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@fac2003
Created June 4, 2016 23:56
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hs_err_pid28729.log
#
# A fatal error has been detected by the Java Runtime Environment:
#
# SIGSEGV (0xb) at pc=0x00007f836c387324, pid=28729, tid=140203395344128
#
# JRE version: Java(TM) SE Runtime Environment (8.0_45-b14) (build 1.8.0_45-b14)
# Java VM: Java HotSpot(TM) 64-Bit Server VM (25.45-b02 mixed mode linux-amd64 compressed oops)
# Problematic frame:
# C [libnd4j.so+0x94324] functions::reduce::ReduceFunction<float>::exec(float*, int*, float*, float*, int*, int*, int)+0xc24
#
# Failed to write core dump. Core dumps have been disabled. To enable core dumping, try "ulimit -c unlimited" before starting Java again
#
# If you would like to submit a bug report, please visit:
# http://bugreport.java.com/bugreport/crash.jsp
# The crash happened outside the Java Virtual Machine in native code.
# See problematic frame for where to report the bug.
#
--------------- T H R E A D ---------------
Current thread (0x00007f839c008800): JavaThread "main" [_thread_in_native, id=28731, stack(0x00007f83a5836000,0x00007f83a5937000)]
siginfo: si_signo: 11 (SIGSEGV), si_code: 1 (SEGV_MAPERR), si_addr: 0x00007f8283708b04
Registers:
RAX=0x00000000000000c8, RBX=0x00007f82e52fc244, RCX=0x0000000000000002, RDX=0xffffffffe7903230
RSP=0x00007f83a5935150, RBP=0x0000000000000001, RSI=0x00007f82e52fc240, RDI=0x0000000000000002
R8 =0x00007f839c659f70, R9 =0x00007f839c659ff0, R10=0x00007f836c5bdbb0, R11=0x00007f83a4d00ca8
R12=0x00007f82e7fd54c0, R13=0x0000000000000001, R14=0x00007f82e52fc240, R15=0x00007f839c659f70
RIP=0x00007f836c387324, EFLAGS=0x0000000000010246, CSGSFS=0x0000000000000033, ERR=0x0000000000000004
TRAPNO=0x000000000000000e
Top of Stack: (sp=0x00007f83a5935150)
0x00007f83a5935150: 00007f82e52fc240 00007f83a57601f0
siblings : 8
0x00007f83a5935160: 000000009c007408 00000000000003d8
0x00007f83a5935170: 00007f839c659ff0 00007f839c9c3d08
0x00007f83a5935180: 00007f82e52fc270 00007f82e7fd54e0
0x00007f83a5935190: 00007f839c659f70 00007f839c008800
0x00007f83a59351a0: 0000000700000001 00007f82e7fd54c0
0x00007f83a59351b0: 00007f82e52fc240 0000000000000000
0x00007f83a59351c0: 0000000000000000 0000000000000000
0x00007f83a59351d0: 0000000000000000 0000000000000000
0x00007f83a59351e0: 0000000200000000 0000000100000000
0x00007f83a59351f0: 00007f82e7fd54c0 00007f82e52fc240
0x00007f83a5935200: 000000009c000000 00007f83a08d0000
0x00007f83a5935210: 0000000000000000 0000000000000000
0x00007f83a5935220: 00007f83a4ca3290 00007f83a57601f0
0x00007f83a5935230: 0000000000000008 00007f830000000e
0x00007f83a5935240: 00007f83a59350d0 0000003000000028
0x00007f83a5935250: 0000000000000020 00007f83a5935300
0x00007f83a5935260: 00007f839c008800 0000000000000000
0x00007f83a5935270: 00007f839c008800 00007f83a59352f0
0x00007f83a5935280: 00007f830000000e 00007f83a08d8aa0
0x00007f83a5935290: 00007f839c008800 00007f83a4427afb
0x00007f83a59352a0: 00007f839c008800 000000000066006f
0x00007f83a59352b0: 0000000000000000 0000000000000001
0x00007f83a59352c0: 000000076ab00368 00007f839c000020
0x00007f83a59352d0: 0000000000000008 0000000000000008
0x00007f83a59352e0: 0000000000000008 00007f839c000020
0x00007f83a59352f0: 0000000000000020 00007f82e7fd54c0
0x00007f83a5935300: 0000000000000001 00007f82e52fc240
0x00007f83a5935310: 00007f839c659f70 00007f83a4dae870
0x00007f83a5935320: 0000000700000004 00007f82e52fc270
0x00007f83a5935330: 00007f82e7fd54e0 00007f82e7fd54c0
0x00007f83a5935340: 0000000000000001 00007f82e52fc240
Instructions: (pc=0x00007f836c387324)
0x00007f836c387304: 00 00 00 29 08 83 c2 01 48 83 c0 04 3b 54 24 50
0x00007f836c387314: 7c ea e9 5e f8 ff ff b8 01 00 00 00 49 63 14 24
0x00007f836c387324: 44 8b 04 93 e9 7e f6 ff ff b8 01 00 00 00 e9 f0
0x00007f836c387334: f9 ff ff 45 31 c0 31 d2 85 ff b8 01 00 00 00 0f
Register to memory mapping:
RAX=0x00000000000000c8 is an unknown value
RBX=0x00007f82e52fc244 is an unknown value
RCX=0x0000000000000002 is an unknown value
RDX=0xffffffffe7903230 is an unknown value
RSP=0x00007f83a5935150 is pointing into the stack for thread: 0x00007f839c008800
RBP=0x0000000000000001 is an unknown value
RSI=0x00007f82e52fc240 is an unknown value
RDI=0x0000000000000002 is an unknown value
R8 =0x00007f839c659f70 is an unknown value
R9 =0x00007f839c659ff0 is an unknown value
R10=0x00007f836c5bdbb0: _ZTVN9functions6reduce3ops3SumIfEE+0xd0 in /tmp/javacpp69721823879702/libnd4j.so at 0x00007f836c2f3000
R11=0x00007f83a4d00ca8: <offset 0xf9dca8> in /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/server/libjvm.so at 0x00007f83a3d63000
R12=0x00007f82e7fd54c0 is an unknown value
R13=0x0000000000000001 is an unknown value
R14=0x00007f82e52fc240 is an unknown value
R15=0x00007f839c659f70 is an unknown value
Stack: [0x00007f83a5836000,0x00007f83a5937000], sp=0x00007f83a5935150, free space=1020k
Native frames: (J=compiled Java code, j=interpreted, Vv=VM code, C=native code)
C [libnd4j.so+0x94324] functions::reduce::ReduceFunction<float>::exec(float*, int*, float*, float*, int*, int*, int)+0xc24
Java frames: (J=compiled Java code, j=interpreted, Vv=VM code)
J 3009 org.nd4j.nativeblas.NativeOps.execReduceFloat([JIJJJJJJI)V (0 bytes) @ 0x00007f838d921e37 [0x00007f838d921dc0+0x77]
J 3290 C2 org.nd4j.linalg.cpu.nativecpu.ops.NativeOpExecutioner.exec(Lorg/nd4j/linalg/api/ops/Accumulation;[I)Lorg/nd4j/linalg/api/ndarray/INDArray; (1441 bytes) @
0x00007f838d5d2c48 [0x00007f838d5d2300+0x948]
J 3400 C2 org.deeplearning4j.nn.layers.BaseOutputLayer.getGradientsAndDelta(Lorg/nd4j/linalg/api/ndarray/INDArray;)Lorg/deeplearning4j/berkeley/Triple; (771 bytes)
@ 0x00007f838d1ba93c [0x00007f838d1b9520+0x141c]
J 3303 C2 org.deeplearning4j.nn.multilayer.MultiLayerNetwork.calcBackpropGradients(Lorg/nd4j/linalg/api/ndarray/INDArray;Z)Lorg/deeplearning4j/berkeley/Pair; (648 b
ytes) @ 0x00007f838d6f7518 [0x00007f838d6f72e0+0x238]
J 3402 C2 org.deeplearning4j.optimize.solvers.BaseOptimizer.gradientAndScore()Lorg/deeplearning4j/berkeley/Pair; (67 bytes) @ 0x00007f838d387a04 [0x00007f838d3877a0
+0x264]
J 3746 C2 org.deeplearning4j.nn.multilayer.MultiLayerNetwork.fit(Lorg/nd4j/linalg/dataset/api/DataSet;)V (96 bytes) @ 0x00007f838d56c928 [0x00007f838d56c640+0x2e8]
j org.campagnelab.dl.varanalysis.learning.DetectMutations.main([Ljava/lang/String;)V+600
