Hi,
I have a problem with the BWA...
Here is the command line and error message is below
bwa sampe virusbwaidx R1.sai R2.sai '/MD1200/BWA/Sample/Sample_CHC1154T_R1_fastq.txt.gz' '/MD1200/BWA/Sample/Sample_CHC1154T_R2_fastq.txt.gz' > output.sam
I am not sure to understand what is going on?
Can anyone help me to solve this issue?
Kind Reards
/ Sandrine
*** stack smashing detected ***: bwa terminated
======= Backtrace: =========
======= Backtrace: =========
/lib64/libc.so.6(__fortify_fail+0x37)[0x3950b01d47]
/lib64/libc.so.6(__fortify_fail+0x0)[0x3950b01d10]
bwa[0x4086d3]
bwa[0x408795]
bwa[0x416c1d]
bwa[0x417595]
/lib64/libc.so.6(__libc_start_main+0xfd)[0x3950a1ecdd]
bwa[0x401949]
======= Memory map: ========
00400000-0042e000 r-xp 00000000 fd:00 281878 /usr/bin/bwa
0062e000-00631000 rw-p 0002e000 fd:00 281878 /usr/bin/bwa
01c5d000-020e0000 rw-p 00000000 00:00 0 [heap]
36d3800000-36d3815000 r-xp 00000000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3815000-36d3a14000 ---p 00015000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3a14000-36d3a15000 r--p 00014000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3a15000-36d3a16000 rw-p 00015000 fd:00 1835467 /lib64/libz.so.1.2.3
3950600000-3950620000 r-xp 00000000 fd:00 1835062 /lib64/ld-2.12.so
395081f000-3950820000 r--p 0001f000 fd:00 1835062 /lib64/ld-2.12.so
3950820000-3950821000 rw-p 00020000 fd:00 1835062 /lib64/ld-2.12.so
3950821000-3950822000 rw-p 00000000 00:00 0
3950a00000-3950b89000 r-xp 00000000 fd:00 1835064 /lib64/libc-2.12.so
3950b89000-3950d89000 ---p 00189000 fd:00 1835064 /lib64/libc-2.12.so
3950d89000-3950d8d000 r--p 00189000 fd:00 1835064 /lib64/libc-2.12.so
3950d8d000-3950d8e000 rw-p 0018d000 fd:00 1835064 /lib64/libc-2.12.so
3950d8e000-3950d93000 rw-p 00000000 00:00 0
3951200000-3951217000 r-xp 00000000 fd:00 1835072 /lib64/libpthread-2.12.so
3951217000-3951417000 ---p 00017000 fd:00 1835072 /lib64/libpthread-2.12.so
3951417000-3951418000 r--p 00017000 fd:00 1835072 /lib64/libpthread-2.12.so
3951418000-3951419000 rw-p 00018000 fd:00 1835072 /lib64/libpthread-2.12.so
3951419000-395141d000 rw-p 00000000 00:00 0
3951600000-3951683000 r-xp 00000000 fd:00 1835085 /lib64/libm-2.12.so
3951683000-3951882000 ---p 00083000 fd:00 1835085 /lib64/libm-2.12.so
3951882000-3951883000 r--p 00082000 fd:00 1835085 /lib64/libm-2.12.so
3951883000-3951884000 rw-p 00083000 fd:00 1835085 /lib64/libm-2.12.so
395d200000-395d216000 r-xp 00000000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
395d216000-395d415000 ---p 00016000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
395d415000-395d416000 rw-p 00015000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
7faa920b5000-7faa9223e000 rw-p 00000000 00:00 0
7faa92254000-7faa92256000 rw-p 00000000 00:00 0
7fff52af4000-7fff52b09000 rw-p 00000000 00:00 0 [stack]
7fff52bff000-7fff52c00000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
Abandon
I have a problem with the BWA...
