A fatal error has been detected by the Java Runtime Environment

[geo]

dear beast users
I'm having some trouble performing a phylogeography analisis.
in particular the program close quite immediately (after some or no generations) and I obtain the a text file with te following message (using cpu with different setting regarding rescaling or precision).


#
# A fatal error has been detected by the Java Runtime Environment:
#
#  EXCEPTION_ACCESS_VIOLATION (0xc0000005) at pc=0x00000000776232d0, pid=7748, tid=8036
#
# JRE version: 7.0_05-b06
# Java VM: Java HotSpot(TM) 64-Bit Server VM (23.1-b03 mixed mode windows-amd64 compressed oops)
# Problematic frame:
# C  [ntdll.dll+0x532d0]  RtlFreeHeap+0xd0
#
# Failed to write core dump. Minidumps are not enabled by default on client versions of Windows
#
# If you would like to submit a bug report, please visit:
#   http://bugreport.sun.com/bugreport/crash.jsp
#

---------------  T H R E A D  ---------------

Current thread (0x000000000b984000):  JavaThread "pool-1-thread-1" [_thread_in_vm, id=8036, stack(0x0000000012c30000,0x0000000012d30000)]

siginfo: ExceptionCode=0xc0000005, reading address 0x00000000eac4cd28

Registers:
RAX=0x0000000000000000, RBX=0x00000000eac4cd20, RCX=0x00000000ffffffff, RDX=0x000000000aced2d0
RSP=0x0000000012d2ec10, RBP=0x0000000000000000, RSI=0x0000000000320000, RDI=0x000000000aced2e0
R8 =0x000000000aced2e0, R9 =0x0000000000000021, R10=0x000000000000000c, R11=0x00000000123f24e0
R12=0x000000000b9841d8, R13=0x00000000bbfe7378, R14=0x0000000012d2ee08, R15=0x000000000b984000
RIP=0x00000000776232d0, EFLAGS=0x0000000000010202

Top of Stack: (sp=0x0000000012d2ec10)
0x0000000012d2ec10:   000000000ffffed0 0000000012343ff0
0x0000000012d2ec20:   0000000012342160 0000000012476ce0
0x0000000012d2ec30:   000000000b984000 0000000012d2edf8
0x0000000012d2ec40:   000000000b984000 000000000000000c
0x0000000012d2ec50:   000000000b984000 0000000012d2ee08
0x0000000012d2ec60:   00000000bbfe7378 000000000b9841d8
0x0000000012d2ec70:   0000000000000002 000000000aced2e0
0x0000000012d2ec80:   0000000012d2edf0 000000007701301a
0x0000000012d2ec90:   000000000b984000 000000000b984000
0x0000000012d2eca0:   0000000000000108 000000005ef94f02
0x0000000012d2ecb0:   000000000b984000 0000000062d78cc4
0x0000000012d2ecc0:   000000000b5449e8 0000000000000001
0x0000000012d2ecd0:   0000000002586374 000000005eedf177
0x0000000012d2ece0:   000000000b984000 000000005eedf59f
0x0000000012d2ecf0:   000000000bdd7030 0000000000000001
0x0000000012d2ed00:   0000000012d2ee08 00000000bbfe7378

Instructions: (pc=0x00000000776232d0)
0x00000000776232b0:   ff ff 00 00 00 48 33 de 48 23 c1 48 c1 eb 04 48
0x00000000776232c0:   33 d8 48 33 1d ff f0 0d 00 48 c1 e3 04 0f 0d 0b
0x00000000776232d0:   4c 8b 63 08 49 bd 01 00 00 00 01 00 00 00 49 be
0x00000000776232e0:   ff 7f 00 00 ff ff ff ff c6 42 0f 80 c6 42 0e 00


Register to memory mapping:

RAX=0x0000000000000000 is an unknown value
RBX=0x00000000eac4cd20 is an unknown value
RCX=0x00000000ffffffff is an unknown value
RDX=0x000000000aced2d0 is an unknown value
RSP=0x0000000012d2ec10 is pointing into the stack for thread: 0x000000000b984000
RBP=0x0000000000000000 is an unknown value
RSI=0x0000000000320000 is an unknown value
RDI=0x000000000aced2e0 is an unknown value
R8 =0x000000000aced2e0 is an unknown value
R9 =0x0000000000000021 is an unknown value
R10=0x000000000000000c is an unknown value
R11=0x00000000123f24e0 is an unknown value
R12=0x000000000b9841d8 is an unknown value
R13=0x00000000bbfe7378 is an oop
{method}
 - klass: {other class}
R14=0x0000000012d2ee08 is pointing into the stack for thread: 0x000000000b984000
R15=0x000000000b984000 is a thread