v ~StubRoutines::call_stub
--------------- P R O C E S S ---------------
Java Threads: ( => current thread )
0x00007f839c0d0800 JavaThread "Service Thread" daemon [_thread_blocked, id=28748, stack(0x00007f836edee000,0x00007f836eeef000)]
0x00007f839c0c3800 JavaThread "C1 CompilerThread3" daemon [_thread_blocked, id=28747, stack(0x00007f836eeef000,0x00007f836eff0000)]
0x00007f839c0c1800 JavaThread "C2 CompilerThread2" daemon [_thread_blocked, id=28746, stack(0x00007f836eff0000,0x00007f836f0f1000)]
0x00007f839c0bf800 JavaThread "C2 CompilerThread1" daemon [_thread_blocked, id=28745, stack(0x00007f836f0f1000,0x00007f836f1f2000)]
0x00007f839c0bc800 JavaThread "C2 CompilerThread0" daemon [_thread_blocked, id=28744, stack(0x00007f836f1f2000,0x00007f836f2f3000)]
0x00007f839c0bb000 JavaThread "Signal Dispatcher" daemon [_thread_blocked, id=28743, stack(0x00007f836f2f3000,0x00007f836f3f4000)]
0x00007f839c085800 JavaThread "Finalizer" daemon [_thread_blocked, id=28742, stack(0x00007f836f3f4000,0x00007f836f4f5000)]
0x00007f839c083800 JavaThread "Reference Handler" daemon [_thread_blocked, id=28741, stack(0x00007f836f4f5000,0x00007f836f5f6000)]
=>0x00007f839c008800 JavaThread "main" [_thread_in_native, id=28731, stack(0x00007f83a5836000,0x00007f83a5937000)]
Other Threads:
0x00007f839c07e800 VMThread [stack: 0x00007f836f5f6000,0x00007f836f6f7000] [id=28740]
0x00007f839c0d3000 WatcherThread [stack: 0x00007f836eced000,0x00007f836edee000] [id=28749]
VM state:not at safepoint (normal execution)
VM Mutex/Monitor currently owned by a thread: None
Heap:
PSYoungGen total 106496K, used 3044K [0x000000076ab00000, 0x0000000777100000, 0x00000007c0000000)
eden space 105472K, 1% used [0x000000076ab00000,0x000000076ad0efe8,0x0000000771200000)
from space 1024K, 91% used [0x0000000777000000,0x00000007770ea358,0x0000000777100000)
to space 3584K, 0% used [0x0000000776a00000,0x0000000776a00000,0x0000000776d80000)
ParOldGen total 573440K, used 528708K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e0451328,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Card table byte_map: [0x00007f83a2430000,0x00007f83a2c31000] byte_map_base: 0x00007f839ee30000
Marking Bits: (ParMarkBitMap*) 0x00007f83a4d00760
Begin Bits: [0x00007f8360000000, 0x00007f8364000000)
End Bits: [0x00007f8364000000, 0x00007f8368000000)
Polling page: 0x00007f83a5941000
CodeCache: size=245760Kb used=9853Kb max_used=10640Kb free=235906Kb
bounds [0x00007f838d000000, 0x00007f838da90000, 0x00007f839c000000]
total_blobs=3544 nmethods=2996 adapters=462
compilation: enabled
Compilation events (10 events):
Event: 4962.071 Thread 0x00007f839c0c3800 nmethod 3962 0x00007f838d71fc10 code [0x00007f838d71fee0, 0x00007f838d7213a8]
Event: 4962.071 Thread 0x00007f839c0c3800 3960 1 org.apache.hadoop.conf.Configured::getConf (5 bytes)
Event: 4962.071 Thread 0x00007f839c0c1800 nmethod 3959 0x00007f838d71f510 code [0x00007f838d71f680, 0x00007f838d71f978]
Event: 4962.071 Thread 0x00007f839c0c3800 nmethod 3960 0x00007f838d71f250 code [0x00007f838d71f3a0, 0x00007f838d71f4b0]
Event: 4972.212 Thread 0x00007f839c0bf800 3963 4 java.util.regex.Matcher::search (109 bytes)
Event: 4972.227 Thread 0x00007f839c0bf800 nmethod 3963 0x00007f838d7f4cd0 code [0x00007f838d7f4ea0, 0x00007f838d7f58f8]
Event: 4992.554 Thread 0x00007f839c0c3800 3965 3 ch.qos.logback.classic.Logger::callAppenders (47 bytes)
Event: 4992.555 Thread 0x00007f839c0c3800 nmethod 3965 0x00007f838d7f44d0 code [0x00007f838d7f4660, 0x00007f838d7f4ad8]
Event: 4992.555 Thread 0x00007f839c0c3800 3964 3 ch.qos.logback.classic.spi.LoggingEvent::<init> (142 bytes)
Event: 4992.556 Thread 0x00007f839c0c3800 nmethod 3964 0x00007f838d7f3610 code [0x00007f838d7f3800, 0x00007f838d7f4108]
GC Heap History (10 events):
Event: 4991.583 GC heap before
{Heap before GC invocations=12471 (full 47):
PSYoungGen total 126976K, used 126560K [0x000000076ab00000, 0x0000000777a80000, 0x00000007c0000000)
eden space 125440K, 100% used [0x000000076ab00000,0x0000000772580000,0x0000000772580000)
from space 1536K, 72% used [0x0000000777280000,0x0000000777398078,0x0000000777400000)
to space 4096K, 0% used [0x0000000777680000,0x0000000777680000,0x0000000777a80000)
ParOldGen total 573440K, used 528289K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e03e8628,0x00000006e3000000)
Metaspace used 25200K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Event: 4991.587 GC heap after
Heap after GC invocations=12471 (full 47):
PSYoungGen total 121856K, used 896K [0x000000076ab00000, 0x0000000777780000, 0x00000007c0000000)
eden space 120832K, 0% used [0x000000076ab00000,0x000000076ab00000,0x0000000772100000)
from space 1024K, 87% used [0x0000000777680000,0x0000000777760078,0x0000000777780000)
to space 4096K, 0% used [0x0000000776f80000,0x0000000776f80000,0x0000000777380000)
ParOldGen total 573440K, used 528345K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e03f64f0,0x00000006e3000000)
Metaspace used 25200K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
}
Event: 4992.801 GC heap before
{Heap before GC invocations=12472 (full 47):
PSYoungGen total 121856K, used 121728K [0x000000076ab00000, 0x0000000777780000, 0x00000007c0000000)
eden space 120832K, 100% used [0x000000076ab00000,0x0000000772100000,0x0000000772100000)
from space 1024K, 87% used [0x0000000777680000,0x0000000777760078,0x0000000777780000)
to space 4096K, 0% used [0x0000000776f80000,0x0000000776f80000,0x0000000777380000)
ParOldGen total 573440K, used 528345K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e03f64f0,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Event: 4992.808 GC heap after
Heap after GC invocations=12472 (full 47):
PSYoungGen total 118272K, used 1082K [0x000000076ab00000, 0x0000000777700000, 0x00000007c0000000)
eden space 116736K, 0% used [0x000000076ab00000,0x000000076ab00000,0x0000000771d00000)
from space 1536K, 70% used [0x0000000776f80000,0x000000077708ea18,0x0000000777100000)
to space 4096K, 0% used [0x0000000777300000,0x0000000777300000,0x0000000777700000)
ParOldGen total 573440K, used 528361K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e03fa4f0,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
}
Event: 4993.796 GC heap before
{Heap before GC invocations=12473 (full 47):
PSYoungGen total 118272K, used 117818K [0x000000076ab00000, 0x0000000777700000, 0x00000007c0000000)
