gistfile1.txt

warning: difference appears to be caused by prelink, adjusting expectations
Reading symbols from /lib64/libm.so.6...done.
Loaded symbols for /lib64/libm.so.6
Reading symbols from /usr/lib64/libz.so.1...done.
Loaded symbols for /usr/lib64/libz.so.1
Reading symbols from /usr/lib64/libbz2.so.1...done.
Loaded symbols for /usr/lib64/libbz2.so.1
Reading symbols from /lib64/libpthread.so.0...done.
Loaded symbols for /lib64/libpthread.so.0
Reading symbols from /lib64/libc.so.6...done.
Loaded symbols for /lib64/libc.so.6
Reading symbols from /lib64/ld-linux-x86-64.so.2...done.
Loaded symbols for /lib64/ld-linux-x86-64.so.2
Core was generated by `/stornext/snfs1/next-gen/drio-scratch/bfast_related/versions/production/bfast/b'.
Program terminated with signal 11, Segmentation fault.
[New process 29807]
[New process 29727]
#0  0x0000003f7e00c7ca in inflate_fast () from /usr/lib64/libz.so.1
(gdb) bt
#0  0x0000003f7e00c7ca in inflate_fast () from /usr/lib64/libz.so.1
#1  0x0000003f7e00a12e in inflate () from /usr/lib64/libz.so.1
#2  0x0000003f7e003834 in gzread () from /usr/lib64/libz.so.1
#3  0x0000000000408ab1 in gzread64 (file=0x162ae0e0, buf=0x305531d0, len=1196708948) at BLib.c:1710
#4  0x0000000000403c1a in AlignedEntryRead (a=0x3054a240, inputFP=0x162ae0e0, space=1) at AlignedEntry.c:122
#5  0x000000000040255f in AlignedEndRead (a=0x259ae9d0, inputFP=0x162ae0e0, space=1) at AlignedEnd.c:109
#6  0x000000000040494c in AlignedReadRead (a=0x2aaaaaaf8cf0, inputFP=0x162ae0e0) at AlignedRead.c:114
#7  0x0000000000427bdf in GetAlignedReads (fp=0x162ae0e0, aBuffer=<value optimized out>, maxToRead=10000, inputFP_mutex=0x7fffc3cd0df0) at RunPostProcess.c:375
#8  0x00000000004280f7 in ReadInputFilterAndOutputThread (arg=0x162b4c40) at RunPostProcess.c:262
#9  0x0000003f7dc06617 in pthread_create@@GLIBC_2.2.5 () from /lib64/libpthread.so.0
#10 0x0000000000000000 in ?? ()

(gdb) bt
#0  0x0000003f7e00c7ca in inflate_fast () from /usr/lib64/libz.so.1
#1  0x0000003f7e00a12e in inflate () from /usr/lib64/libz.so.1
#2  0x0000003f7e003834 in gzread () from /usr/lib64/libz.so.1
#3  0x0000000000408ab1 in gzread64 (file=0x162ae0e0, buf=0x305531d0, len=1196708948) at BLib.c:1710
#4  0x0000000000403c1a in AlignedEntryRead (a=0x3054a240, inputFP=0x162ae0e0, space=1) at AlignedEntry.c:122
#5  0x000000000040255f in AlignedEndRead (a=0x259ae9d0, inputFP=0x162ae0e0, space=1) at AlignedEnd.c:109
#6  0x000000000040494c in AlignedReadRead (a=0x2aaaaaaf8cf0, inputFP=0x162ae0e0) at AlignedRead.c:114
#7  0x0000000000427bdf in GetAlignedReads (fp=0x162ae0e0, aBuffer=<value optimized out>, maxToRead=10000, inputFP_mutex=0x7fffc3cd0df0) at RunPostProcess.c:375
#8  0x00000000004280f7 in ReadInputFilterAndOutputThread (arg=0x162b4c40) at RunPostProcess.c:262
#9  0x0000003f7dc06617 in pthread_create@@GLIBC_2.2.5 () from /lib64/libpthread.so.0
#10 0x0000000000000000 in ?? ()
(gdb) down
Bottom (innermost) frame selected; you cannot go down.
(gdb) up
#1  0x0000003f7e00a12e in inflate () from /usr/lib64/libz.so.1
(gdb) up
#2  0x0000003f7e003834 in gzread () from /usr/lib64/libz.so.1
(gdb) up
#3  0x0000000000408ab1 in gzread64 (file=0x162ae0e0, buf=0x305531d0, len=1196708948) at BLib.c:1710
1710                    numBytesRead = gzread(file, 
(gdb) list
1705            uint32_t numBytesRead = 0; 
1706            uint32_t numBytesToRead = 0; 
1707
1708            while(count < len) {
1709                    numBytesToRead = GETMIN(INT_MAX, (len - count));
1710                    numBytesRead = gzread(file, 
1711                                    buf + count, 
1712                                    numBytesToRead);
1713                    if(numBytesRead != numBytesToRead) {
1714                            return count;