Stack: [0x0000000012c30000,0x0000000012d30000],  sp=0x0000000012d2ec10,  free space=1019k
Native frames: (J=compiled Java code, j=interpreted, Vv=VM code, C=native code)
C  [ntdll.dll+0x532d0]  RtlFreeHeap+0xd0

[error occurred during error reporting (printing native stack), id 0xc0000005]

Java frames: (J=compiled Java code, j=interpreted, Vv=VM code)
j  beagle.BeagleJNIWrapper.setStateFrequencies(II[D)I+0
j  beagle.BeagleJNIImpl.setStateFrequencies(I[D)V+9
J  dr.app.beagle.evomodel.treelikelihood.BeagleTreeLikelihood.calculateLogLikelihood()D
j  dr.app.beagle.evomodel.treelikelihood.AncestralStateBeagleTreeLikelihood.calculateLogLikelihood()D+6
j  dr.app.beagle.evomodel.treelikelihood.AbstractTreeLikelihood.getLogLikelihood()D+9
j  dr.inference.model.CompoundLikelihood$LikelihoodCaller.call()Ljava/lang/Double;+8
j  dr.inference.model.CompoundLikelihood$LikelihoodCaller.call()Ljava/lang/Object;+1
j  java.util.concurrent.FutureTask$Sync.innerRun()V+29
j  java.util.concurrent.FutureTask.run()V+4
j  java.util.concurrent.ThreadPoolExecutor.runWorker(Ljava/util/concurrent/ThreadPoolExecutor$Worker;)V+46
j  java.util.concurrent.ThreadPoolExecutor$Worker.run()V+5
j  java.lang.Thread.run()V+11
v  ~StubRoutines::call_stub

---------------  P R O C E S S  ---------------

Java Threads: ( => current thread )
  0x000000000b983000 JavaThread "Thread-6" [_thread_blocked, id=5976, stack(0x0000000012fc0000,0x00000000130c0000)]
  0x000000000b89c000 JavaThread "pool-1-thread-2" [_thread_blocked, id=10068, stack(0x0000000012ea0000,0x0000000012fa0000)]
=>0x000000000b984000 JavaThread "pool-1-thread-1" [_thread_in_vm, id=8036, stack(0x0000000012c30000,0x0000000012d30000)]
  0x000000000b554800 JavaThread "TimerQueue" daemon [_thread_blocked, id=9152, stack(0x000000000d850000,0x000000000d950000)]
  0x000000000acb7000 JavaThread "Thread-3" [_thread_blocked, id=9032, stack(0x000000000d6b0000,0x000000000d7b0000)]
  0x000000000acb6000 JavaThread "Thread-2" [_thread_blocked, id=4876, stack(0x000000000d4d0000,0x000000000d5d0000)]
  0x000000000ab83000 JavaThread "AWT-EventQueue-0" [_thread_blocked, id=3236, stack(0x000000000c1f0000,0x000000000c2f0000)]
  0x000000000aa9c800 JavaThread "AWT-Windows" daemon [_thread_in_native, id=6192, stack(0x000000000a610000,0x000000000a710000)]
  0x000000000aa9c000 JavaThread "AWT-Shutdown" [_thread_blocked, id=9804, stack(0x000000000b000000,0x000000000b100000)]
  0x000000000aa9b000 JavaThread "Java2D Disposer" daemon [_thread_blocked, id=8620, stack(0x000000000aeb0000,0x000000000afb0000)]
  0x0000000008fe9000 JavaThread "Service Thread" daemon [_thread_blocked, id=7676, stack(0x000000000a740000,0x000000000a840000)]
  0x0000000008fdd800 JavaThread "C2 CompilerThread1" daemon [_thread_blocked, id=9796, stack(0x000000000a4f0000,0x000000000a5f0000)]
  0x0000000008fcb000 JavaThread "C2 CompilerThread0" daemon [_thread_blocked, id=9632, stack(0x0000000009e70000,0x0000000009f70000)]
  0x0000000008fca000 JavaThread "Attach Listener" daemon [_thread_blocked, id=9224, stack(0x000000000a350000,0x000000000a450000)]
  0x0000000008fc3000 JavaThread "Signal Dispatcher" daemon [_thread_blocked, id=9708, stack(0x000000000a170000,0x000000000a270000)]
  0x000000000244a800 JavaThread "Finalizer" daemon [_thread_blocked, id=2764, stack(0x000000000a050000,0x000000000a150000)]
  0x0000000008f42800 JavaThread "Reference Handler" daemon [_thread_blocked, id=8816, stack(0x0000000009d70000,0x0000000009e70000)]
  0x000000000032c800 JavaThread "main" [_thread_blocked, id=9140, stack(0x0000000002480000,0x0000000002580000)]