eden space 116736K, 100% used [0x000000076ab00000,0x0000000771d00000,0x0000000771d00000)
from space 1536K, 70% used [0x0000000776f80000,0x000000077708ea18,0x0000000777100000)
to space 4096K, 0% used [0x0000000777300000,0x0000000777300000,0x0000000777700000)
ParOldGen total 573440K, used 528361K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e03fa4f0,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Event: 4993.801 GC heap after
Heap after GC invocations=12473 (full 47):
PSYoungGen total 114176K, used 1327K [0x000000076ab00000, 0x0000000777480000, 0x00000007c0000000)
eden space 112640K, 0% used [0x000000076ab00000,0x000000076ab00000,0x0000000771900000)
from space 1536K, 86% used [0x0000000777300000,0x000000077744be50,0x0000000777480000)
to space 3584K, 0% used [0x0000000776d80000,0x0000000776d80000,0x0000000777100000)
ParOldGen total 573440K, used 528588K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e04332e0,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
}
Event: 4994.784 GC heap before
{Heap before GC invocations=12474 (full 47):
PSYoungGen total 114176K, used 113967K [0x000000076ab00000, 0x0000000777480000, 0x00000007c0000000)
eden space 112640K, 100% used [0x000000076ab00000,0x0000000771900000,0x0000000771900000)
from space 1536K, 86% used [0x0000000777300000,0x000000077744be50,0x0000000777480000)
to space 3584K, 0% used [0x0000000776d80000,0x0000000776d80000,0x0000000777100000)
ParOldGen total 573440K, used 528588K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e04332e0,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Event: 4994.791 GC heap after
Heap after GC invocations=12474 (full 47):
PSYoungGen total 110080K, used 864K [0x000000076ab00000, 0x0000000777380000, 0x00000007c0000000)
eden space 109056K, 0% used [0x000000076ab00000,0x000000076ab00000,0x0000000771580000)
from space 1024K, 84% used [0x0000000776d80000,0x0000000776e58000,0x0000000776e80000)
to space 3584K, 0% used [0x0000000777000000,0x0000000777000000,0x0000000777380000)
ParOldGen total 573440K, used 528684K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e044b328,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
}
Event: 4995.642 GC heap before
{Heap before GC invocations=12475 (full 47):
PSYoungGen total 110080K, used 109920K [0x000000076ab00000, 0x0000000777380000, 0x00000007c0000000)
eden space 109056K, 100% used [0x000000076ab00000,0x0000000771580000,0x0000000771580000)
from space 1024K, 84% used [0x0000000776d80000,0x0000000776e58000,0x0000000776e80000)
to space 3584K, 0% used [0x0000000777000000,0x0000000777000000,0x0000000777380000)
ParOldGen total 573440K, used 528684K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e044b328,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
Event: 4995.649 GC heap after
Heap after GC invocations=12475 (full 47):
PSYoungGen total 106496K, used 936K [0x000000076ab00000, 0x0000000777100000, 0x00000007c0000000)
eden space 105472K, 0% used [0x000000076ab00000,0x000000076ab00000,0x0000000771200000)
from space 1024K, 91% used [0x0000000777000000,0x00000007770ea358,0x0000000777100000)
to space 3584K, 0% used [0x0000000776a00000,0x0000000776a00000,0x0000000776d80000)
ParOldGen total 573440K, used 528708K [0x00000006c0000000, 0x00000006e3000000, 0x000000076ab00000)
object space 573440K, 92% used [0x00000006c0000000,0x00000006e0451328,0x00000006e3000000)
Metaspace used 25201K, capacity 25601K, committed 25728K, reserved 1073152K
class space used 2768K, capacity 2882K, committed 2944K, reserved 1048576K
}
Deoptimization events (10 events):
Event: 957.841 Thread 0x00007f82e4e73800 Uncommon trap: reason=class_check action=maybe_recompile pc=0x00007f838d632188 method=java.util.Collections$UnmodifiableCol
lection$1.<init>(Ljava/util/Collections$UnmodifiableCollection;)V @ 17
Event: 1164.497 Thread 0x00007f839c008800 Uncommon trap: reason=bimorphic action=maybe_recompile pc=0x00007f838da3bc28 method=java.util.Collections$SynchronizedColl
ection.iterator()Ljava/util/Iterator; @ 4
Event: 1164.499 Thread 0x00007f82e4e73800 Uncommon trap: reason=class_check action=maybe_recompile pc=0x00007f838d545080 method=org.apache.parquet.bytes.BytesUtils.
readIntLittleEndian(Ljava/io/InputStream;)I @ 1
Event: 1164.499 Thread 0x00007f82e4e73800 Uncommon trap: reason=class_check action=maybe_recompile pc=0x00007f838d3b066c method=org.apache.parquet.format.Util.read(
Ljava/io/InputStream;Lparquet/org/apache/thrift/TBase;)Lparquet/org/apache/thrift/TBase; @ 5
Event: 1902.580 Thread 0x00007f839c008800 Uncommon trap: reason=bimorphic action=maybe_recompile pc=0x00007f838da3bc28 method=java.util.Collections$SynchronizedColl
ection.iterator()Ljava/util/Iterator; @ 4
Event: 1902.583 Thread 0x00007f839c74c800 Uncommon trap: reason=class_check action=maybe_recompile pc=0x00007f838d545080 method=org.apache.parquet.bytes.BytesUtils.
readIntLittleEndian(Ljava/io/InputStream;)I @ 1
Event: 1902.583 Thread 0x00007f839c74c800 Uncommon trap: reason=class_check action=maybe_recompile pc=0x00007f838d3b066c method=org.apache.parquet.format.Util.read(
Ljava/io/InputStream;Lparquet/org/apache/thrift/TBase;)Lparquet/org/apache/thrift/TBase; @ 5
Event: 1902.586 Thread 0x00007f839c008800 Uncommon trap: reason=unstable_if action=reinterpret pc=0x00007f838d854e74 method=java.nio.charset.CoderResult.isOverflow(
)Z @ 5
Event: 2108.091 Thread 0x00007f839c008800 Uncommon trap: reason=bimorphic action=maybe_recompile pc=0x00007f838da3bc28 method=java.util.Collections$SynchronizedColl
ection.iterator()Ljava/util/Iterator; @ 4
Event: 3876.865 Thread 0x00007f839c083800 Uncommon trap: reason=unstable_if action=reinterpret pc=0x00007f838d141518 method=java.lang.ref.Reference$ReferenceHandler
.run()V @ 90
Internal exceptions (10 events):
Event: 0.482 Thread 0x00007f839c3b7800 Exception <a 'java/lang/NoClassDefFoundError': parquet/org/slf4j/impl/StaticLoggerBinder> (0x000000076bb22238) thrown at [/RE
-WORK/workspace/8-2-build-linux-amd64/jdk8u45/3457/hotspot/src/share/vm/classfile/systemDictionary.cpp, line 199]
Event: 209.278 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': org.slf4j.impl.StaticMDCBinder.getSingleton()Lorg/slf4j/impl/StaticMDCBinder;>
(0x000000076cfb1770) thrown at [/RE-WORK/workspace/8-2-build-linux-amd64/jdk8u45/3457/hotspot/src/share/vm/interpreter/linkResolver.
