public void NistLoadLibrary()
{
var streamManager = new MemoryStreamManager();
streamManager.TextFiles.Add(PATH_NIST_LIB, TEXT_LIB_YEAST_NIST);
var loader = new TestLibraryLoader {
StreamManager = streamManager
};
var librarySpec = new NistLibSpec("Yeast (NIST)", PATH_NIST_LIB);
Library lib1 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib1, 100);
Assert.AreEqual(streamManager.BinaryFiles.Count, 1);
Assert.IsTrue(streamManager.IsCached(PATH_NIST_LIB, PATH_NIST_LIB_CACHE));
// Corrupt the cache, and make sure it still possible to get
// a valid library.
byte[] cacheBytes = streamManager.BinaryFiles[PATH_NIST_LIB_CACHE];
int len = cacheBytes.Length;
byte[] corruptedBytes = new byte[len / 2];
Array.Copy(cacheBytes, corruptedBytes, corruptedBytes.Length);
streamManager.BinaryFiles[PATH_NIST_LIB_CACHE] = corruptedBytes;
Library lib2 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib2, 100);
Assert.AreEqual(len, streamManager.BinaryFiles[PATH_NIST_LIB_CACHE].Length);
Assert.IsTrue(lib1.IsSameLibrary(lib2));
Assert.AreEqual(0, lib1.CompareRevisions(lib2));
}
public void NistLoadLibrary()
{
var streamManager = new MemoryStreamManager();
streamManager.TextFiles.Add(PATH_NIST_LIB, TEXT_LIB_YEAST_NIST + TEXT_LIB_BICINE_NIST);
var loader = new TestLibraryLoader {
StreamManager = streamManager
};
var expectedFragmentAnnotations = new Dictionary <int, List <SpectrumPeakAnnotation> >
{
{ 3, MakeTestPeakAnnotation(Adduct.M_PLUS, 41.027f, "testfrag3", "85/86") },
{ 44, MakeTestPeakAnnotation(Adduct.M_PLUS, 128.070f, "testfrag_next_to_last", "83/86") },
{ 45, MakeTestPeakAnnotation(Adduct.M_PLUS, 146.081f, "testfrag_last", "85/86 note") },
};
var librarySpec = new NistLibSpec("Yeast (NIST)", PATH_NIST_LIB);
Library lib1 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib1, 100);
CheckLibrary(lib1, 46, KEYS_LIB_BICENE_NIST);
Assert.AreEqual(streamManager.BinaryFiles.Count, 1);
Assert.IsTrue(streamManager.IsCached(PATH_NIST_LIB, PATH_NIST_LIB_CACHE));
// Corrupt the cache, and make sure it still possible to get
// a valid library.
byte[] cacheBytes = streamManager.BinaryFiles[PATH_NIST_LIB_CACHE];
int len = cacheBytes.Length;
byte[] corruptedBytes = new byte[len / 2];
Array.Copy(cacheBytes, corruptedBytes, corruptedBytes.Length);
streamManager.BinaryFiles[PATH_NIST_LIB_CACHE] = corruptedBytes;
// Check small molecule library with spectrum attributes
TestSpectrumPeakAnnotations(); // First, a quick low-level unit test of annotations handler class
Library lib2 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib2, 100);
CheckLibrary(lib2, 46, KEYS_LIB_BICENE_NIST, expectedFragmentAnnotations);
Assert.AreEqual(len, streamManager.BinaryFiles[PATH_NIST_LIB_CACHE].Length);
Assert.IsTrue(lib1.IsSameLibrary(lib2));
Assert.AreEqual(0, lib1.CompareRevisions(lib2));
}
public void BiblioSpecLoadLibrary()
{
var streamManager = new MemoryStreamManager();
var loader = new TestLibraryLoader {
StreamManager = streamManager
};
Library libNist = CreateBiblioFile(streamManager, loader, TEXT_LIB_YEAST_NIST);
Assert.AreEqual(1, streamManager.BinaryFiles.Count);
var librarySpecBiblio = new BiblioSpecLibSpec("Yeast (BS)", PATH_BIBLIOSPEC_LIB);
Library libBiblioSpec = librarySpecBiblio.LoadLibrary(loader);
CheckLibrary(libBiblioSpec, 100);
Assert.IsFalse(libNist.IsSameLibrary(libBiblioSpec));
}
public void HunterLoadLibrary()
{
var streamManager = new MemoryStreamManager();
var loader = new TestLibraryLoader {
StreamManager = streamManager
};
Library libNist = CreateHunterFile(streamManager, loader, TEXT_LIB_YEAST_NIST);
Assert.AreEqual(1, streamManager.BinaryFiles.Count);
var librarySpecHunter = new XHunterLibSpec("Yeast (X!)", PATH_HUNTER_LIB);
Library libHunter = librarySpecHunter.LoadLibrary(loader);
CheckLibrary(libHunter, 20);
Assert.IsFalse(libNist.IsSameLibrary(libHunter));
}
public void NistLoadLibrary()
{
var streamManager = new MemoryStreamManager();
streamManager.TextFiles.Add(PATH_NIST_LIB, TEXT_LIB_YEAST_NIST);
var loader = new TestLibraryLoader {StreamManager = streamManager};
var librarySpec = new NistLibSpec("Yeast (NIST)", PATH_NIST_LIB);
Library lib1 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib1, 100);
Assert.AreEqual(streamManager.BinaryFiles.Count, 1);
Assert.IsTrue(streamManager.IsCached(PATH_NIST_LIB, PATH_NIST_LIB_CACHE));
// Corrupt the cache, and make sure it still possible to get
// a valid library.
byte[] cacheBytes = streamManager.BinaryFiles[PATH_NIST_LIB_CACHE];
int len = cacheBytes.Length;
byte[] corruptedBytes = new byte[len/2];
Array.Copy(cacheBytes, corruptedBytes, corruptedBytes.Length);
streamManager.BinaryFiles[PATH_NIST_LIB_CACHE] = corruptedBytes;
Library lib2 = librarySpec.LoadLibrary(loader);
CheckLibrary(lib2, 100);
Assert.AreEqual(len, streamManager.BinaryFiles[PATH_NIST_LIB_CACHE].Length);
Assert.IsTrue(lib1.IsSameLibrary(lib2));
Assert.AreEqual(0, lib1.CompareRevisions(lib2));
}
public void HunterLoadLibrary()
{
var streamManager = new MemoryStreamManager();
var loader = new TestLibraryLoader { StreamManager = streamManager };
Library libNist = CreateHunterFile(streamManager, loader, TEXT_LIB_YEAST_NIST);
Assert.AreEqual(1, streamManager.BinaryFiles.Count);
var librarySpecHunter = new XHunterLibSpec("Yeast (X!)", PATH_HUNTER_LIB);
Library libHunter = librarySpecHunter.LoadLibrary(loader);
CheckLibrary(libHunter, 20);
Assert.IsFalse(libNist.IsSameLibrary(libHunter));
}
public void BiblioSpecLoadLibrary()
{
var streamManager = new MemoryStreamManager();
var loader = new TestLibraryLoader { StreamManager = streamManager };
Library libNist = CreateBiblioFile(streamManager, loader, TEXT_LIB_YEAST_NIST);
Assert.AreEqual(1, streamManager.BinaryFiles.Count);
var librarySpecBiblio = new BiblioSpecLibSpec("Yeast (BS)", PATH_BIBLIOSPEC_LIB);
Library libBiblioSpec = librarySpecBiblio.LoadLibrary(loader);
CheckLibrary(libBiblioSpec, 100);
Assert.IsFalse(libNist.IsSameLibrary(libBiblioSpec));
}
