JAL-1551 remove temp file in src

[jalview.git] / src / jalview / util / SparseCount.java~

diff --git a/src/jalview/util/SparseCount.java~ b/src/jalview/util/SparseCount.java~
deleted file mode 100644 (file)
index e6b45f2..0000000
--- a/src/jalview/util/SparseCount.java~
+++ /dev/null
@@ -1,154 +0,0 @@
-package jalview.util;
-
-import jalview.ext.android.SparseIntArray;
-import jalview.ext.android.SparseShortArray;
-
-/**
- * A class to count occurrences of characters with minimal memory footprint.
- * Sparse arrays of short values are used to hold the counts, with automatic
- * promotion to arrays of int if any count exceeds the maximum value for a
- * short.
- * 
- * @author gmcarstairs
- *
- */
-public class SparseCount
-{
-  private static final int DEFAULT_PROFILE_SIZE = 2;
-
-  /*
-   * array of keys (chars) and values (counts)
-   * held either as shorts or (if shorts overflow) as ints 
-   */
-  private SparseShortArray shortProfile;
-
-  private SparseIntArray intProfile;
-
-  /*
-   * flag is set true after short overflow occurs
-   */
-  private boolean useInts;
-
-  /**
-   * Constructor which initially creates a new sparse array of short values to
-   * hold counts.
-   * 
-   * @param profileSize
-   */
-  public SparseCount(int profileSize)
-  {
-    this.shortProfile = new SparseShortArray(profileSize);
-  }
-
-  /**
-   * Constructor which allocates an initial count array for only two distinct
-   * values (the array will grow if needed)
-   */
-  public SparseCount()
-  {
-    this(DEFAULT_PROFILE_SIZE);
-  }
-
-  /**
-   * Adds the given value for the given key (or sets the initial value), and
-   * returns the new value
-   * 
-   * @param key
-   * @param value
-   */
-  public int add(int key, int value)
-  {
-    int newValue = 0;
-    if (useInts)
-    {
-      newValue = intProfile.add(key, value);
-    }
-    else
-    {
-      try {
-        newValue = shortProfile.add(key, value);
-      } catch (ArithmeticException e) {
-        handleOverflow();
-        newValue = intProfile.add(key, value);
-      }
-    }
-    return newValue;
-  }
-
-  /**
-   * Switch from counting shorts to counting ints
-   */
-  synchronized void handleOverflow()
-  {
-    int size = shortProfile.size();
-    intProfile = new SparseIntArray(size);
-    for (int i = 0; i < size; i++)
-    {
-      short key = shortProfile.keyAt(i);
-      short value = shortProfile.valueAt(i);
-      intProfile.put(key, value);
-    }
-    shortProfile = null;
-    useInts = true;
-  }
-
-  /**
-   * Returns the size of the profile (number of distinct items counted)
-   * 
-   * @return
-   */
-  public int size()
-  {
-    return useInts ? intProfile.size() : shortProfile.size();
-  }
-
-  /**
-   * Returns the value for the key (zero if no such key)
-   * 
-   * @param key
-   * @return
-   */
-  public int get(int key)
-  {
-    return useInts ? intProfile.get(key) : shortProfile.get(key);
-  }
-
-  /**
-   * Sets the value for the given key
-   * 
-   * @param key
-   * @param value
-   */
-  public void put(int key, int value)
-  {
-    if (useInts)
-    {
-      intProfile.put(key, value);
-    }
-    else
-    {
-      shortProfile.put(key, value);
-    }
-  }
-
-  public int keyAt(int k)
-  {
-    return useInts ? intProfile.keyAt(k) : shortProfile.keyAt(k);
-  }
-
-  public int valueAt(int k)
-  {
-    return useInts ? intProfile.valueAt(k) : shortProfile.valueAt(k);
-  }
-
-  /**
-   * Answers true if this object wraps arrays of int values, false if using
-   * short values
-   * 
-   * @return
-   */
-  boolean isUsingInt()
-  {
-    return useInts;
-  }
-}