Event: 209.411 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchFieldError': method resolution failed> (0x000000076f491ae0) thrown at [/RE-WORK/workspace/8-2
-build-linux-amd64/jdk8u45/3457/hotspot/src/share/vm/prims/methodHandles.cpp, line 1125]
Event: 209.413 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchFieldError': method resolution failed> (0x000000076f4a0410) thrown at [/RE-WORK/workspace/8-2
-build-linux-amd64/jdk8u45/3457/hotspot/src/share/vm/prims/methodHandles.cpp, line 1125]
Event: 211.609 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': <clinit>> (0x00000007702a4840) thrown at [/RE-WORK/workspace/8-2-build-linux-am
d64/jdk8u45/3457/hotspot/src/share/vm/prims/jni.cpp, line 1598]
Event: 211.611 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': <clinit>> (0x00000007702ad150) thrown at [/RE-WORK/workspace/8-2-build-linux-am
d64/jdk8u45/3457/hotspot/src/share/vm/prims/jni.cpp, line 1598]
Event: 211.612 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': <clinit>> (0x00000007702b82f0) thrown at [/RE-WORK/workspace/8-2-build-linux-am
d64/jdk8u45/3457/hotspot/src/share/vm/prims/jni.cpp, line 1598]
Event: 211.612 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': <clinit>> (0x00000007702bb220) thrown at [/RE-WORK/workspace/8-2-build-linux-am
d64/jdk8u45/3457/hotspot/src/share/vm/prims/jni.cpp, line 1598]
Event: 211.615 Thread 0x00007f839c008800 Exception <a 'java/lang/NoSuchMethodError': <clinit>> (0x00000007702db508) thrown at [/RE-WORK/workspace/8-2-build-linux-am
d64/jdk8u45/3457/hotspot/src/share/vm/prims/jni.cpp, line 1598]
Event: 957.829 Thread 0x00007f839c008800 Implicit null exception at 0x00007f838d878c80 to 0x00007f838d879d41
Events (10 events):
Event: 4992.555 Thread 0x00007f839c0c3800 flushing nmethod 0x00007f838d112990
Event: 4992.556 Thread 0x00007f839c0c3800 flushing nmethod 0x00007f838d17cf90
Event: 4992.801 Executing VM operation: ParallelGCFailedAllocation
Event: 4992.808 Executing VM operation: ParallelGCFailedAllocation done
Event: 4993.796 Executing VM operation: ParallelGCFailedAllocation
Event: 4993.801 Executing VM operation: ParallelGCFailedAllocation done
Event: 4994.784 Executing VM operation: ParallelGCFailedAllocation
Event: 4994.791 Executing VM operation: ParallelGCFailedAllocation done
Event: 4995.642 Executing VM operation: ParallelGCFailedAllocation
Event: 4995.649 Executing VM operation: ParallelGCFailedAllocation done
Dynamic libraries:
00400000-00401000 r-xp 00000000 08:01 53066342 /home/manuele_simi/jdk1.8.0_45/bin/java
00600000-00601000 rw-p 00000000 08:01 53066342 /home/manuele_simi/jdk1.8.0_45/bin/java
00d64000-011c6000 rw-p 00000000 00:00 0 [heap]
6c0000000-6e3000000 rw-p 00000000 00:00 0
6e3000000-76ab00000 ---p 00000000 00:00 0
76ab00000-777100000 rw-p 00000000 00:00 0
777100000-7c0000000 ---p 00000000 00:00 0
7c0000000-7c02e0000 rw-p 00000000 00:00 0
7c02e0000-800000000 ---p 00000000 00:00 0
7f82ac000000-7f82affca000 rw-p 00000000 00:00 0
7f82affca000-7f82b0000000 ---p 00000000 00:00 0
7f82b4000000-7f82b4021000 rw-p 00000000 00:00 0
7f82b4021000-7f82b8000000 ---p 00000000 00:00 0
7f82bc000000-7f82bff79000 rw-p 00000000 00:00 0
7f82bff79000-7f82c0000000 ---p 00000000 00:00 0
7f82c0000000-7f82c3f43000 rw-p 00000000 00:00 0
7f82c3f43000-7f82c4000000 ---p 00000000 00:00 0
7f82c4000000-7f82c7fdf000 rw-p 00000000 00:00 0
7f82c7fdf000-7f82c8000000 ---p 00000000 00:00 0
7f82c8000000-7f82cbf36000 rw-p 00000000 00:00 0
7f82cbf36000-7f82cc000000 ---p 00000000 00:00 0
7f82cc000000-7f82cffdd000 rw-p 00000000 00:00 0
7f82cffdd000-7f82d0000000 ---p 00000000 00:00 0
7f82d4000000-7f82d7f73000 rw-p 00000000 00:00 0
7f82d7f73000-7f82d8000000 ---p 00000000 00:00 0
7f82d8000000-7f82dbfa0000 rw-p 00000000 00:00 0
7f82dbfa0000-7f82dc000000 ---p 00000000 00:00 0
7f82dc000000-7f82dfff6000 rw-p 00000000 00:00 0
7f82dfff6000-7f82e0000000 ---p 00000000 00:00 0
7f82e0000000-7f82e3f2c000 rw-p 00000000 00:00 0
7f82e3f2c000-7f82e4000000 ---p 00000000 00:00 0
7f82e4000000-7f82e7fdf000 rw-p 00000000 00:00 0
7f82e7fdf000-7f82e8000000 ---p 00000000 00:00 0
7f82e8000000-7f82ebfe7000 rw-p 00000000 00:00 0
7f82ebfe7000-7f82ec000000 ---p 00000000 00:00 0
7f82ec000000-7f82efff5000 rw-p 00000000 00:00 0
7f82efff5000-7f82f0000000 ---p 00000000 00:00 0
7f82f0000000-7f82f3f17000 rw-p 00000000 00:00 0
7f82f3f17000-7f82f4000000 ---p 00000000 00:00 0
7f82f4000000-7f82f7fdb000 rw-p 00000000 00:00 0
7f82f7fdb000-7f82f8000000 ---p 00000000 00:00 0
7f82f8000000-7f82fbfe7000 rw-p 00000000 00:00 0
7f82fbfe7000-7f82fc000000 ---p 00000000 00:00 0
7f82fc000000-7f82fff1a000 rw-p 00000000 00:00 0
7f82fff1a000-7f8300000000 ---p 00000000 00:00 0
7f8300000000-7f8303f67000 rw-p 00000000 00:00 0
7f8303f67000-7f8304000000 ---p 00000000 00:00 0
7f8304000000-7f8304021000 rw-p 00000000 00:00 0
7f8304021000-7f8308000000 ---p 00000000 00:00 0
7f830c000000-7f830c021000 rw-p 00000000 00:00 0
7f830c021000-7f8310000000 ---p 00000000 00:00 0
7f8314000000-7f8314021000 rw-p 00000000 00:00 0
7f8314021000-7f8318000000 ---p 00000000 00:00 0
7f8318000000-7f8318021000 rw-p 00000000 00:00 0
7f8318021000-7f831c000000 ---p 00000000 00:00 0
7f831c000000-7f831c021000 rw-p 00000000 00:00 0
7f831c021000-7f8320000000 ---p 00000000 00:00 0
7f8322000000-7f8324000000 rw-p 00000000 00:00 0
7f8324000000-7f8324021000 rw-p 00000000 00:00 0
7f8324021000-7f8328000000 ---p 00000000 00:00 0
7f8328ffa000-7f8328ffb000 ---p 00000000 00:00 0
