private boolean openSeekable() {
final Info initialInfo = new Info();
final Comment initialComment = new Comment();
this.m_chunkSize = Math.min(8500, (int) length(this.m_vorbisStream));
final Page page = new Page();
final int[] testSerialno = {0};
final int ret = this.fetchHeaders(initialInfo, initialComment, testSerialno, null);
final int serialno = testSerialno[0];
final int dataOffset = (int) this.m_offset;
this.m_oggStreamState.clear();
if (ret < 0) {
return false;
}
seek(this.m_vorbisStream, 0L, 1);
this.m_offset = tell(this.m_vorbisStream);
final long end = this.getPreviousPage(page);
if (page.serialno() != serialno) {
if (this.bisectForwardSerialno(0L, 0L, end + 1L, serialno, 0) < 0) {
return false;
}
} else if (this.bisectForwardSerialno(0L, end, end + 1L, serialno, 0) < 0) {
return false;
}
this.prefetchAllHeaders(initialInfo, initialComment, dataOffset);
this.rawSeek(this.m_dataOffsets[0]);
return true;
}
private int processPacket(final boolean readPage) {
while (true) {
if (this.m_decodeReady) {
final int result = this.m_oggStreamState.packetout(this.m_oggPacket);
if (result > 0) {
long granulepos = this.m_oggPacket.granulepos;
if (this.m_block.synthesis(this.m_oggPacket) == 0) {
this.m_dspState.synthesis_blockin(this.m_block);
if (granulepos != -1L) {
final int link = this.m_vorbisStream.isSeekable() ? this.m_currentLink : 0;
final int samples = this.m_dspState.synthesis_pcmout(null, null);
granulepos = Math.max(0L, granulepos - samples);
for (int i = 0; i < link; ++i) {
granulepos += this.m_pcmLengths[i];
}
this.m_pcmOffset = granulepos;
}
return 1;
}
}
}
if (!readPage) {
return 0;
}
if (this.getNextPage(this.m_oggPage, -1L) < 0) {
return 0;
}
if (this.m_decodeReady && this.m_currentSerialno != this.m_oggPage.serialno()) {
this.decodeClear();
}
if (!this.m_decodeReady) {
if (this.m_vorbisStream.isSeekable()) {
this.m_currentSerialno = this.m_oggPage.serialno();
int j;
for (j = 0; j < this.m_links && this.m_serialnos[j] != this.m_currentSerialno; ++j) {}
if (j == this.m_links) {
return -1;
}
this.m_currentLink = j;
this.m_oggStreamState.init(this.m_currentSerialno);
this.m_oggStreamState.reset();
} else {
final int[] serialnos = {0};
final int ret =
this.fetchHeaders(this.m_info[0], this.m_comments[0], serialnos, this.m_oggPage);
this.m_currentSerialno = serialnos[0];
if (ret != 0) {
return ret;
}
++this.m_currentLink;
}
this.makeDecodeReady();
}
this.m_oggStreamState.pagein(this.m_oggPage);
}
}
/**
* Builds a SgrScoreCalculator object
*
* @param data - name of file containing sgr data
* @param winSize - size of display window
* @throws IOException - if the file cannot be accessed
*/
public SgrScoreCalculator(String data, int winSize, CurationSet curation) throws IOException {
super(winSize);
BufferedReader br = new BufferedReader(new FileReader(data));
String line;
double minAbsScore = Double.POSITIVE_INFINITY;
Set<String> unmatchedIds = new HashSet<String>();
while ((line = br.readLine()) != null) {
String[] tokens = line.split("\t");
String refId = curation.getRefSequence().getName();
if (!tokens[0].equals(refId)) {
if (!unmatchedIds.contains(tokens[0])) {
logger.warn(
"Score id "
+ tokens[0]
+ " does not match main sequence id "
+ refId
+ ". Skipping score.");
unmatchedIds.add(tokens[0]);
}
continue;
}
Double score = new Double(Double.parseDouble(tokens[2]));
// chuck out scores outside of the given range
int pos = Integer.parseInt(tokens[1]);
if (pos >= curation.getLow() && pos <= curation.getHigh()) {
scoreMap.put(pos, score);
}
if (Math.abs(score) < minAbsScore) {
minAbsScore = Math.abs(score);
}
if (score.doubleValue() < minScore) {
