reorganising vamsasArchive (write to temp file, rather than write to original filename)

[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 e04e7c9..f56ed40 100644 (file)
--- a/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java
+++ b/src/org/vamsas/client/simpleclient/VamsasArchiveReader.java
@@ -8,6 +8,9 @@ import java.util.jar.JarEntry;
 import java.util.jar.JarFile;
 import java.util.jar.JarInputStream;
 import java.util.jar.JarOutputStream;
+
+import org.apache.commons.logging.Log;
+import org.apache.commons.logging.LogFactory;
 /**
  * Basic methods for accessing an existing Vamsas Archive, 
  * and Jar entry names for creating new vamsas archives.
@@ -16,6 +19,7 @@ import java.util.jar.JarOutputStream;
  *
  */
 public class VamsasArchiveReader {
+  private static Log log = LogFactory.getLog(VamsasArchiveReader.class);
   JarFile jfile;
   public VamsasArchiveReader(File vamsasfile) {
     jfile=null;
@@ -118,6 +122,7 @@ public class VamsasArchiveReader {
    */
   
   public InputStream getVamsasXmlStream() {
+    // log.warn("Deprecated call");
     JarEntry xmle=getVamsasXmlEntry();
     InputStream vdoc;
     if (xmle==null)