7f8328ffb000-7f83297fb000 rw-p 00000000 00:00 0 [stack:28833]
7f83297fb000-7f83297fc000 ---p 00000000 00:00 0
7f83297fc000-7f8329ffc000 rw-p 00000000 00:00 0 [stack:28832]
7f8329ffc000-7f8329ffd000 ---p 00000000 00:00 0
7f8329ffd000-7f832a7fd000 rw-p 00000000 00:00 0 [stack:28831]
7f832a7fd000-7f832a7fe000 ---p 00000000 00:00 0
7f832a7fe000-7f832affe000 rw-p 00000000 00:00 0 [stack:28830]
7f832affe000-7f832afff000 ---p 00000000 00:00 0
7f832afff000-7f832b7ff000 rw-p 00000000 00:00 0 [stack:28829]
7f832b7ff000-7f832b800000 ---p 00000000 00:00 0
7f832b800000-7f832c000000 rw-p 00000000 00:00 0 [stack:28828]
7f832c000000-7f832c021000 rw-p 00000000 00:00 0
7f832c021000-7f8330000000 ---p 00000000 00:00 0
7f8330000000-7f8330110000 rw-p 00000000 00:00 0
7f8330110000-7f8334000000 ---p 00000000 00:00 0
7f8334000000-7f83344df000 rw-p 00000000 00:00 0
7f83344df000-7f8338000000 ---p 00000000 00:00 0
7f8338000000-7f8338021000 rw-p 00000000 00:00 0
7f8338021000-7f833c000000 ---p 00000000 00:00 0
7f833c000000-7f833d992000 rw-p 00000000 00:00 0
7f833d992000-7f8340000000 ---p 00000000 00:00 0
7f8340000000-7f8341f41000 rw-p 00000000 00:00 0
7f8341f41000-7f8344000000 ---p 00000000 00:00 0
7f8344000000-7f83459af000 rw-p 00000000 00:00 0
7f83459af000-7f8348000000 ---p 00000000 00:00 0
7f8348029000-7f834802c000 ---p 00000000 00:00 0
7f834802c000-7f834816a000 rw-p 00000000 00:00 0
7f834816a000-7f834832a000 ---p 00000000 00:00 0
7f834832a000-7f834852a000 rw-p 00000000 00:00 0
7f834852a000-7f834852b000 ---p 00000000 00:00 0
7f834852b000-7f8348f2b000 rw-p 00000000 00:00 0 [stack:28827]
7f8348f2b000-7f834912b000 rw-p 00000000 00:00 0
7f834912b000-7f834932b000 rw-p 00000000 00:00 0
7f834932b000-7f834949d000 r-xp 00000000 08:01 16854358 /usr/lib64/libstdc++.so.6.0.21
7f834949d000-7f834969d000 ---p 00172000 08:01 16854358 /usr/lib64/libstdc++.so.6.0.21
7f834969d000-7f83496a7000 r--p 00172000 08:01 16854358 /usr/lib64/libstdc++.so.6.0.21
7f83496a7000-7f83496a9000 rw-p 0017c000 08:01 16854358 /usr/lib64/libstdc++.so.6.0.21
7f83496a9000-7f83496ad000 rw-p 00000000 00:00 0
7f83496ad000-7f8350000000 r--p 00000000 08:01 17577473 /usr/lib/locale/locale-archive
7f8350000000-7f8350021000 rw-p 00000000 00:00 0
7f8350021000-7f8354000000 ---p 00000000 00:00 0
7f8354000000-7f8354021000 rw-p 00000000 00:00 0
7f8354021000-7f8358000000 ---p 00000000 00:00 0
7f8358000000-7f835807b000 rw-p 00000000 00:00 0
7f835807b000-7f835c000000 ---p 00000000 00:00 0
7f835c000000-7f835c021000 rw-p 00000000 00:00 0
7f835c021000-7f8360000000 ---p 00000000 00:00 0
7f8360000000-7f8368000000 rw-p 00000000 00:00 0
7f8368000000-7f8368021000 rw-p 00000000 00:00 0
7f8368021000-7f836c000000 ---p 00000000 00:00 0
7f836c0ce000-7f836c0f2000 r-xp 00000000 08:01 83886951 /tmp/javacpp69721823879702/libjnind4j.so
7f836c0f2000-7f836c2f1000 ---p 00024000 08:01 83886951 /tmp/javacpp69721823879702/libjnind4j.so
7f836c2f1000-7f836c2f2000 r--p 00023000 08:01 83886951 /tmp/javacpp69721823879702/libjnind4j.so
7f836c2f2000-7f836c2f3000 rw-p 00024000 08:01 83886951 /tmp/javacpp69721823879702/libjnind4j.so
7f836c2f3000-7f836c3b1000 r-xp 00000000 08:01 83886950 /tmp/javacpp69721823879702/libnd4j.so
7f836c3b1000-7f836c5b0000 ---p 000be000 08:01 83886950 /tmp/javacpp69721823879702/libnd4j.so
7f836c5b0000-7f836c5c2000 r--p 000bd000 08:01 83886950 /tmp/javacpp69721823879702/libnd4j.so
7f836c5c2000-7f836c5c3000 rw-p 000cf000 08:01 83886950 /tmp/javacpp69721823879702/libnd4j.so
7f836c5c3000-7f836c61b000 r-xp 00000000 08:01 83886949 /tmp/javacpp69721823879702/libblas.so.3
7f836c61b000-7f836c81a000 ---p 00058000 08:01 83886949 /tmp/javacpp69721823879702/libblas.so.3
7f836c81a000-7f836c81b000 r--p 00057000 08:01 83886949 /tmp/javacpp69721823879702/libblas.so.3
7f836c81b000-7f836c81c000 rw-p 00058000 08:01 83886949 /tmp/javacpp69721823879702/libblas.so.3
7f836c81c000-7f836cad5000 r-xp 00000000 08:01 83886948 /tmp/javacpp69721823879702/libopenblas.so
7f836cad5000-7f836ccd4000 ---p 002b9000 08:01 83886948 /tmp/javacpp69721823879702/libopenblas.so
7f836ccd4000-7f836ccd8000 r--p 002b8000 08:01 83886948 /tmp/javacpp69721823879702/libopenblas.so
7f836ccd8000-7f836ccda000 rw-p 002bc000 08:01 83886948 /tmp/javacpp69721823879702/libopenblas.so
7f836ccda000-7f836ccf0000 r-xp 00000000 08:01 19039090 /usr/lib64/libgcc_s-5.1.1-20150618.so.1
7f836ccf0000-7f836ceef000 ---p 00016000 08:01 19039090 /usr/lib64/libgcc_s-5.1.1-20150618.so.1
7f836ceef000-7f836cef0000 r--p 00015000 08:01 19039090 /usr/lib64/libgcc_s-5.1.1-20150618.so.1
7f836cef0000-7f836cef1000 rw-p 00016000 08:01 19039090 /usr/lib64/libgcc_s-5.1.1-20150618.so.1
7f836cef1000-7f836d010000 r-xp 00000000 08:01 83886947 /tmp/javacpp69721823879702/libgfortran.so.3
7f836d010000-7f836d210000 ---p 0011f000 08:01 83886947 /tmp/javacpp69721823879702/libgfortran.so.3
7f836d210000-7f836d211000 r--p 0011f000 08:01 83886947 /tmp/javacpp69721823879702/libgfortran.so.3
7f836d211000-7f836d213000 rw-p 00120000 08:01 83886947 /tmp/javacpp69721823879702/libgfortran.so.3
7f836d213000-7f836d24e000 r-xp 00000000 08:01 83886946 /tmp/javacpp69721823879702/libquadmath.so.0
7f836d24e000-7f836d44d000 ---p 0003b000 08:01 83886946 /tmp/javacpp69721823879702/libquadmath.so.0
7f836d44d000-7f836d44e000 r--p 0003a000 08:01 83886946 /tmp/javacpp69721823879702/libquadmath.so.0
7f836d44e000-7f836d44f000 rw-p 0003b000 08:01 83886946 /tmp/javacpp69721823879702/libquadmath.so.0
7f836d44f000-7f836d470000 r-xp 00000000 08:01 83886945 /tmp/javacpp69721823879702/libgomp.so.1
