protected override void DoTest()
{
RunUI(() => SkylineWindow.OpenFile(TestFilesDir.GetTestPath("Rat_Plasma.sky")));
WaitForDocumentLoaded();
String v36Path = TestFilesDir.GetTestPath("Version36.sky.zip");
RunUI(() => SkylineWindow.ShareDocument(v36Path, ShareType.COMPLETE.ChangeSkylineVersion(SkylineVersion.V3_6)));
using (ZipFile zipFile = new ZipFile(v36Path))
{
ZipEntry zipEntryDocument = zipFile.Entries.First(entry => entry.FileName == "Rat_Plasma.sky");
using (var stream = zipEntryDocument.OpenReader())
{
using (var xmlReader = new XmlTextReader(stream))
{
var xmlDocument = new XmlDocument();
xmlDocument.Load(xmlReader);
Assert.IsNotNull(xmlDocument.DocumentElement);
Assert.AreEqual("3.6", xmlDocument.DocumentElement.GetAttribute("format_version"));
}
}
ZipEntry zipEntrySkyd = zipFile.Entries.First(entry => entry.FileName == "Rat_Plasma.skyd");
using (var stream = zipEntrySkyd.OpenReader())
{
var memoryStream = new MemoryStream();
CopyStreamTo(stream, memoryStream);
CacheHeaderStruct cacheHeader = CacheHeaderStruct.Read(memoryStream);
Assert.AreEqual(CacheFormatVersion.Eleven, cacheHeader.formatVersion);
}
}
}
internal CacheHeader(CacheHeaderStruct s)
{
Unknown8 = s.Unknown8;
AssetChecksum = s.AssetChecksum;
Unknown18 = s.Unknown18;
HeaderSize = s.HeaderSize;
TagDataSize = s.TagDataSize;
ResourceDataSize = s.ResourceDataSize;
HeaderAlignment = s.HeaderAlignment;
TagDataAlignment = s.TagDataAlignment;
ResourceDataAlignment = s.ResourceDataAlignment;
Unknown4B = s.Unknown4B;
Unknown4C = s.Unknown4C;
ZoneSetInfo = s.ZoneSetInfo;
_dependencies = s.Dependencies.Select(ss => new TagDependency(ss, s.StringTable)).ToList();
_dataBlocks = s.DataBlocks.Select(ss => new DataBlockDefinition(ss)).ToList();
_tagStructs = s.TagStructs.Select(ss => new TagStructDefinition(ss)).ToList();
_dataReferences = s.DataReferences.Select(ss => new DataReferenceDefinition(ss)).ToList();
_tagReferences = s.TagReferences.Select(ss => new TagReferenceDefinition(ss, s.StringTable)).ToList();
_stringIds = s.StringIds.Select(ss => new StringIdDefinition(ss, s.StringTable)).ToList();
Dependencies = _dependencies.AsReadOnly();
DataBlocks = _dataBlocks.AsReadOnly();
TagStructs = _tagStructs.AsReadOnly();
DataReferences = _dataReferences.AsReadOnly();
TagReferences = _tagReferences.AsReadOnly();
StringIds = _stringIds.AsReadOnly();
}
public static long CacheSize(SrmDocument docInitial, long format3Size, int groupCount, int tranCount, int peakCount)
{
long cacheSize = format3Size;
int fileCachedCount = docInitial.Settings.MeasuredResults.MSDataFileInfos.Count();
if (ChromatogramCache.FORMAT_VERSION_CACHE > ChromatogramCache.FORMAT_VERSION_CACHE_3)
{
// Cache version 4 stores instrument information, and is bigger in size.
cacheSize += sizeof(int) * fileCachedCount;
}
if (ChromatogramCache.FORMAT_VERSION_CACHE > ChromatogramCache.FORMAT_VERSION_CACHE_4)
{
// Cache version 5 adds an int for flags for each file
// Allow for a difference in sizes due to the extra information.
int fileFlagsSize = sizeof(int) * fileCachedCount;
// And SeqIndex, SeqCount, StartScoreIndex and padding
var deltaSize5 = ChromGroupHeaderInfo.GetStructSize(CacheFormatVersion.Five) -
ChromGroupHeaderInfo.GetStructSize(CacheFormatVersion.Four);
int groupHeadersSize = deltaSize5 * groupCount;
// And flags for each transition
int transitionFlagsSize = ChromTransition5.DeltaSize5 * tranCount;
// And num seq byte count, seq location, score types, num scores and score location
const int headerScoreSize = sizeof(int) + sizeof(long) + sizeof(int) + sizeof(int) + sizeof(long);
cacheSize += groupHeadersSize + fileFlagsSize + transitionFlagsSize + headerScoreSize;
}
if (ChromatogramCache.FORMAT_VERSION_CACHE > ChromatogramCache.FORMAT_VERSION_CACHE_5)
{
// Cache version 6 adds status graph dimensions for every file
cacheSize += sizeof(float) * 2 * fileCachedCount;
}
if (ChromatogramCache.FORMAT_VERSION_CACHE > ChromatogramCache.FORMAT_VERSION_CACHE_6)
{
// Cache version 7 adds ion mobility information
cacheSize += sizeof(float) * 2 * tranCount;
}
if (ChromatogramCache.FORMAT_VERSION_CACHE > ChromatogramCache.FORMAT_VERSION_CACHE_8)
{
// Cache version 9 adds scan id values for every file
cacheSize += (sizeof(int) + sizeof(long)) * fileCachedCount;
// And scan ids location to global header
cacheSize += sizeof(long);
}
if (ChromatogramCache.FORMAT_VERSION_CACHE >= ChromatogramCache.FORMAT_VERSION_CACHE_11)
{
// Version 11 adds uncompressed buffer size for convenience, and some time span metadata
cacheSize += ChromGroupHeaderInfo.DeltaSize11 * groupCount;
}
if (ChromatogramCache.FORMAT_VERSION_CACHE >= CacheFormatVersion.Twelve)
{
cacheSize += peakCount * (ChromPeak.GetStructSize(CacheFormatVersion.Twelve) -
ChromPeak.GetStructSize(CacheFormatVersion.Eleven));
cacheSize += tranCount *
(ChromTransition.GetStructSize(CacheFormatVersion.Twelve) -
ChromTransition.GetStructSize(CacheFormatVersion.Eleven));
}
cacheSize += fileCachedCount *
(CachedFileHeaderStruct.GetStructSize(ChromatogramCache.FORMAT_VERSION_CACHE) -
CachedFileHeaderStruct.GetStructSize(CacheFormatVersion.Nine));
cacheSize += CacheHeaderStruct.GetStructSize(ChromatogramCache.FORMAT_VERSION_CACHE) -
CacheHeaderStruct.GetStructSize(ChromatogramCache.FORMAT_VERSION_CACHE_11);
return(cacheSize);
}