Here is the command line and error message is below
bwa sampe virusbwaidx R1.sai R2.sai '/MD1200/BWA/Sample/Sample_CHC1154T_R1_fastq.txt.gz' '/MD1200/BWA/Sample/Sample_CHC1154T_R2_fastq.txt.gz' > output.sam
I am not sure to understand what is going on?
Can anyone help me to solve this issue?
Kind Reards
/ Sandrine
*** stack smashing detected ***: bwa terminated
======= Backtrace: =========
======= Backtrace: =========
/lib64/libc.so.6(__fortify_fail+0x37)[0x3950b01d47]
/lib64/libc.so.6(__fortify_fail+0x0)[0x3950b01d10]
bwa[0x4086d3]
bwa[0x408795]
bwa[0x416c1d]
bwa[0x417595]
/lib64/libc.so.6(__libc_start_main+0xfd)[0x3950a1ecdd]
bwa[0x401949]
======= Memory map: ========
00400000-0042e000 r-xp 00000000 fd:00 281878 /usr/bin/bwa
0062e000-00631000 rw-p 0002e000 fd:00 281878 /usr/bin/bwa
01c5d000-020e0000 rw-p 00000000 00:00 0 [heap]
36d3800000-36d3815000 r-xp 00000000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3815000-36d3a14000 ---p 00015000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3a14000-36d3a15000 r--p 00014000 fd:00 1835467 /lib64/libz.so.1.2.3
36d3a15000-36d3a16000 rw-p 00015000 fd:00 1835467 /lib64/libz.so.1.2.3
3950600000-3950620000 r-xp 00000000 fd:00 1835062 /lib64/ld-2.12.so
395081f000-3950820000 r--p 0001f000 fd:00 1835062 /lib64/ld-2.12.so
3950820000-3950821000 rw-p 00020000 fd:00 1835062 /lib64/ld-2.12.so
3950821000-3950822000 rw-p 00000000 00:00 0
3950a00000-3950b89000 r-xp 00000000 fd:00 1835064 /lib64/libc-2.12.so
3950b89000-3950d89000 ---p 00189000 fd:00 1835064 /lib64/libc-2.12.so
3950d89000-3950d8d000 r--p 00189000 fd:00 1835064 /lib64/libc-2.12.so
3950d8d000-3950d8e000 rw-p 0018d000 fd:00 1835064 /lib64/libc-2.12.so
3950d8e000-3950d93000 rw-p 00000000 00:00 0
3951200000-3951217000 r-xp 00000000 fd:00 1835072 /lib64/libpthread-2.12.so
3951217000-3951417000 ---p 00017000 fd:00 1835072 /lib64/libpthread-2.12.so
3951417000-3951418000 r--p 00017000 fd:00 1835072 /lib64/libpthread-2.12.so
3951418000-3951419000 rw-p 00018000 fd:00 1835072 /lib64/libpthread-2.12.so
3951419000-395141d000 rw-p 00000000 00:00 0
3951600000-3951683000 r-xp 00000000 fd:00 1835085 /lib64/libm-2.12.so
3951683000-3951882000 ---p 00083000 fd:00 1835085 /lib64/libm-2.12.so
3951882000-3951883000 r--p 00082000 fd:00 1835085 /lib64/libm-2.12.so
3951883000-3951884000 rw-p 00083000 fd:00 1835085 /lib64/libm-2.12.so
395d200000-395d216000 r-xp 00000000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
395d216000-395d415000 ---p 00016000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
395d415000-395d416000 rw-p 00015000 fd:00 1835445 /lib64/libgcc_s-4.4.6-20120305.so.1
7faa920b5000-7faa9223e000 rw-p 00000000 00:00 0
7faa92254000-7faa92256000 rw-p 00000000 00:00 0
7fff52af4000-7fff52b09000 rw-p 00000000 00:00 0 [stack]
7fff52bff000-7fff52c00000 r-xp 00000000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
Abandon
Comment