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sambamba markdup trace
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=== kernel ring buffer === | |
[Thu May 19 21:30:30 2016] ------------[ cut here ]------------ | |
[Thu May 19 21:30:30 2016] WARNING: at /home/builder/builds/kernel/3.10.0-327.18.2.el7/20160512110105/BUILD/kernel-3.10.0-327.18.2.el7/linux-3.10.0-327.18.2.el7.x86_64/arch/x86/include/asm/thread_info.h:249 sigsuspend+0x6d/0x70() | |
[Thu May 19 21:30:30 2016] Modules linked in: binfmt_misc rpcsec_gss_krb5 nfsv4 dns_resolver nfs fscache dm_mod kvm_intel kvm ppdev crc32_pclmul ghash_clmulni_intel aesni_intel lrw gf128mul glue_helper ablk_helper cryptd sg parport_pc parport i2c_piix4 pcspkr nfsd auth_rpcgss nfs_acl lockd grace sunrpc ip_tables ext4 mbcache jbd2 sr_mod cdrom ata_generic pata_acpi virtio_console virtio_net virtio_blk cirrus syscopyarea sysfillrect sysimgblt drm_kms_helper ttm crct10dif_pclmul crct10dif_common crc32c_intel ata_piix drm virtio_pci libata virtio_ring i2c_core serio_raw virtio floppy | |
[Thu May 19 21:30:30 2016] CPU: 6 PID: 27988 Comm: sambamba Not tainted 3.10.0-327.18.2.el7.x86_64 #1 | |
[Thu May 19 21:30:30 2016] Hardware name: Mission Critical Cloud Cosmic KVM Hypervisor, BIOS seabios-1.7.5-11.el7 04/01/2014 | |
[Thu May 19 21:30:30 2016] 0000000000000000 000000006917ea9a ffff8817b4f1fef8 ffffffff81635a0c | |
[Thu May 19 21:30:30 2016] ffff8817b4f1ff30 ffffffff8107b200 ffff8817b6cd1700 0000000000000000 | |
[Thu May 19 21:30:30 2016] 00002aed9c8049c0 00002aed9c802ab8 00002aed71846700 ffff8817b4f1ff40 | |
[Thu May 19 21:30:30 2016] Call Trace: | |
[Thu May 19 21:30:30 2016] [<ffffffff81635a0c>] dump_stack+0x19/0x1b | |
[Thu May 19 21:30:30 2016] [<ffffffff8107b200>] warn_slowpath_common+0x70/0xb0 | |
[Thu May 19 21:30:30 2016] [<ffffffff8107b34a>] warn_slowpath_null+0x1a/0x20 | |
[Thu May 19 21:30:30 2016] [<ffffffff81094a6d>] sigsuspend+0x6d/0x70 | |
[Thu May 19 21:30:30 2016] [<ffffffff81094abf>] SyS_rt_sigsuspend+0x4f/0x70 | |
[Thu May 19 21:30:30 2016] [<ffffffff816461c9>] system_call_fastpath+0x16/0x1b | |
[Thu May 19 21:30:30 2016] ---[ end trace 2cc1c91b6249668a ]--- | |
======= | |
=== strace frozen sambamba process === | |
[pid 27990] rt_sigsuspend(~[USR2 RTMIN RT_1] <unfinished ...> | |
[pid 27989] rt_sigsuspend(~[USR2 RTMIN RT_1] <unfinished ...> | |
[pid 27988] futex(0x2aed9a3efd1c, FUTEX_WAIT_PRIVATE, 82721, NULL <unfinished ...> | |
[pid 27987] futex(0x2aed9a3efd1c, FUTEX_WAIT_PRIVATE, 82721, NULL <unfinished ...> | |
[pid 27986] futex(0x8371f0, FUTEX_WAIT_PRIVATE, 0, NULL <unfinished ...> | |
[pid 27985] futex(0x8374a0, FUTEX_WAIT_PRIVATE, 2, NULL <unfinished ...> | |
[pid 27984] futex(0x8374a0, FUTEX_WAIT_PRIVATE, 2, NULL <unfinished ...> | |
[pid 27980] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27979] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27978] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27977] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27976] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27975] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27974] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27973] futex(0x2aed7182741c, FUTEX_WAIT_PRIVATE, 98226, NULL <unfinished ...> | |
[pid 27972] futex(0x8374a0, FUTEX_WAIT_PRIVATE, 2, NULL | |
======= | |
==== backtrace thread frozen sambamba process === | |
Id Target Id Frame | |
16 Thread 0x2aed72915700 (LWP 27973) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
15 Thread 0x2aed72b16700 (LWP 27974) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
14 Thread 0x2aed72d17700 (LWP 27975) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
13 Thread 0x2aed72f18700 (LWP 27976) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
