Revision 81c27837
Added by Lorna Morris over 10 years ago
| app-import/src/main/java/eu/etaxonomy/cdm/app/vibrant/DwcaScratchpadImportActivator.java | ||
|---|---|---|
| 9 | 9 |
|
| 10 | 10 |
package eu.etaxonomy.cdm.app.vibrant; |
| 11 | 11 |
|
| 12 |
import java.io.File; |
|
| 12 | 13 |
import java.net.URI; |
| 13 | 14 |
import java.util.UUID; |
| 14 | 15 |
|
| ... | ... | |
| 37 | 38 |
private static final Logger logger = Logger.getLogger(DwcaScratchpadImportActivator.class); |
| 38 | 39 |
|
| 39 | 40 |
//database validation status (create, update, validate ...) |
| 40 |
static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;
|
|
| 41 |
static DbSchemaValidation hbm2dll = DbSchemaValidation.UPDATE;//UPDATE;//CREATE;//UPDATE;
|
|
| 41 | 42 |
|
| 42 | 43 |
// static final URI source = dwca_emonocots_dioscoreaceae(); |
| 43 | 44 |
// static final URI source = dwca_emonocots_zingiberaceae(); |
| 44 | 45 |
//static final URI source = dwca_emonocots_cypripedioideae(); |
| 45 |
static final URI source = dwca_emonocots_dioscoreaceae(); |
|
| 46 |
static final URI source = null;//dwca_antkey();//dwca_emonocots_dioscoreaceae();
|
|
| 46 | 47 |
|
| 47 | 48 |
|
| 48 | 49 |
// static final ICdmDataSource cdmDestination = CdmDestinations.localH2(); |
| ... | ... | |
| 51 | 52 |
|
| 52 | 53 |
//default nom code is ICZN as it allows adding publication year |
| 53 | 54 |
static final NomenclaturalCode defaultNomCode = NomenclaturalCode.ICBN; |
| 55 |
|
|
| 56 |
//classification Name |
|
| 57 |
static String classificationName = "Default classification"; |
|
| 54 | 58 |
|
| 55 | 59 |
//title |
| 56 | 60 |
static final String title = "Scratchpad test import"; |
| ... | ... | |
| 108 | 112 |
config.setGuessNomenclaturalReferences(guessNomRef); |
| 109 | 113 |
config.setHandleAllRefsAsCitation(handleAllRefsAsCitation); |
| 110 | 114 |
config.setUseSourceReferenceAsSec(useSourceReferenceAsSec); |
| 111 |
config.setSourceReferenceTitle(title); |
|
| 115 |
config.setSourceReferenceTitle(classificationName);//title); |
|
| 116 |
config.setClassificationName(classificationName); |
|
| 117 |
|
|
| 118 |
config.setUseSourceReferenceAsSec(true);//Lorna: what shall we use as sec reference for Scratchpads data? |
|
| 112 | 119 |
|
| 113 | 120 |
CdmDefaultImport myImport = new CdmDefaultImport(); |
| 114 | 121 |
|
| ... | ... | |
| 143 | 150 |
return sourceUrl; |
| 144 | 151 |
} |
| 145 | 152 |
|
| 153 |
//dwca_antkey_org.zip |
|
| 154 |
public static URI dwca_antkey() {
|
|
| 155 |
//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_dioscoreaceae.zip");//dwca_dioscoreaceae_e_monocot.zip
|
|
| 156 |
URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/amaryllidaceae.zip");//antkey.zip");//alismataceae.zip");//hypoxidaceae.zip");//dwca_antkey.zip");
|
|
| 157 |
return sourceUrl; |
|
| 158 |
} |
|
| 159 |
|
|
| 146 | 160 |
//emonocots_zingiberaceae |
| 147 | 161 |
public static URI dwca_emonocots_zingiberaceae() {
|
| 148 | 162 |
URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_zingiberaceae.zip");
|
| ... | ... | |
| 161 | 175 |
*/ |
| 162 | 176 |
public static void main(String[] args) {
|
| 163 | 177 |
DwcaScratchpadImportActivator me = new DwcaScratchpadImportActivator(); |
| 164 |
me.doImport(source, cdmDestination, classificationUuid, title, hbm2dll); |
|
| 178 |
|
|
| 179 |
//lorna: TODO get the classification name from the dwca zip file name |
|
| 180 |
classificationName = "Scratchpad classification";//"Amaryllidaceae"; |
|
| 181 |
|
|
| 182 |
// Directory path here |
|
| 183 |
String path = "C:/Users/l.morris/Downloads/dwca_scratchpads/nine"; |
|
| 184 |
URI sourceUrl; |
|
| 185 |
//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_zingiberaceae.zip");
|
|
| 186 |
|
|
| 187 |
String zipFile; |
|
| 188 |
File folder = new File(path); |
|
| 189 |
File[] listOfFiles = folder.listFiles(); |
|
| 190 |
|
|
| 191 |
for (int i = 0; i < listOfFiles.length; i++) |
|
| 192 |
{
|
|
| 193 |
|
|
| 194 |
if (listOfFiles[i].isFile()) |
|
| 195 |
{
|
|
| 196 |
zipFile = listOfFiles[i].getName(); |
|
| 197 |
|
|
| 198 |
if (zipFile.endsWith(".zip"))
|
|
| 199 |
{
|
|
| 200 |
//classificationName = zipFile.split(".zip")[0];
|
|
| 201 |
classificationName = zipFile.split("dwca_")[1];
|
|
| 202 |
classificationName = classificationName.split("_")[0];
|
|
| 203 |
System.out.println(classificationName); |
|
| 204 |
//start the Scratchpad name with uppercase. |
|
| 205 |
char[] stringArray = classificationName.toCharArray(); |
|
| 206 |
stringArray[0] = Character.toUpperCase(stringArray[0]); |
|
| 207 |
classificationName = new String(stringArray) + " (Scratchpads)"; |
|
| 208 |
System.out.println(classificationName); |
|
| 209 |
//System.exit(999); |
|
| 210 |
|
|
| 211 |
sourceUrl = URI.create("file:///" + path + "/" + zipFile);
|
|
| 212 |
System.out.println(sourceUrl); |
|
| 213 |
me.doImport(sourceUrl, cdmDestination, classificationUuid, title, hbm2dll); |
|
| 214 |
//System.exit(999); |
|
| 215 |
} |
|
| 216 |
} |
|
| 217 |
} |
|
| 218 |
|
|
| 219 |
//System.exit(999); |
|
| 220 |
//list all files in the directory |
|
| 221 |
//get the URI of each |
|
| 222 |
//URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/amaryllidaceae.zip");
|
|
| 223 |
|
|
| 224 |
//Lorna iterate through the dwca directly getting each dwca.zip and generate a URI for each source |
|
| 225 |
//me.doImport(source, cdmDestination, classificationUuid, title, hbm2dll); |
|
| 165 | 226 |
} |
| 166 | 227 |
|
| 167 | 228 |
} |
Also available in: Unified diff
Now iterates through all dwca.zip files downloaded using Scratchpads service and imports them into the CDM.