minScore = score;
}
if (score.doubleValue() > maxScore) {
maxScore = score;
}
}
while (minAbsScore * factor < 1) {
factor *= 10;
}
}
@Override
public int getVisibilityData(
final int x, final int y, final CellVisibilityData[] cellVisibilityData, final int index) {
assert this.checkGetVisibilityData(x, y, cellVisibilityData);
int numZ = 1;
final CellVisibilityData data = cellVisibilityData[index];
data.m_x = x;
data.m_y = y;
data.m_z = this.getZ(x, y);
data.m_height = (byte) Math.max(0, data.m_z);
data.m_hollow = false;
if (this.m_attachedBuilding.length != 0) {
for (final AbstractBuildingStruct building : this.m_attachedBuilding) {
final int result = building.getVisibilityData(x, y, cellVisibilityData, index + numZ);
if (result != -1) {
numZ += mergeSameAltitude(cellVisibilityData, index, index + numZ, result);
}
}
}
return numZ;
}
@Override
public final int getPathData(
final int x, final int y, final CellPathData[] cellPathData, final int index) {
assert this.checkGetPathData(x, y, cellPathData);
int numZ = 1;
final CellPathData data = cellPathData[index];
data.m_x = x;
data.m_y = y;
data.m_z = this.getZ(x, y);
data.m_height = (byte) Math.max(0, data.m_z);
data.m_cost = (byte) (super.isCellBlocked(x, y) ? -1 : 7);
data.m_hollow = false;
data.m_murfinInfo = (byte) this.getMurFinInfo(x, y);
data.m_miscProperties = (byte) this.getMiscProperties(x, y);
if (this.m_attachedBuilding.length != 0) {
for (final AbstractBuildingStruct building : this.m_attachedBuilding) {
final int result = building.getPathData(x, y, cellPathData, index + numZ);
if (result != -1) {
numZ += mergeSameAltitude(cellPathData, index, index + numZ, result);
}
}
}
return numZ;
}
@Override
public int read(final ByteBuffer bb, final int pos) {
this.m_isReset = false;
bb.position(pos);
while (bb.remaining() > 0) {
boolean needToProcessPacket = true;
if (this.m_decodeReady) {
final Info info = this.m_info[this.m_currentLink];
final int totalSamples = this.m_dspState.synthesis_pcmout(this.m_pcmf_buffer, this._index);
final float[][] pcm = this.m_pcmf_buffer[0];
if (totalSamples > 0) {
final int channelsCount = info.channelsCount;
final int bytesPerSample = channelsCount * 2;
int samples = Math.min(totalSamples, bb.remaining() / bytesPerSample);
samples = Math.min(samples, 8192 / bytesPerSample);
needToProcessPacket = (samples == totalSamples);
for (int i = 0; i < channelsCount; ++i) {
int ptr = i * 2;
final int mono = this._index[i];
for (int j = 0; j < samples; ++j) {
int val = (int) (pcm[i][mono + j] * 32767.0f);
if (val > 32767) {
val = 32767;
}
if (val < -32768) {
val = -32768;
}
if (val < 0) {
val |= 0x8000;
}
if (JOrbisStream.m_bigEndian) {
this.m_conversionBuffer[ptr] = (byte) (val >>> 8 & 0xFF);
this.m_conversionBuffer[ptr + 1] = (byte) (val & 0xFF);
} else {
this.m_conversionBuffer[ptr] = (byte) (val & 0xFF);
this.m_conversionBuffer[ptr + 1] = (byte) (val >>> 8 & 0xFF);
}
ptr += 2 * channelsCount;
}
}
final int writtenBytesLength = samples * bytesPerSample;
bb.put(this.m_conversionBuffer, 0, writtenBytesLength);
this.m_dspState.synthesis_read(samples);
this.m_pcmOffset += samples;
}
}
if (needToProcessPacket) {
switch (this.processPacket(true)) {
case 0:
{
return -(bb.position() - pos);
}
case -1:
{
return -(bb.position() - pos);
}
default:
{
continue;
}
}
}
}
return bb.position() - pos;
}
// public List getUserStoryList(String sessionId,String iterationId,ServletOutputStream out) {
public List getUserStoryList(String sessionId, String iterationId, PrintWriter out) {
List<Map> list = new ArrayList<Map>();
statusMap.put(sessionId, "0");
try {
String apiURL =
rallyApiHost
+ "/hierarchicalrequirement?"