Other Threads:
  0x0000000008f40800 VMThread [stack: 0x0000000009c10000,0x0000000009d10000] [id=1276]
  0x0000000008ff4000 WatcherThread [stack: 0x000000000a920000,0x000000000aa20000] [id=10016]

VM state:synchronizing (normal execution)

VM Mutex/Monitor currently owned by a thread:  ([mutex/lock_event])
[0x000000000032aa80] Threads_lock - owner thread: 0x0000000008f40800

Heap
 PSYoungGen      total 76480K, used 15615K [0x00000000eaab0000, 0x00000000f0000000, 0x0000000000000000)
  eden space 65600K, 7% used [0x00000000eaab0000,0x00000000eaf50428,0x00000000eeac0000)
  from space 10880K, 99% used [0x00000000eeac0000,0x00000000ef55f918,0x00000000ef560000)
  to   space 10880K, 0% used [0x00000000ef560000,0x00000000ef560000,0x00000000f0000000)
 ParOldGen       total 174784K, used 1438K [0x00000000c0000000, 0x00000000caab0000, 0x00000000eaab0000)
  object space 174784K, 0% used [0x00000000c0000000,0x00000000c0167be0,0x00000000caab0000)
 PSPermGen       total 21248K, used 19123K [0x00000000bae00000, 0x00000000bc2c0000, 0x00000000c0000000)
  object space 21248K, 90% used [0x00000000bae00000,0x00000000bc0acd28,0x00000000bc2c0000)

Code Cache  [0x0000000002580000, 0x00000000027f0000, 0x0000000005580000)
 total_blobs=795 nmethods=264 adapters=482 free_code_cache=47867Kb largest_free_block=48987584

Compilation events (10 events):
Event: 12.385 Thread 0x0000000008fcb000  255             dr.app.beagle.evomodel.treelikelihood.BeagleTreeLikelihood::calculateLogLikelihood (789 bytes)
Event: 12.409 Thread 0x0000000008fcb000 nmethod 255 0x000000000269e990 code [0x000000000269ecc0, 0x000000000269fdd8]
Event: 12.409 Thread 0x0000000008fcb000  256             dr.app.beagle.evomodel.treelikelihood.BeagleTreeLikelihood::traverse (551 bytes)
Event: 12.432 Thread 0x0000000008fcb000 nmethod 256 0x00000000026c4f90 code [0x00000000026c5240, 0x00000000026c64f0]
Event: 12.432 Thread 0x0000000008fcb000    8 %           java.util.ComparableTimSort::binarySort @ 72 (223 bytes)
Event: 12.438 Thread 0x0000000008fcb000 nmethod 8% 0x000000000269d950 code [0x000000000269dae0, 0x000000000269e298]
Event: 12.438 Thread 0x0000000008fcb000  257             java.util.ArrayList::iterator (10 bytes)
Event: 12.439 Thread 0x0000000008fcb000 nmethod 257 0x00000000026b9f90 code [0x00000000026ba0e0, 0x00000000026ba198]
Event: 12.441 Thread 0x0000000008fcb000  258             java.util.ComparableTimSort::binarySort (223 bytes)
Event: 12.449 Thread 0x0000000008fcb000 nmethod 258 0x00000000026a4710 code [0x00000000026a4880, 0x00000000026a4f98]

