refactor abstract sequence fetching and DBSource machinery to their own package

[jalview.git] / src / jalview / ws / DbSourceProxyImpl.java

diff --git a/src/jalview/ws/DbSourceProxyImpl.java b/src/jalview/ws/DbSourceProxyImpl.java
deleted file mode 100644 (file)
index 17040d4..0000000
--- a/src/jalview/ws/DbSourceProxyImpl.java
+++ /dev/null
@@ -1,96 +0,0 @@
-package jalview.ws;\r
-\r
-import jalview.datamodel.Alignment;\r
-import jalview.datamodel.DBRefSource;\r
-import jalview.io.FormatAdapter;\r
-import jalview.io.IdentifyFile;\r
-\r
-import java.util.Hashtable;\r
-\r
-/**\r
- * common methods for implementations of the DbSourceProxy interface.\r
- * \r
- * @author JimP\r
- *\r
- */\r
-public abstract class DbSourceProxyImpl implements DbSourceProxy\r
-{\r
-  public DbSourceProxyImpl()\r
-  {\r
-    // default constructor - do nothing probably.\r
-  }\r
-  private Hashtable props=null;\r
-  /* (non-Javadoc)\r
-   * @see jalview.ws.DbSourceProxy#getDbSourceProperties()\r
-   */\r
-  public Hashtable getDbSourceProperties()\r
-  {\r
-    return props;\r
-  }\r
-  protected void addDbSourceProperty(Object propname)\r
-  {\r
-    addDbSourceProperty(propname, propname);\r
-  }\r
-\r
-  protected void addDbSourceProperty(Object propname, Object propvalue)\r
-  {\r
-    if (props==null)\r
-    {\r
-      props = new Hashtable();\r
-    }\r
-    props.put(propname, propvalue);\r
-  }\r
-  boolean queryInProgress=false;\r
-  protected StringBuffer results = null;\r
-  /*\r
-   * (non-Javadoc)\r
-   * \r
-   * @see jalview.ws.DbSourceProxy#getRawRecords()\r
-   */\r
-  public StringBuffer getRawRecords()\r
-  {\r
-    return results;\r
-  }\r
-\r
-  /* (non-Javadoc)\r
-   * @see jalview.ws.DbSourceProxy#queryInProgress()\r
-   */\r
-  public boolean queryInProgress()\r
-  {\r
-    return queryInProgress;\r
-  }\r
-  /**\r
-   * call to set the queryInProgress flag\r
-   *\r
-   */\r
-  protected void startQuery()\r
-  {\r
-    queryInProgress=true;\r
-  }\r
-  /**\r
-   * call to clear the queryInProgress flag\r
-   *\r
-   */\r
-  protected void stopQuery()\r
-  {\r
-    queryInProgress=false;\r
-  }\r
-\r
-  /**\r
-   * create an alignment from raw text file...\r
-   * @param result\r
-   * @return null or a valid alignment\r
-   * @throws Exception\r
-   */\r
-  protected Alignment parseResult(String result) throws Exception {\r
-    Alignment sequences = null;\r
-    String format = new IdentifyFile().Identify(result, "Paste");\r
-    if (FormatAdapter.isValidFormat(format))\r
-    {\r
-      sequences = new FormatAdapter().readFile(result.toString(), "Paste",\r
-            format);\r
-    }\r
-    return sequences;\r
-  }\r
-  \r
-}\r