#468 incremental species-list support

Author: Adam Collins

gradle.properties

@@ -10,4 +10,4 @@ webdriverBinariesVersion=2.6
 #chromeDriverVersion=2.45.0
 geckodriverVersion=0.24.0
 seleniumSafariDriverVersion=3.14.0
-alaSecurityLibsVersion=6.2.0
+alaSecurityLibsVersion=6.3.0-SNAPSHOT

grails-app/assets/javascripts/spApp/controller/areaReportCtrl.js

@@ -349,15 +349,15 @@
                             {
                                 name: $i18n(372, "Migratory species - EPBC"),
                                 query: {q: areaQ.q, bs: areaQ.bs, ws: areaQ.ws, wkt: areaQ.wkt, qid: areaQ.qid},
-                                link: ListsService.url() + '/speciesListItem/list/' + $SH.migratoryDR,
+                                link: ListsService.urlUi() + $SH.migratoryDR,
                                 linkName: $i18n(373, "Full list"),
                                 extraQ: ["species_list_uid:" + $SH.migratoryDR],
                                 ignore: $SH.listsUrl === '' || $SH.migratoryDR === ''
                             },
                             {
                                 name: $i18n(374, "Australian iconic species"),
                                 query: {q: areaQ.q, bs: areaQ.bs, ws: areaQ.ws, wkt: areaQ.wkt, qid: areaQ.qid},
-                                link: ListsService.url() + '/speciesListItem/list/' + $SH.iconicSpeciesDR,
+                                link: ListsService.urlUi() + $SH.iconicSpeciesDR,
                                 linkName: $i18n(373, "Full list"),
                                 extraQ: ["species_list_uid:" + $SH.iconicSpeciesDR],
                                 ignore: $SH.listsUrl === '' || $SH.iconicSpeciesDR === ''

grails-app/assets/javascripts/spApp/controller/createSpeciesListCtrl.js

@@ -33,16 +33,7 @@
 
                 $scope.maxFileSize = $SH.maxUploadSize;
 
-                $scope.listTypes = [
-                    {id: 'OTHER', label: "Other"},
-                    {id: 'SPECIES_CHARACTERS', label: "Species characters list"},
-                    {id: 'CONSERVATION_LIST', label: "Conservation list"},
-                    {id: 'SENSITIVE_LIST', label: "Sensitive list of species"},
-                    {id: 'LOCAL_LIST', label: "Local checklist"},
-                    {id: 'COMMON_TRAIT', label: "Common trait of species"},
-                    {id: 'COMMON_HABITAT', label: "Common habitat of species"},
-                    {id: 'TEST', label: "Test list"}
-                ]
+                $scope.listTypes = $SH.listTypes;
 
                 $scope.newListName = $i18n(375, "My species list");
                 $scope.newListDescription = '';

grails-app/assets/javascripts/spApp/directive/listsList.js

@@ -70,12 +70,7 @@
                         };
 
                         scope.itemUrl = function (item) {
-                            if (ListsService.urlUi()) {
-                                // new species-lists as urlUi defined
-                                return ListsService.urlUi() + '/#/list/' + item.dataResourceUid
-                            } else {
-                                return ListsService.url() + '/speciesListItem/list/' + item.dataResourceUid
-                            }
+                            return ListsService.urlUi() + item.dataResourceUid
                         };
 