+ "query=(Iteration%20=%20"
+ rallyApiHost
+ "/iteration/"
+ iterationId
+ ")&fetch=true&start=1&pagesize=100";
log.info("getUserStoryList apiURL=" + apiURL);
String responseXML = getRallyXML(apiURL);
org.jdom.input.SAXBuilder bSAX = new org.jdom.input.SAXBuilder();
org.jdom.Document doc = bSAX.build(new StringReader(responseXML));
Element root = doc.getRootElement();
XPath xpath = XPath.newInstance("//Object");
List xlist = xpath.selectNodes(root);
int totalSteps = xlist.size() + 1;
int currentStep = 0;
List taskRefLink = new ArrayList();
Iterator iter = xlist.iterator();
while (iter.hasNext()) {
double totalTimeSpent = 0.0D;
Map map = new HashMap();
Element item = (Element) iter.next();
String objId = item.getChildText("ObjectID");
String name = item.getChildText("Name");
String planEstimate = item.getChildText("PlanEstimate");
String formattedId = item.getChildText("FormattedID");
String taskActualTotal = item.getChildText("TaskActualTotal");
String taskEstimateTotal = item.getChildText("TaskEstimateTotal");
String taskRemainingTotal = item.getChildText("TaskRemainingTotal");
String scheduleState = item.getChildText("ScheduleState");
Element ownerElement = item.getChild("Owner");
String owner = "";
String ownerRef = "";
if (ownerElement != null) {
owner = ownerElement.getAttributeValue("refObjectName");
}
Element taskElements = item.getChild("Tasks");
// List taskElementList=taskElements.getContent();
List taskElementList = taskElements.getChildren();
List taskList = new ArrayList();
log.info("taskElements.getChildren=" + taskElements);
log.info("taskList=" + taskElementList);
for (int i = 0; i < taskElementList.size(); i++) {
Element taskElement = (Element) taskElementList.get(i);
String taskRef = taskElement.getAttributeValue("ref");
String[] objectIdArr = taskRef.split("/");
String objectId = objectIdArr[objectIdArr.length - 1];
log.info("objectId=" + objectId);
// Map taskMap=getTaskMap(taskRef);
Map taskMap = getTaskMapBatch(objectId);
double taskTimeSpentTotal =
Double.parseDouble((String) taskMap.get("taskTimeSpentTotal"));
totalTimeSpent += taskTimeSpentTotal;
taskList.add(taskMap);
}
map.put("type", "userstory");
map.put("formattedId", formattedId);
map.put("name", name);
map.put("taskStatus", scheduleState);
map.put("owner", owner);
map.put("planEstimate", planEstimate);
map.put("taskEstimateTotal", taskEstimateTotal);
map.put("taskRemainingTotal", taskRemainingTotal);
map.put("taskTimeSpentTotal", "" + totalTimeSpent);
list.add(map);
list.addAll(taskList);
++currentStep;
double percentage = 100.0D * currentStep / totalSteps;
String status = "" + Math.round(percentage);
statusMap.put(sessionId, status);
out.println("<script>parent.updateProcessStatus('" + status + "%')</script>" + status);
out.flush();
log.info("out.flush..." + status);
// log.info("status="+status+" sessionId="+sessionId);
// log.info("L1 statusMap="+statusMap+" "+statusMap.hashCode());
}
double planEstimate = 0.0D;
double taskEstimateTotal = 0.0D;
double taskRemainingTotal = 0.0D;
double taskTimeSpentTotal = 0.0D;
Map iterationMap = new HashMap();
for (Map map : list) {
String type = (String) map.get("type");
String planEstimateStr = (String) map.get("planEstimate");
log.info("planEstimateStr=" + planEstimateStr);
if ("userstory".equals(type)) {
if (planEstimateStr != null) {
planEstimate += Double.parseDouble(planEstimateStr);
}
taskEstimateTotal += Double.parseDouble((String) map.get("taskEstimateTotal"));
taskRemainingTotal += Double.parseDouble((String) map.get("taskRemainingTotal"));
taskTimeSpentTotal += Double.parseDouble((String) map.get("taskTimeSpentTotal"));
}
}
apiURL = rallyApiHost + "/iteration/" + iterationId + "?fetch=true";
log.info("iteration apiURL=" + apiURL);
responseXML = getRallyXML(apiURL);
bSAX = new org.jdom.input.SAXBuilder();
doc = bSAX.build(new StringReader(responseXML));
root = doc.getRootElement();
xpath = XPath.newInstance("//Iteration");
xlist = xpath.selectNodes(root);
String projName = "";
String iterName = "";
String iterState = "";
iter = xlist.iterator();
while (iter.hasNext()) {
Element item = (Element) iter.next();
iterName = item.getChildText("Name");
iterState = item.getChildText("State");
Element projElement = item.getChild("Project");
projName = projElement.getAttributeValue("refObjectName");
}
iterationMap.put("type", "iteration");
iterationMap.put("formattedId", "");
iterationMap.put("name", projName + " - " + iterName);
iterationMap.put("taskStatus", iterState);
iterationMap.put("owner", "");
iterationMap.put("planEstimate", "" + planEstimate);
iterationMap.put("taskEstimateTotal", "" + taskEstimateTotal);
iterationMap.put("taskRemainingTotal", "" + taskRemainingTotal);
iterationMap.put("taskTimeSpentTotal", "" + taskTimeSpentTotal);
list.add(0, iterationMap);
statusMap.put(sessionId, "100");
log.info("L2 statusMap=" + statusMap);
log.info("L2 verify=" + getProcessStatus(sessionId));
log.info("-----------");
// String jsonData=JsonUtil.encodeObj(list);
String jsonData = JSONValue.toJSONString(list);
out.println("<script>parent.tableResult=" + jsonData + "</script>");
out.println("<script>parent.showTableResult()</script>");
} catch (Exception ex) {
log.error("ERROR: ", ex);
}
return list;
}