7f836d470000-7f836d66f000 ---p 00021000 08:01 83886945 /tmp/javacpp69721823879702/libgomp.so.1
7f836d66f000-7f836d670000 r--p 00020000 08:01 83886945 /tmp/javacpp69721823879702/libgomp.so.1
7f836d670000-7f836d671000 rw-p 00021000 08:01 83886945 /tmp/javacpp69721823879702/libgomp.so.1
7f836d671000-7f836d6ae000 r-xp 00000000 08:01 2720570 /tmp/snappy-unknown-a6e91c18-568e-4fe2-8056-56e7fe7bd514-libsnappyjava.so
7f836d6ae000-7f836d8ae000 ---p 0003d000 08:01 2720570 /tmp/snappy-unknown-a6e91c18-568e-4fe2-8056-56e7fe7bd514-libsnappyjava.so
7f836d8ae000-7f836d8b1000 rw-p 0003d000 08:01 2720570 /tmp/snappy-unknown-a6e91c18-568e-4fe2-8056-56e7fe7bd514-libsnappyjava.so
7f836d8b1000-7f836dac3000 rw-p 00000000 00:00 0
7f836dac3000-7f836dcc3000 rw-p 00000000 00:00 0
7f836dcc3000-7f836dcd4000 r-xp 00000000 08:01 17199741 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnio.so
7f836dcd4000-7f836ded3000 ---p 00011000 08:01 17199741 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnio.so
7f836ded3000-7f836ded4000 rw-p 00010000 08:01 17199741 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnio.so
7f836ded4000-7f836e0d4000 rw-p 00000000 00:00 0
7f836e0d4000-7f836e0d7000 ---p 00000000 00:00 0
7f836e0d7000-7f836e1d5000 rw-p 00000000 00:00 0
7f836e1d5000-7f836e1d6000 r-xp 00000000 08:01 17199558 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjaas_unix.so
7f836e1d6000-7f836e3d5000 ---p 00001000 08:01 17199558 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjaas_unix.so
7f836e3d5000-7f836e3d6000 rw-p 00000000 08:01 17199558 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjaas_unix.so
7f836e3d6000-7f836e3de000 r-xp 00000000 08:01 17199560 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libmanagement.so
7f836e3de000-7f836e5de000 ---p 00008000 08:01 17199560 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libmanagement.so
7f836e5de000-7f836e5df000 rw-p 00008000 08:01 17199560 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libmanagement.so
7f836e5df000-7f836e5f5000 r-xp 00000000 08:01 17199573 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnet.so
7f836e5f5000-7f836e7f5000 ---p 00016000 08:01 17199573 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnet.so
7f836e7f5000-7f836e7f6000 rw-p 00016000 08:01 17199573 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libnet.so
7f836e7f6000-7f836eced000 r--s 08fee000 08:01 134226852 /home/manuele_simi/variationanalysis2/variationanalysis/target/variation-analysis-0.2.0-SNA
PSHOT-jar-with-dependencies.jar
7f836eced000-7f836ecee000 ---p 00000000 00:00 0
7f836ecee000-7f836edee000 rw-p 00000000 00:00 0 [stack:28749]
7f836edee000-7f836edf1000 ---p 00000000 00:00 0
7f836edf1000-7f836eeef000 rw-p 00000000 00:00 0 [stack:28748]
7f836eeef000-7f836eef2000 ---p 00000000 00:00 0
7f836eef2000-7f836eff0000 rw-p 00000000 00:00 0 [stack:28747]
7f836eff0000-7f836eff3000 ---p 00000000 00:00 0
7f836eff3000-7f836f0f1000 rw-p 00000000 00:00 0 [stack:28746]
7f836f0f1000-7f836f0f4000 ---p 00000000 00:00 0
7f836f0f4000-7f836f1f2000 rw-p 00000000 00:00 0 [stack:28745]
7f836f1f2000-7f836f1f5000 ---p 00000000 00:00 0
7f836f1f5000-7f836f2f3000 rw-p 00000000 00:00 0 [stack:28744]
7f836f2f3000-7f836f2f6000 ---p 00000000 00:00 0
7f836f2f6000-7f836f3f4000 rw-p 00000000 00:00 0 [stack:28743]
7f836f3f4000-7f836f3f7000 ---p 00000000 00:00 0
7f836f3f7000-7f836f4f5000 rw-p 00000000 00:00 0 [stack:28742]
7f836f4f5000-7f836f4f8000 ---p 00000000 00:00 0
7f836f4f8000-7f836f5f6000 rw-p 00000000 00:00 0 [stack:28741]
7f836f5f6000-7f836f5f7000 ---p 00000000 00:00 0
7f836f5f7000-7f8370000000 rw-p 00000000 00:00 0 [stack:28740]
7f8370000000-7f8370021000 rw-p 00000000 00:00 0
7f8370021000-7f8374000000 ---p 00000000 00:00 0
7f8374000000-7f8374021000 rw-p 00000000 00:00 0
7f8374021000-7f8378000000 ---p 00000000 00:00 0
7f8378000000-7f8378021000 rw-p 00000000 00:00 0
7f8378021000-7f837c000000 ---p 00000000 00:00 0
7f837c000000-7f837c021000 rw-p 00000000 00:00 0
7f837c021000-7f8380000000 ---p 00000000 00:00 0
7f8380000000-7f8380021000 rw-p 00000000 00:00 0
7f8380021000-7f8384000000 ---p 00000000 00:00 0
7f8384000000-7f8384021000 rw-p 00000000 00:00 0
7f8384021000-7f8388000000 ---p 00000000 00:00 0
7f8388000000-7f8388021000 rw-p 00000000 00:00 0
7f8388021000-7f838c000000 ---p 00000000 00:00 0
7f838c009000-7f838c025000 r--s 00393000 08:01 53066328 /home/manuele_simi/jdk1.8.0_45/jre/lib/ext/cldrdata.jar
7f838c025000-7f838d000000 rw-p 00000000 00:00 0
7f838d000000-7f838da90000 rwxp 00000000 00:00 0
7f838da90000-7f839c000000 ---p 00000000 00:00 0
7f839c000000-7f839fff5000 rw-p 00000000 00:00 0
7f839fff5000-7f83a0000000 ---p 00000000 00:00 0
7f83a000f000-7f83a0483000 rw-p 00000000 00:00 0
7f83a0483000-7f83a065c000 r--s 03d09000 08:01 37116252 /home/manuele_simi/jdk1.8.0_45/jre/lib/rt.jar
7f83a065c000-7f83a16d2000 rw-p 00000000 00:00 0
7f83a16d2000-7f83a16d3000 ---p 00000000 00:00 0
7f83a16d3000-7f83a17d3000 rw-p 00000000 00:00 0 [stack:28739]
7f83a17d3000-7f83a17d4000 ---p 00000000 00:00 0
7f83a17d4000-7f83a18d4000 rw-p 00000000 00:00 0 [stack:28738]
7f83a18d4000-7f83a18d5000 ---p 00000000 00:00 0
7f83a18d5000-7f83a19d5000 rw-p 00000000 00:00 0 [stack:28737]
7f83a19d5000-7f83a19d6000 ---p 00000000 00:00 0
7f83a19d6000-7f83a1ad6000 rw-p 00000000 00:00 0 [stack:28736]
7f83a1ad6000-7f83a1ad7000 ---p 00000000 00:00 0
7f83a1ad7000-7f83a1bd7000 rw-p 00000000 00:00 0 [stack:28735]
