatorRef && hitNavigatorRef.current) { + console.log(hitNavigatorRef); + setHitNavigatorWidth(hitNavigatorRef.current.clientWidth); + + // we instantiate the resizeObserver and we pass + // the event handler to the constructor + const resizeObserver = new ResizeObserver(() => { + if (hitNavigatorRef.current.offsetWidth !== hitNavigatorWidth) { + setHitNavigatorWidth(hitNavigatorRef.current.offsetWidth); + } + }); + + // the code in useEffect will be executed when the component + // has mounted, so we are certain hitNavigatorRef.current will contain + // the element we want to observe + resizeObserver.observe(hitNavigatorRef.current); + + // if useEffect returns a function, it is called right before the + // component unmounts, so it is the right place to stop observing + // the element + return function cleanup() { + resizeObserver.disconnect(); + } + } + }, [hitNavigatorRef, hitNavigatorWidth]); + if (directDisplay && directDisplay.target) { target = directDisplay.target; } @@ -1060,7 +1093,7 @@ export const ObservationCmpList = memo(({ hideProjects }) => { }; return ( - + { { - +