GC Heap History (2 events):
Event: 12.469 GC heap before
{Heap before GC invocations=1 (full 0):
 PSYoungGen      total 76480K, used 65600K [0x00000000eaab0000, 0x00000000f0000000, 0x0000000000000000)
  eden space 65600K, 100% used [0x00000000eaab0000,0x00000000eeac0000,0x00000000eeac0000)
  from space 10880K, 0% used [0x00000000ef560000,0x00000000ef560000,0x00000000f0000000)
  to   space 10880K, 0% used [0x00000000eeac0000,0x00000000eeac0000,0x00000000ef560000)
 ParOldGen       total 174784K, used 0K [0x00000000c0000000, 0x00000000caab0000, 0x00000000eaab0000)
  object space 174784K, 0% used [0x00000000c0000000,0x00000000c0000000,0x00000000caab0000)
 PSPermGen       total 21248K, used 19123K [0x00000000bae00000, 0x00000000bc2c0000, 0x00000000c0000000)
  object space 21248K, 89% used [0x00000000bae00000,0x00000000bc0acc60,0x00000000bc2c0000)
Event: 12.486 GC heap after
Heap after GC invocations=1 (full 0):
 PSYoungGen      total 76480K, used 10878K [0x00000000eaab0000, 0x00000000f0000000, 0x0000000000000000)
  eden space 65600K, 0% used [0x00000000eaab0000,0x00000000eaab0000,0x00000000eeac0000)
  from space 10880K, 99% used [0x00000000eeac0000,0x00000000ef55f918,0x00000000ef560000)
  to   space 10880K, 0% used [0x00000000ef560000,0x00000000ef560000,0x00000000f0000000)
 ParOldGen       total 174784K, used 1438K [0x00000000c0000000, 0x00000000caab0000, 0x00000000eaab0000)
  object space 174784K, 0% used [0x00000000c0000000,0x00000000c0167be0,0x00000000caab0000)
 PSPermGen       total 21248K, used 19123K [0x00000000bae00000, 0x00000000bc2c0000, 0x00000000c0000000)
  object space 21248K, 89% used [0x00000000bae00000,0x00000000bc0acc60,0x00000000bc2c0000)
}

Deoptimization events (10 events):
Event: 11.921 Thread 0x000000000b89c000 Uncommon trap -34 fr.pc 0x0000000002671684
Event: 11.972 Thread 0x000000000b984000 Uncommon trap -34 fr.pc 0x0000000002671684
Event: 11.972 Thread 0x000000000b89c000 Uncommon trap -34 fr.pc 0x0000000002671684
Event: 12.234 Thread 0x000000000b983000 Uncommon trap -122 fr.pc 0x00000000026ae38c
Event: 12.248 Thread 0x000000000b983000 Uncommon trap -122 fr.pc 0x00000000026a56c0
Event: 12.360 Thread 0x000000000b983000 Uncommon trap -42 fr.pc 0x00000000026a7018
Event: 12.360 Thread 0x000000000b983000 Uncommon trap -42 fr.pc 0x00000000026a70b0
Event: 12.360 Thread 0x000000000b983000 Uncommon trap -42 fr.pc 0x00000000026a70b0
Event: 12.360 Thread 0x000000000b983000 Uncommon trap -42 fr.pc 0x00000000026a7018
Event: 12.441 Thread 0x000000000b983000 Uncommon trap -42 fr.pc 0x000000000269dffc

Internal exceptions (10 events):
Event: 11.878 Thread 0x000000000032c800 Threw 0x00000000edbf2e68 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 11.880 Thread 0x000000000032c800 Threw 0x00000000edbf6558 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 11.884 Thread 0x000000000032c800 Threw 0x00000000edbf9730 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 11.900 Thread 0x000000000032c800 Threw 0x00000000edc055a8 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 11.904 Thread 0x000000000032c800 Threw 0x00000000edc16080 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 11.981 Thread 0x000000000b983000 Threw 0x00000000ee02d208 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 12.005 Thread 0x000000000b983000 Threw 0x00000000ee0b6818 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 12.019 Thread 0x000000000b983000 Threw 0x00000000ee121c50 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 12.085 Thread 0x000000000b983000 Threw 0x00000000ee2a10c8 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166
Event: 12.086 Thread 0x000000000b983000 Threw 0x00000000ee2a3e50 at C:\jdk7u1_64p\jdk7u5\hotspot\src\share\vm\prims\jvm.cpp:1166

