fixed (hopefully) locking/read problems in test.simpleclient.VamsasArchive/Watcher...

[vamsas.git] / src / org / vamsas / client / simpleclient / VamsasArchiveReader.java

diff --git a/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java b/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java
index d0476cd..b4455ac 100644 (file)
--- a/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java
+++ b/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java
@@ -35,7 +35,8 @@ public class VamsasArchiveReader {
   ZipInputStream jstream=null;
   Hashtable strmentries = null;
   private void streamInit() {
-    if (!stream) {
+    throw new Error("VamsasArchiveReader(Stream) Not implemented!");
+    /* if (!stream) {
       log.debug("Skipping init for Jar Stream input.");
       return;
     }
@@ -48,13 +49,13 @@ public class VamsasArchiveReader {
       if (jstream.available()==0)
         log.warn("Can't read from JarInputStream (Locked stream!)");
       ZipEntry entry=null;
+      long pos=0;
       do {
-        long pos = rfile.getFilePointer();
         if ((entry=jstream.getNextEntry())!=null) {
           if (strmentries.containsKey(entry.getName())) {
             log.info("Only recording last of duplicate entries '"+entry.getName()+"'");
           } 
-          strmentries.put(entry.getName(), new Long(pos));
+          strmentries.put(entry.getName(), new Long(pos++));
           jstream.closeEntry();
         }
       } while (entry!=null);
@@ -62,7 +63,7 @@ public class VamsasArchiveReader {
     catch (Exception e) {
       log.warn("Exceptions during init!",e);
       jstream=null;
-    }
+    }*/
   }
   
   public VamsasArchiveReader(File vamsasfile) {
@@ -85,11 +86,13 @@ public class VamsasArchiveReader {
    * @param vamsaslock
    */
   public VamsasArchiveReader(Lock vamsaslock) {
-    rfile = vamsaslock.rafile;
-    stream = true;
-    streamInit();
-    if (jstream==null)
-      throw new Error("Failed to open archive from Locked random access stream.");
+    // LATER: implement or remove
+    throw new Error("VamsasArchiveReading from locked IO stream not yet implemented.");
+    //rfile = vamsaslock.rafile;
+    //stream = true;
+    //streamInit();
+    //if (jstream==null)
+    //  throw new Error("Failed to open archive from Locked random access stream.");
   }
   
   /**
@@ -124,7 +127,9 @@ public class VamsasArchiveReader {
       return null;
     }
     try {
-      jstream.reset();
+      jstream=null;
+      rfile.seek(0);
+      jstream = new ZipInputStream(new FileInputStream(rfile.getFD()));
       ZipEntry entry = null;
       long epos = entrypos.longValue();
       do {