                         scope.add = function (item) {

grails-app/conf/application.yml

@@ -212,6 +212,23 @@ lists:
     facets: true
     migratoryDR: 'dr1005'
     iconicSpeciesDR: 'dr781'
+    listTypes:
+      - id: 'OTHER'
+        label: "Other"
+      - id: 'SPECIES_CHARACTERS'
+        label: "Species characters list"
+      - id: 'CONSERVATION_LIST'
+        label: "Conservation list"
+      - id: 'SENSITIVE_LIST'
+        label: "Sensitive list of species"
+      - id: 'LOCAL_LIST'
+        label: "Local checklist"
+      - id: 'COMMON_TRAIT'
+        label: "Common trait of species"
+      - id: 'COMMON_HABITAT'
+        label: "Common habitat of species"
+      - id: 'TEST'
+        label: "Test list"
 #lists:
 #    useListWs: true
 #    url: 'http://localhost:8080'
@@ -221,6 +238,19 @@ lists:
 #    facets: true
 #    migratoryDR: 'dr1005'
 #    iconicSpeciesDR: 'dr781'
+#    listTypes:
+#      - id: 'CONSERVATION_LIST'
+#        label: "Conservation species list"
+#      - id: 'SENSITIVE_LIST'
+#        label: "Sensitive list"
+#      - id: 'INVASIVE'
+#        label: "Invasive species list"
+#      - id: 'COMMON_TRAIT'
+#        label: "Traits"
+#      - id: 'LOCAL_LIST'
+#        label: "Local checklist"
+#      - id: 'SPECIES_CHARACTERS'
+#        label: "Species characters"
 
 journalmap:
     url: 'https://www.journalmap.org'

grails-app/controllers/au/org/ala/spatial/portal/PortalController.groovy

@@ -9,7 +9,6 @@ import org.apache.commons.lang.StringUtils
 import org.apache.http.client.methods.HttpGet
 import org.apache.http.client.methods.HttpPost
 import org.apache.http.entity.ContentType
-import org.jasig.cas.client.util.CommonUtils
 import org.springframework.web.multipart.MultipartFile
 import org.springframework.web.multipart.MultipartHttpServletRequest
 
@@ -378,19 +377,36 @@ class PortalController {
 
             def r
             if (grailsApplication.config.lists.useListWs) {
-                // format input
-                /*
-                    {
-                        "listName": name,
-                        "listItems": items,
-                        "description": description,
-                        "isPrivate": makePrivate,
-                        "listType": listType
-                    }
-                 */
-                r = webService.post("${url}/upload", json, null, ContentType.APPLICATION_JSON, false, true)
+                // create tmp file
+                File tmpFile = File.createTempFile("spatial-species-list-",".csv")
+                BufferedWriter fw = new BufferedWriter(new FileWriter(tmpFile))
+                fw.writeLine("taxonID")
+                for (String item : json.listItems.split(",")) {
+                    fw.writeLine(item)
+                }
+                fw.flush()
+                fw.close()
+
+                r = webService.postMultipart("${url}/upload", null, null, [file: tmpFile], ContentType.APPLICATION_JSON, false, true)
+
+                tmpFile.delete()
 
-                r = webService.post("${url}/ingest/${speciesListID}", json, null, ContentType.APPLICATION_JSON, false, true)
+                if (r.statusCode == 200) {
+                    def metadata = [
+                            file       : r.resp.localFile,
+                            title      : json.listName,
+                            description: json.description ?: json.listName,
+                            listType   : json.listType,
+                            region     : "AUS", // TODO: replicate species-lists behaviour, depends on species-lists issue #83
+                            licence    : "CC-BY", // TODO: replicate species-lists behaviour, depends on species-lists issue #83
+                            isPrivate  : json.isPrivate
+                    ]
+
+                    r = webService.post("${url}/ingest", metadata, [file: r.resp.localFile], ContentType.APPLICATION_JSON, false, true)
+
+                    // backward compatible id field
+                    r.resp.druid = r.resp.id
+                }
             } else {
                 r = webService.post("${url}/ws/speciesList/", json)
             }

grails-app/views/portal/index.gsp

@@ -40,8 +40,9 @@
         layersServiceUrl: '${config.layersService.url}',
         samplingUrl: '${config.sampling.url}',
         listsUrl: '${config.lists.url}',
-        listsUrlUi: '${config.lists.urlUi}',
+        listsUrlUi: '${config.lists.urlUi + (config.lists.useListWs ? "/#/list/" : "/speciesListItem/list/")}',
         listsFacets: ${config.lists.facets},
+        listTypes: ${(config.lists.listTypes as grails.converters.JSON).toString().encodeAsRaw()},
         sandboxUrl: '${config.sandbox.url}',
         sandboxServiceUrl: '${config.sandboxService.url}',
         sandboxUiUrl: '${config.sandbox.uiUrl}',