7f83a1bd7000-7f83a1bd8000 ---p 00000000 00:00 0
7f83a1bd8000-7f83a1cd8000 rw-p 00000000 00:00 0 [stack:28734]
7f83a1cd8000-7f83a1cd9000 ---p 00000000 00:00 0
7f83a1cd9000-7f83a1dd9000 rw-p 00000000 00:00 0 [stack:28733]
7f83a1dd9000-7f83a1dda000 ---p 00000000 00:00 0
7f83a1dda000-7f83a1ff2000 rw-p 00000000 00:00 0 [stack:28732]
7f83a1ff2000-7f83a2430000 ---p 00000000 00:00 0
7f83a2430000-7f83a2548000 rw-p 00000000 00:00 0
7f83a2548000-7f83a2985000 ---p 00000000 00:00 0
7f83a2985000-7f83a29e9000 rw-p 00000000 00:00 0
7f83a29e9000-7f83a2c30000 ---p 00000000 00:00 0
7f83a2c30000-7f83a2c5c000 rw-p 00000000 00:00 0
7f83a2c5c000-7f83a2ff1000 ---p 00000000 00:00 0
7f83a2ff1000-7f83a300b000 r-xp 00000000 08:01 17199554 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libzip.so
7f83a300b000-7f83a320b000 ---p 0001a000 08:01 17199554 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libzip.so
7f83a320b000-7f83a320c000 rw-p 0001a000 08:01 17199554 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libzip.so
7f83a320c000-7f83a3217000 r-xp 00000000 08:01 18564653 /usr/lib64/libnss_files-2.22.so
7f83a3217000-7f83a3416000 ---p 0000b000 08:01 18564653 /usr/lib64/libnss_files-2.22.so
7f83a3416000-7f83a3417000 r--p 0000a000 08:01 18564653 /usr/lib64/libnss_files-2.22.so
7f83a3417000-7f83a3418000 rw-p 0000b000 08:01 18564653 /usr/lib64/libnss_files-2.22.so
7f83a3418000-7f83a341e000 rw-p 00000000 00:00 0
7f83a341e000-7f83a3448000 r-xp 00000000 08:01 17199739 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjava.so
7f83a3448000-7f83a3648000 ---p 0002a000 08:01 17199739 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjava.so
7f83a3648000-7f83a364a000 rw-p 0002a000 08:01 17199739 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libjava.so
7f83a364a000-7f83a3657000 r-xp 00000000 08:01 17199587 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libverify.so
7f83a3657000-7f83a3857000 ---p 0000d000 08:01 17199587 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libverify.so
7f83a3857000-7f83a3859000 rw-p 0000d000 08:01 17199587 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/libverify.so
7f83a3859000-7f83a3860000 r-xp 00000000 08:01 16854983 /usr/lib64/librt-2.22.so
7f83a3860000-7f83a3a5f000 ---p 00007000 08:01 16854983 /usr/lib64/librt-2.22.so
7f83a3a5f000-7f83a3a60000 r--p 00006000 08:01 16854983 /usr/lib64/librt-2.22.so
7f83a3a60000-7f83a3a61000 rw-p 00007000 08:01 16854983 /usr/lib64/librt-2.22.so
7f83a3a61000-7f83a3b62000 r-xp 00000000 08:01 16854895 /usr/lib64/libm-2.22.so
7f83a3b62000-7f83a3d61000 ---p 00101000 08:01 16854895 /usr/lib64/libm-2.22.so
7f83a3d61000-7f83a3d62000 r--p 00100000 08:01 16854895 /usr/lib64/libm-2.22.so
7f83a3d62000-7f83a3d63000 rw-p 00101000 08:01 16854895 /usr/lib64/libm-2.22.so
7f83a3d63000-7f83a4a11000 r-xp 00000000 08:01 53066320 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/server/libjvm.so
7f83a4a11000-7f83a4c10000 ---p 00cae000 08:01 53066320 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/server/libjvm.so
7f83a4c10000-7f83a4ce7000 rw-p 00cad000 08:01 53066320 /home/manuele_simi/jdk1.8.0_45/jre/lib/amd64/server/libjvm.so
7f83a4ce7000-7f83a4d2b000 rw-p 00000000 00:00 0
7f83a4d2b000-7f83a4ee2000 r-xp 00000000 08:01 19039098 /usr/lib64/libc-2.22.so
7f83a4ee2000-7f83a50e2000 ---p 001b7000 08:01 19039098 /usr/lib64/libc-2.22.so
7f83a50e2000-7f83a50e6000 r--p 001b7000 08:01 19039098 /usr/lib64/libc-2.22.so
7f83a50e6000-7f83a50e8000 rw-p 001bb000 08:01 19039098 /usr/lib64/libc-2.22.so
7f83a50e8000-7f83a50ec000 rw-p 00000000 00:00 0
7f83a50ec000-7f83a50ef000 r-xp 00000000 08:01 16854101 /usr/lib64/libdl-2.22.so
7f83a50ef000-7f83a52ee000 ---p 00003000 08:01 16854101 /usr/lib64/libdl-2.22.so
7f83a52ee000-7f83a52ef000 r--p 00002000 08:01 16854101 /usr/lib64/libdl-2.22.so
7f83a52ef000-7f83a52f0000 rw-p 00003000 08:01 16854101 /usr/lib64/libdl-2.22.so
7f83a52f0000-7f83a5305000 r-xp 00000000 08:01 5611345 /home/manuele_simi/jdk1.8.0_45/lib/amd64/jli/libjli.so
7f83a5305000-7f83a5505000 ---p 00015000 08:01 5611345 /home/manuele_simi/jdk1.8.0_45/lib/amd64/jli/libjli.so
7f83a5505000-7f83a5506000 rw-p 00015000 08:01 5611345 /home/manuele_simi/jdk1.8.0_45/lib/amd64/jli/libjli.so
7f83a5506000-7f83a551e000 r-xp 00000000 08:01 16854979 /usr/lib64/libpthread-2.22.so
7f83a551e000-7f83a571d000 ---p 00018000 08:01 16854979 /usr/lib64/libpthread-2.22.so
7f83a571d000-7f83a571e000 r--p 00017000 08:01 16854979 /usr/lib64/libpthread-2.22.so
7f83a571e000-7f83a571f000 rw-p 00018000 08:01 16854979 /usr/lib64/libpthread-2.22.so
7f83a571f000-7f83a5723000 rw-p 00000000 00:00 0
7f83a5723000-7f83a5744000 r-xp 00000000 08:01 19039092 /usr/lib64/ld-2.22.so
7f83a574b000-7f83a5750000 r--s 00094000 08:01 37116250 /home/manuele_simi/jdk1.8.0_45/jre/lib/jsse.jar
7f83a5750000-7f83a575b000 r--s 00116000 08:01 53066326 /home/manuele_simi/jdk1.8.0_45/jre/lib/ext/localedata.jar
7f83a575b000-7f83a582e000 rw-p 00000000 00:00 0
7f83a582e000-7f83a5836000 rw-s 00000000 08:01 50964318 /tmp/hsperfdata_manuele_simi/28729
7f83a5836000-7f83a5839000 ---p 00000000 00:00 0
7f83a5839000-7f83a593b000 rw-p 00000000 00:00 0 [stack:28731]
7f83a593d000-7f83a5940000 r--s 0001a000 08:01 37116277 /home/manuele_simi/jdk1.8.0_45/jre/lib/jce.jar
7f83a5940000-7f83a5941000 rw-p 00000000 00:00 0
7f83a5941000-7f83a5942000 r--p 00000000 00:00 0
7f83a5942000-7f83a5943000 rw-p 00000000 00:00 0
7f83a5943000-7f83a5944000 r--p 00020000 08:01 19039092 /usr/lib64/ld-2.22.so