Events (10 events):
Event: 12.488 Executing VM operation: RevokeBias
Event: 12.488 Executing VM operation: RevokeBias done
Event: 12.488 Executing VM operation: RevokeBias
Event: 12.488 Executing VM operation: RevokeBias done
Event: 12.488 Executing VM operation: RevokeBias
Event: 12.488 Executing VM operation: RevokeBias done
Event: 12.488 Executing VM operation: BulkRevokeBias
Event: 12.488 Executing VM operation: BulkRevokeBias done
Event: 12.491 Executing VM operation: RevokeBias
Event: 12.491 Executing VM operation: RevokeBias done


Dynamic libraries:
0x000000003fac0000 - 0x000000003faf4000     C:\Program Files\Java\jre7\bin\javaw.exe
0x00000000775d0000 - 0x0000000077779000     C:\Windows\SYSTEM32\ntdll.dll
0x0000000076ff0000 - 0x000000007710f000     C:\Windows\system32\kernel32.dll
0x00000000fdcb0000 - 0x00000000fdd1c000     C:\Windows\system32\KERNELBASE.dll
0x00000000ff200000 - 0x00000000ff2db000     C:\Windows\system32\ADVAPI32.dll
0x00000000ff3b0000 - 0x00000000ff44f000     C:\Windows\system32\msvcrt.dll
0x00000000fef60000 - 0x00000000fef7f000     C:\Windows\SYSTEM32\sechost.dll
0x00000000fef80000 - 0x00000000ff0ad000     C:\Windows\system32\RPCRT4.dll
0x0000000076ef0000 - 0x0000000076fea000     C:\Windows\system32\USER32.dll
0x00000000ff190000 - 0x00000000ff1f7000     C:\Windows\system32\GDI32.dll
0x00000000fdee0000 - 0x00000000fdeee000     C:\Windows\system32\LPK.dll
0x00000000fed30000 - 0x00000000fedf9000     C:\Windows\system32\USP10.dll
0x00000000fc360000 - 0x00000000fc554000     C:\Windows\WinSxS\amd64_microsoft.windows.common-controls_6595b64144ccf1df_6.0.7601.17514_none_fa396087175ac9ac\COMCTL32.dll
0x00000000fde60000 - 0x00000000fded1000     C:\Windows\system32\SHLWAPI.dll
0x00000000ff2e0000 - 0x00000000ff30e000     C:\Windows\system32\IMM32.DLL
0x00000000fee00000 - 0x00000000fef09000     C:\Windows\system32\MSCTF.dll
0x00000000fd9e0000 - 0x00000000fda24000     C:\Windows\system32\nvinitx.dll
0x0000000062d10000 - 0x0000000062de1000     C:\Program Files\Java\jre7\bin\msvcr100.dll
0x000000005ede0000 - 0x000000005f4fa000     C:\Program Files\Java\jre7\bin\server\jvm.dll
0x00000000f8e80000 - 0x00000000f8e89000     C:\Windows\system32\WSOCK32.dll
0x00000000fef10000 - 0x00000000fef5d000     C:\Windows\system32\WS2_32.dll
0x00000000fdf90000 - 0x00000000fdf98000     C:\Windows\system32\NSI.dll
0x00000000fb8a0000 - 0x00000000fb8db000     C:\Windows\system32\WINMM.dll
0x00000000777a0000 - 0x00000000777a7000     C:\Windows\system32\PSAPI.DLL
0x000000006b0a0000 - 0x000000006b0af000     C:\Program Files\Java\jre7\bin\verify.dll
0x0000000066000000 - 0x0000000066028000     C:\Program Files\Java\jre7\bin\java.dll
0x0000000066070000 - 0x0000000066085000     C:\Program Files\Java\jre7\bin\zip.dll
0x000000005ce10000 - 0x000000005cfa4000     C:\Program Files\Java\jre7\bin\awt.dll
0x00000000ff0b0000 - 0x00000000ff187000     C:\Windows\system32\OLEAUT32.dll
0x00000000ff450000 - 0x00000000ff653000     C:\Windows\system32\ole32.dll
0x00000000fbfb0000 - 0x00000000fc006000     C:\Windows\system32\uxtheme.dll
0x00000000fb9f0000 - 0x00000000fba08000     C:\Windows\system32\dwmapi.dll
0x00000000fd8d0000 - 0x00000000fd8df000     C:\Windows\system32\CRYPTBASE.dll
0x00000000fdfa0000 - 0x00000000fed28000     C:\Windows\system32\SHELL32.dll
0x0000000064690000 - 0x00000000646c4000     C:\Program Files\Java\jre7\bin\fontmanager.dll
0x00000000ff310000 - 0x00000000ff3a9000     C:\Windows\system32\CLBCatQ.DLL
0x00000000fb3d0000 - 0x00000000fb4fa000     C:\Windows\system32\WindowsCodecs.dll
0x00000000fd870000 - 0x00000000fd8c7000     C:\Windows\system32\apphelp.dll
0x0000000080000000 - 0x000000008003b000     C:\Program Files (x86)\ASUS\ASUS WebStorage\3.0.84.161\ASUSWSShellExt64.dll
0x00000000fb620000 - 0x00000000fb655000     C:\Windows\system32\EhStorShell.dll
0x00000000ff660000 - 0x00000000ff837000     C:\Windows\system32\SETUPAPI.dll
0x00000000fdc70000 - 0x00000000fdca6000     C:\Windows\system32\CFGMGR32.dll
0x00000000fdc50000 - 0x00000000fdc6a000     C:\Windows\system32\DEVOBJ.dll
0x00000000fc040000 - 0x00000000fc16c000     C:\Windows\system32\PROPSYS.dll
0x00000000f3400000 - 0x00000000f3a72000     C:\PROGRA~1\MICROS~2\Office14\GROOVEEX.DLL
