I am getting the following exception when trying to serialize a protein
sequence. I am using biojava 1.3. Can anyone please explain to me why?
Many thanks,
Mark.
java.io.InvalidObjectException: Couldn't resolve symbol:SER
at
org.biojava.bio.symbol.AlphabetManager$WellKnownAtomicSymbol$OPH.readResolve
(AlphabetManager.java:1441)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39
)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:324)
at
java.io.ObjectStreamClass.invokeReadResolve(ObjectStreamClass.java:911)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1655)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at java.io.ObjectInputStream.readArray(ObjectInputStream.java:1603)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1271)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1769)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.defaultReadObject(ObjectInputStream.java:452)
at
org.biojava.bio.seq.impl.SimpleSequence.readObject(SimpleSequence.java:119)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39
)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:324)
at
java.io.ObjectStreamClass.invokeReadObject(ObjectStreamClass.java:824)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1746)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.defaultReadObject(ObjectInputStream.java:452)
at org.biojava.bio.seq.ViewSequence.readObject(ViewSequence.java:93)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39
)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:324)
at
java.io.ObjectStreamClass.invokeReadObject(ObjectStreamClass.java:824)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1746)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1769)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1769)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at java.io.ObjectInputStream.readObject(ObjectInputStream.java:324)
at java.util.HashMap.readObject(HashMap.java:985)
at sun.reflect.GeneratedMethodAccessor6.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:324)
at
java.io.ObjectStreamClass.invokeReadObject(ObjectStreamClass.java:824)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1746)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1769)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at java.io.ObjectInputStream.readObject(ObjectInputStream.java:324)
at java.util.HashMap.readObject(HashMap.java:986)
at sun.reflect.GeneratedMethodAccessor6.invoke(Unknown Source)
at
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl
.java:25)
at java.lang.reflect.Method.invoke(Method.java:324)
at
java.io.ObjectStreamClass.invokeReadObject(ObjectStreamClass.java:824)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1746)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at
java.io.ObjectInputStream.defaultReadFields(ObjectInputStream.java:1845)
at
java.io.ObjectInputStream.readSerialData(ObjectInputStream.java:1769)
at
java.io.ObjectInputStream.readOrdinaryObject(ObjectInputStream.java:1646)
at
java.io.ObjectInputStream.readObject0(ObjectInputStream.java:1274)
at java.io.ObjectInputStream.readObject(ObjectInputStream.java:324)
at com.exsar.hdex.model.calc.Test.main(Test.java:104)
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