7f83a5944000-7f83a5945000 rw-p 00021000 08:01 19039092 /usr/lib64/ld-2.22.so
7f83a5945000-7f83a5946000 rw-p 00000000 00:00 0
7fff4b7cd000-7fff4b7ee000 rw-p 00000000 00:00 0 [stack]
7fff4b7fd000-7fff4b7ff000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
VM Arguments:
jvm_args: -Xmx4g
java_command: org.campagnelab.dl.varanalysis.learning.DetectMutations
java_class_path (initial): target/variation-analysis-0.2.0-SNAPSHOT-jar-with-dependencies.jar:config
Launcher Type: SUN_STANDARD
Environment Variables:
JAVA_HOME=/home/manuele_simi/jdk1.8.0_45
PATH=/home/manuele_simi/jdk1.8.0_45/bin:/usr/share/apache-maven-3.2.5/bin/:/usr/local/bin:/usr/bin:/usr/local/sbin:/usr/sbin:/home/manuele_simi/.local/bin:/home/man
uele_simi/bin
USERNAME=root
SHELL=/bin/bash
Signal Handlers:
SIGSEGV: [libjvm.so+0xaad1e0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGBUS: [libjvm.so+0xaad1e0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGFPE: [libjvm.so+0x90b450], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGPIPE: [libjvm.so+0x90b450], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGXFSZ: [libjvm.so+0x90b450], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGILL: [libjvm.so+0x90b450], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGUSR1: SIG_DFL, sa_mask[0]=00000000000000000000000000000000, sa_flags=none
SIGUSR2: [libjvm.so+0x90ca90], sa_mask[0]=00000000000000000000000000000000, sa_flags=SA_RESTART|SA_SIGINFO
SIGHUP: [libjvm.so+0x90dde0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGINT: [libjvm.so+0x90dde0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGTERM: [libjvm.so+0x90dde0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
SIGQUIT: [libjvm.so+0x90dde0], sa_mask[0]=11111111011111111101111111111110, sa_flags=SA_RESTART|SA_SIGINFO
--------------- S Y S T E M ---------------
OS:CentOS Linux release 7.2.1511 (Core)
uname:Linux 3.10.0-327.18.2.el7.x86_64 #1 SMP Thu May 12 11:03:55 UTC 2016 x86_64
libc:glibc 2.22 NPTL 2.22
rlimit: STACK 8192k, CORE 0k, NPROC 4096, NOFILE 4096, AS infinity
load average:2.98 2.94 3.77
/proc/meminfo:
MemTotal: 7348964 kB
MemFree: 2674360 kB
MemAvailable: 4568064 kB
Buffers: 868 kB
Cached: 1968008 kB
SwapCached: 0 kB
Active: 3891788 kB
Inactive: 338996 kB
Active(anon): 2262064 kB
Inactive(anon): 8344 kB
Active(file): 1629724 kB
Inactive(file): 330652 kB
Unevictable: 0 kB
Mlocked: 0 kB
SwapTotal: 0 kB
SwapFree: 0 kB
Dirty: 28 kB
Writeback: 0 kB
AnonPages: 2266132 kB
Mapped: 45012 kB
Shmem: 8500 kB
Slab: 222980 kB
SReclaimable: 186732 kB
SUnreclaim: 36248 kB
KernelStack: 3104 kB
PageTables: 12212 kB
NFS_Unstable: 0 kB
Bounce: 0 kB
WritebackTmp: 0 kB
CommitLimit: 3674480 kB
Committed_AS: 1426036 kB
VmallocTotal: 34359738367 kB
VmallocUsed: 17564 kB
VmallocChunk: 34359717876 kB
HardwareCorrupted: 0 kB
AnonHugePages: 2097152 kB
HugePages_Total: 0
HugePages_Free: 0
HugePages_Rsvd: 0
HugePages_Surp: 0
Hugepagesize: 2048 kB
DirectMap4k: 64500 kB
DirectMap2M: 3291136 kB
DirectMap1G: 4194304 kB
CPU:total 8 (16 cores per cpu, 2 threads per core) family 6 model 63 stepping 0, cmov, cx8, fxsr, mmx, sse, sse2, sse3, ssse3, sse4.1, sse4.2, popcnt, avx, avx2, ae
s, clmul, erms, lzcnt, ht, tsc, bmi1, bmi2
/proc/cpuinfo:
processor : 0
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 0
cpu cores : 4
apicid : 0
initial apicid : 0
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 1
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 0
cpu cores : 4
apicid : 1
initial apicid : 1
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 2
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 1
cpu cores : 4
apicid : 2
initial apicid : 2
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 3
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 1
cpu cores : 4
apicid : 3
initial apicid : 3
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 4
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 2
cpu cores : 4
apicid : 4
initial apicid : 4
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 5
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 2
cpu cores : 4
apicid : 5
initial apicid : 5
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 6
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 3
cpu cores : 4
apicid : 6
initial apicid : 6
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
processor : 7
vendor_id : GenuineIntel
cpu family : 6
model : 63
model name : Intel(R) Xeon(R) CPU @ 2.30GHz
stepping : 0
microcode : 0x1
cpu MHz : 2299.998
cache size : 46080 KB
physical id : 0
siblings : 8
core id : 3
cpu cores : 4
apicid : 7
initial apicid : 7
fpu : yes
fpu_exception : yes
cpuid level : 13
wp : yes
flags : fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 ss ht syscall nx pdpe1gb rdtscp lm constant_tsc
nopl xtopology eagerfpu pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic movbe popcnt aes xsave avx f16c rdrand hypervisor lahf_lm abm fsgsbase bmi1 avx2 smep bmi2
xsaveopt
bogomips : 4599.99
clflush size : 64
cache_alignment : 64
address sizes : 46 bits physical, 48 bits virtual
power management:
Memory: 4k page, physical 7348964k(2674360k free), swap 0k(0k free)
vm_info: Java HotSpot(TM) 64-Bit Server VM (25.45-b02) for linux-amd64 JRE (1.8.0_45-b14), built on Apr 10 2015 10:07:45 by "java_re" with gcc 4.3.0 20080428 (Red H
at 4.3.0-8)
time: Sat Jun 4 17:44:17 2016
elapsed time: 4995 seconds (0d 1h 23m 15s)
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