0x000000006ff00000 - 0x000000006ffa3000     C:\Windows\WinSxS\amd64_microsoft.vc90.crt_1fc8b3b9a1e18e3b_9.0.30729.6161_none_08e61857a83bc251\MSVCR90.dll
0x000000006ffb0000 - 0x0000000070083000     C:\Windows\WinSxS\amd64_microsoft.vc90.crt_1fc8b3b9a1e18e3b_9.0.30729.6161_none_08e61857a83bc251\MSVCP90.dll
0x0000000070100000 - 0x000000007012f000     C:\Windows\WinSxS\amd64_microsoft.vc90.atl_1fc8b3b9a1e18e3b_9.0.30729.6161_none_0a1fd3a3a768b895\ATL90.DLL
0x00000000f2fe0000 - 0x00000000f33fa000     C:\PROGRA~1\COMMON~1\MICROS~1\OFFICE14\Cultures\office.odf
0x00000000f2770000 - 0x00000000f2fd5000     C:\PROGRA~1\MICROS~2\Office14\1033\GrooveIntlResource.dll
0x00000000fa090000 - 0x00000000fa110000     C:\Windows\system32\ntshrui.dll
0x00000000fd5d0000 - 0x00000000fd5f3000     C:\Windows\system32\srvcli.dll
0x00000000f66e0000 - 0x00000000f66ef000     C:\Windows\system32\cscapi.dll
0x00000000fb9d0000 - 0x00000000fb9db000     C:\Windows\system32\slc.dll
0x0000000066300000 - 0x0000000066319000     C:\Program Files\Java\jre7\bin\net.dll
0x000000000a4a0000 - 0x000000000a4de000     C:\Program Files (x86)\Avira\AntiVir Desktop\avsda64.dll
0x00000000fcb80000 - 0x00000000fcba7000     C:\Windows\system32\IPHLPAPI.DLL
0x00000000fcb70000 - 0x00000000fcb7b000     C:\Windows\system32\WINNSI.DLL
0x00000000fd210000 - 0x00000000fd265000     C:\Windows\system32\mswsock.dll
0x00000000fd200000 - 0x00000000fd207000     C:\Windows\System32\wship6.dll
0x0000000066040000 - 0x0000000066051000     C:\Program Files\Java\jre7\bin\nio.dll
0x00000000636f0000 - 0x0000000063731000     C:\Program Files\Java\jre7\bin\t2k.dll
0x00000000fdef0000 - 0x00000000fdf87000     C:\Windows\system32\COMDLG32.dll
0x00000000f4810000 - 0x00000000f488f000     C:\Program Files\Common Files\microsoft shared\ink\tiptsf.dll
0x00000000fbc30000 - 0x00000000fbc5d000     C:\Windows\system32\ntmarta.dll
0x00000000fde00000 - 0x00000000fde52000     C:\Windows\system32\WLDAP32.dll
0x00000000ef8b0000 - 0x00000000ef987000     C:\Windows\system32\SearchFolder.dll
0x00000000fb7b0000 - 0x00000000fb7e5000     C:\Windows\system32\XmlLite.dll
0x00000000f5a40000 - 0x00000000f5a4c000     C:\Windows\system32\LINKINFO.dll
0x00000000fd270000 - 0x00000000fd287000     C:\Windows\system32\CRYPTSP.dll
0x00000000fcf70000 - 0x00000000fcfb7000     C:\Windows\system32\rsaenh.dll
0x00000000fd9c0000 - 0x00000000fd9d4000     C:\Windows\system32\RpcRtRemote.dll
0x00000000fda30000 - 0x00000000fda3f000     C:\Windows\system32\profapi.dll
0x00000000f4eb0000 - 0x00000000f4f2b000     C:\Windows\System32\StructuredQuery.dll
0x00000000fd800000 - 0x00000000fd80b000     C:\Windows\System32\Secur32.dll
0x00000000fd840000 - 0x00000000fd865000     C:\Windows\system32\SSPICLI.DLL
0x00000000f5f40000 - 0x00000000f5f5d000     C:\Windows\system32\mssprxy.dll
0x00000000fc760000 - 0x00000000fc77f000     C:\Windows\system32\thumbcache.dll
0x00000000fa3e0000 - 0x00000000fa414000     C:\Windows\system32\SHDOCVW.dll
0x00000000f0470000 - 0x00000000f0ee1000     C:\Windows\system32\ieframe.DLL
0x00000000f9df0000 - 0x00000000f9e44000     C:\Windows\system32\OLEACC.dll
0x0000000077110000 - 0x000000007731f000     C:\Windows\system32\iertutil.dll
0x00000000fc790000 - 0x00000000fc7a0000     C:\Program Files\Common Files\Microsoft Shared\OFFICE14\MSOXEV.DLL
0x000000000b3b0000 - 0x000000000b3e9000     C:\Program Files (x86)\Common Files\libhmsbeagle-1.0\hmsbeagle64.dll
0x000000000b400000 - 0x000000000b447000     C:\Program Files (x86)\Common Files\libhmsbeagle-1.0\hmsbeagle-cpu64.DLL
0x0000000010910000 - 0x0000000011814000     C:\Program Files (x86)\Common Files\libhmsbeagle-1.0\hmsbeagle-cuda64.DLL
0x0000000011820000 - 0x000000001200c000     C:\Windows\system32\nvcuda.dll
0x00000000f9550000 - 0x00000000f9801000     C:\Windows\system32\nvapi64.dll
0x00000000fcb60000 - 0x00000000fcb6c000     C:\Windows\system32\VERSION.dll
0x00000000fddc0000 - 0x00000000fddfa000     C:\Windows\system32\WINTRUST.dll
0x00000000fdae0000 - 0x00000000fdc4a000     C:\Windows\system32\CRYPT32.dll
0x00000000fdad0000 - 0x00000000fdadf000     C:\Windows\system32\MSASN1.dll
0x000000000c020000 - 0x000000000c064000     C:\Program Files (x86)\Common Files\libhmsbeagle-1.0\hmsbeagle-cpu-sse64.DLL
0x00000000f5140000 - 0x00000000f5265000     C:\Windows\system32\dbghelp.dll

