/**
* Method to fill the JSON with the experiment information. This JSON includes the files field.
*
* @param json Input JSON to fill with data.
* @param zipPath Path of the temporary zip files for the Experiment.
* @return String with the new JSON.
* @throws IOException
*/
private String getJSONExperiment(String json, String zipPath) throws IOException {
// Get bioID
json += "\"id\":\"" + selExp.getBioID() + "\"";
// Set zip file
Path path = FileSystems.getDefault().getPath(zipPath);
json += ",\"file\":\"" + new String(Base64Coder.encode(Files.readAllBytes(path))) + "\"}";
return json;
}
/**
* Method to save the selected Experiment, in xml and xls (if possible), in a temporary folder.
* The files will be contained inside a zip.
*
* @return String with the path of the zip file.
* @throws IOException
*/
private String saveExpInTempFolder() throws IOException {
String toRet = "";
// Create temporary File
String filePath = Files.createTempDirectory("").toString() + "/";
filePath = filePath.replace("\\", "/");
// Get bioID
String bioID = selExp.getBioID();
if (bioID.isEmpty()) {
bioID = "bio_";
}
DataToFile.saveXMLData(selExp, filePath + "xml");
// Only save in XLS if the Experiment is an IntraExperiment
if (!isInter) {
DataToFile.saveXLSData(selExp, filePath + "xls");
}
// Generate ZIP file with Java 7
Map<String, String> zipProperties = new HashMap<>();
zipProperties.put("create", "true");
zipProperties.put("encoding", "UTF-8");
// Create zip file
URI zipDisk;
toRet = filePath + bioID + ".zip";
if (toRet.startsWith("/")) {
zipDisk = URI.create("jar:file:" + toRet);
} else {
zipDisk = URI.create("jar:file:/" + toRet);
}
// Adding files to zip
try (FileSystem zipfs = FileSystems.newFileSystem(zipDisk, zipProperties)) {
// Create file inside zip
Path zipFilePath = zipfs.getPath(bioID + ".xml");
// Path where the file to be added resides
Path addNewFile = Paths.get(filePath + "xml.xml");
// Append file to ZIP File
Files.copy(addNewFile, zipFilePath);
if (!isInter) {
// Now go for the xls file
zipFilePath = zipfs.getPath(bioID + ".xls");
addNewFile = Paths.get(filePath + "xls.xls");
Files.copy(addNewFile, zipFilePath);
}
}
// Delete temp files
Files.deleteIfExists(Paths.get(filePath + "xml.xml"));
Files.deleteIfExists(Paths.get(filePath + "xls.xls"));
return toRet;
}
