public long updatePart(String userId, long partId, PartData part) { Entry existing = dao.get(partId); authorization.expectWrite(userId, existing); Entry entry = InfoToModelFactory.updateEntryField(part, existing); entry.getLinkedEntries().clear(); if (part.getLinkedParts() != null && part.getLinkedParts().size() > 0) { for (PartData data : part.getLinkedParts()) { Entry linked = dao.getByPartNumber(data.getPartId()); // check permissions on link if (!authorization.canRead(userId, linked)) { continue; } if (!canLink(entry, linked)) continue; entry.getLinkedEntries().add(linked); } } entry.setModificationTime(Calendar.getInstance().getTime()); if (entry.getVisibility() == Visibility.DRAFT.getValue()) { List<EntryField> invalidFields = EntryUtil.validates(part); if (invalidFields.isEmpty()) entry.setVisibility(Visibility.OK.getValue()); } entry = dao.update(entry); // check pi email String piEmail = entry.getPrincipalInvestigatorEmail(); if (StringUtils.isNotEmpty(piEmail)) { Account pi = DAOFactory.getAccountDAO().getByEmail(piEmail); if (pi != null) { // add write permission for the PI (method also checks to see if permission already exists) AccessPermission accessPermission = new AccessPermission(); accessPermission.setArticle(AccessPermission.Article.ACCOUNT); accessPermission.setArticleId(pi.getId()); accessPermission.setType(AccessPermission.Type.WRITE_ENTRY); accessPermission.setTypeId(entry.getId()); permissionsController.addPermission(userId, accessPermission); } } return entry.getId(); }
private static Entry setCommon(Entry entry, PartData info) { if (entry == null || info == null) return null; if (info.getName() != null) entry.setName(info.getName()); if (info.getSelectionMarkers() != null) { Set<SelectionMarker> markers = getSelectionMarkers(info.getSelectionMarkers(), entry); entry.setSelectionMarkers(markers); } if (info.getReferences() != null) entry.setReferences(info.getReferences()); if (StringUtils.isBlank(entry.getPartNumber())) entry.setPartNumber(info.getPartId()); Date currentTime = new Date(); if (entry.getCreationTime() == null) entry.setCreationTime(currentTime); entry.setModificationTime(currentTime); if (info.getOwnerEmail() != null) { entry.setOwnerEmail(info.getOwnerEmail()); } if (info.getOwner() != null) entry.setOwner(info.getOwner()); if (info.getCreatorEmail() != null) { entry.setCreatorEmail(info.getCreatorEmail()); } if (info.getCreator() != null) entry.setCreator(info.getCreator()); if (info.getStatus() == null) { if (StringUtils.isBlank(entry.getStatus())) entry.setStatus(""); } else entry.setStatus(info.getStatus()); if (info.getAlias() != null) entry.setAlias(info.getAlias()); if (info.getBioSafetyLevel() == null) { if (entry.getBioSafetyLevel() == null) entry.setBioSafetyLevel(0); } else entry.setBioSafetyLevel(info.getBioSafetyLevel()); if (info.getShortDescription() != null) entry.setShortDescription(info.getShortDescription()); if (info.getLongDescription() != null) entry.setLongDescription(info.getLongDescription()); if (info.getIntellectualProperty() != null) entry.setIntellectualProperty(info.getIntellectualProperty()); Set<Link> links = getLinks(info.getLinks(), entry); entry.setLinks(links); Visibility visibility = info.getVisibility(); if (visibility != null) entry.setVisibility(visibility.getValue()); // checking for null instead of blank since it could be cleared if (info.getFundingSource() != null) entry.setFundingSource(info.getFundingSource()); if (info.getPrincipalInvestigator() != null) entry.setPrincipalInvestigator(info.getPrincipalInvestigator()); if (info.getPrincipalInvestigatorEmail() != null) entry.setPrincipalInvestigatorEmail(info.getPrincipalInvestigatorEmail()); if (info.getKeywords() != null) entry.setKeywords(info.getKeywords()); // parameters List<Parameter> parameters = getParameters(info.getCustomFields(), entry); entry.setParameters(parameters); return entry; }