VM Arguments:
jvm_args: -Xms256m -Xmx1024m
java_command: C:\Users\giovanni\Documents\Programmi\BEAST v1.6.2\BEAST v1.6.2.exe -window -working -options
Launcher Type: SUN_STANDARD

Environment Variables:
PATH=C:\Program Files (x86)\MEGA5.1Beta1;C:\Program Files (x86)\NVIDIA Corporation\PhysX\Common;C:\Program Files\Common Files\Microsoft Shared\Windows Live;C:\Program Files (x86)\Common Files\Microsoft Shared\Windows Live;C:\Windows\system32;C:\Windows;C:\Windows\System32\Wbem;C:\Windows\System32\WindowsPowerShell\v1.0\;C:\Program Files (x86)\Windows Live\Shared;;C:\Program Files\Intel\WiFi\bin\;;C:\Program Files (x86)\Common Files\libhmsbeagle-1.0;C:\Program Files (x86)\Common Files\libhmsbeagle-1.0;C:\Program Files (x86)\Common Files\libhmsbeagle-1.0;C:\Program Files (x86)\EaseUS\Todo Backup\bin\x64\;C:\Program Files\Java\jre7\bin
USERNAME=giovanni
OS=Windows_NT
PROCESSOR_IDENTIFIER=Intel64 Family 6 Model 42 Stepping 7, GenuineIntel



---------------  S Y S T E M  ---------------

OS: Windows 7 , 64 bit Build 7601 Service Pack 1

CPU:total 4 (2 cores per cpu, 2 threads per core) family 6 model 42 stepping 7, cmov, cx8, fxsr, mmx, sse, sse2, sse3, ssse3, sse4.1, sse4.2, popcnt, avx, ht, tsc, tscinvbit

Memory: 4k page, physical 6200008k(3219764k free), swap 12398164k(7804664k free)

vm_info: Java HotSpot(TM) 64-Bit Server VM (23.1-b03) for windows-amd64 JRE (1.7.0_05-b06), built on Jun 27 2012 00:54:58 by "java_re" with unknown MS VC++:1600

time: Tue Jul 24 09:29:25 2012
elapsed time: 12 seconds

when I use gpu the program seem to work (but unfortunately it is much slower ), so i think that it isn't a problem of the XML file.
I have performed similar analisis (using beagle with cpu) without problems (the only difference is the lenght of sequence and the number of discrete location included)...could it be a problem related to the low number of sequence associated to each location or a similar problem forcing the program to deal with very low probaility??
could it be a problem related to the performances of my PC??
thank you for any advice to fix this problem!!!!
Giovanni

[Alexandre De Bruyn]

Hi,
I have the same error since I installed Beagle 2 on windows, using Beast 1.8, even if I just chek the box "show beagle resources and quit".

[Andrew Rambaut]

Hi Alexandre,

Are you getting exactly the same error? The quoted email is from July 2012 so it is not using

BEAGLE 2.0. It would be useful to paste the full text of the error. Plus could you give the Java version

you have installed, and what windows version (plus 32 or 64 bit). CPU type would be useful too.

Thanks,

Andrew

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[Andrew Rambaut]

Following up on this, there are some instructions for removing BEAGLE 1.0 before installing BEAGLE 2.0

on Windows:

https://code.google.com/p/beagle-lib/wiki/WindowsInstallInstructions

Andrew

On 29 Oct 2013, at 12:49, Alexandre De Bruyn <alexandr...@gmail.com> wrote:

[Julian W Tang]

Just on this issue, my BEAGLE library won't even load with this error:
 
"Failed to load BEAGLE library: no hmsbeagle-jni in java.library.path"
 
I've installed BEAGLE to run with BEAST v 1.7.5 on a desktop PC using Windows 8 (i7-3770 with 32 GB RAM) with the latest version of Java installed.
 
Thanks for any help on this - I think it should be quite a simple fix - but I am not a programmer, just a user...
 
Julian

 

---

From: a.ra...@ed.ac.uk
Subject: BEAGLE error on Windows
Date: Tue, 29 Oct 2013 13:39:25 +0000
To: beast...@googlegroups.com

[Andrew Rambaut]

Hi Julian,

Did you restart after installing BEAGLE? This is the most common reason for this issue. If that doesn’t fix it, copying the BEAGLE DLL files from C:\Program Files\Common Files:

hmsbeagle64.dll
hmsbeagle-cpu64.dll
hmsbeagle-opencl64.dll

Put these in the same folder as "BEAST v1.8.0.exe”.

Andrew

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[Julian W Tang]

Thanks Andrew - no I didn't restart after installation (not sure if this was instructed) - but will try this.
 
Julian

 

---

From: a.ra...@ed.ac.uk
Subject: Re: BEAGLE error on Windows
Date: Tue, 29 Oct 2013 15:38:30 +0000
To: beast...@googlegroups.com

[Andrew Rambaut]

It is mentioned here:

https://code.google.com/p/beagle-lib/wiki/WindowsInstallInstructions

But I will emphasise it more.

Andrew

[Alexandre De Bruyn]

Indeed, I didn't uninstall Beagle 1 the first time. It's working fine now.

Thank you Andrew

On Tuesday, July 24, 2012 12:22:06 PM UTC+4, geo wrote:

[Yan Wang]

Hi Geo,

Does your problem solved? I am having the same issue currently using Beast 1.8.2 and Beagle 4.1. Thanks!

With regards,
Yan

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