12 Thread 0x2aed73119700 (LWP 27977) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
11 Thread 0x2aed7331a700 (LWP 27978) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
10 Thread 0x2aed7351b700 (LWP 27979) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
9 Thread 0x2aed7371c700 (LWP 27980) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
8 Thread 0x2aed9c000700 (LWP 27984) "sambamba" 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
7 Thread 0x2aed9c201700 (LWP 27985) "sambamba" 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
6 Thread 0x2aed9c402700 (LWP 27986) "sambamba" 0x00002aed71c2c790 in sem_wait () from /lib64/libpthread.so.0 | |
5 Thread 0x2aed9c603700 (LWP 27987) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
4 Thread 0x2aed9c804700 (LWP 27988) "sambamba" 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
3 Thread 0x2aed9ca05700 (LWP 27989) "sambamba" 0x00002aed72388972 in sigsuspend () from /lib64/libc.so.6 | |
2 Thread 0x2aed9cc06700 (LWP 27990) "sambamba" 0x00002aed72388972 in sigsuspend () from /lib64/libc.so.6 | |
* 1 Thread 0x2aed71823600 (LWP 27972) "sambamba" 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
Thread 16 (Thread 0x2aed72915700 (LWP 27973)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 15 (Thread 0x2aed72b16700 (LWP 27974)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 14 (Thread 0x2aed72d17700 (LWP 27975)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 13 (Thread 0x2aed72f18700 (LWP 27976)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 12 (Thread 0x2aed73119700 (LWP 27977)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 11 (Thread 0x2aed7331a700 (LWP 27978)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 10 (Thread 0x2aed7351b700 (LWP 27979)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 9 (Thread 0x2aed7371c700 (LWP 27980)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 8 (Thread 0x2aed9c000700 (LWP 27984)): | |
#0 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
#1 0x00002aed71c28d1d in _L_lock_840 () from /lib64/libpthread.so.0 | |
#2 0x00002aed71c28c3a in pthread_mutex_lock () from /lib64/libpthread.so.0 | |
#3 0x0000000000560f7a in core.sync.mutex.Mutex.lock() () | |
#4 0x000000000056f66d in gc.gc.GC.malloc() () | |
#5 0x0000000000411d34 in bio.bam.readrange.__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ.BamReadRange.readNext() () | |
#6 0x0000000000442e49 in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
#7 0x0000000000442eaf in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
---Type <return> to continue, or q <return> to quit--- | |
#8 0x0000000000442993 in std.parallelism.__T4TaskS213std11parallelism3runTDFAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleTAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZ.Task.impl() () | |
#9 0x00000000005472c4 in std.parallelism.TaskPool.doJob() () | |
#10 0x000000000054746b in std.parallelism.TaskPool.startWorkLoop() () | |
#11 0x000000000055e7fe in thread_entryPoint () | |
#12 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#13 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 7 (Thread 0x2aed9c201700 (LWP 27985)): | |
#0 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
#1 0x00002aed71c28d1d in _L_lock_840 () from /lib64/libpthread.so.0 | |
#2 0x00002aed71c28c3a in pthread_mutex_lock () from /lib64/libpthread.so.0 | |
#3 0x0000000000560f7a in core.sync.mutex.Mutex.lock() () | |
#4 0x000000000056f66d in gc.gc.GC.malloc() () | |
#5 0x0000000000411d34 in bio.bam.readrange.__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ.BamReadRange.readNext() () | |
#6 0x0000000000442e49 in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
#7 0x0000000000442eaf in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
#8 0x0000000000442993 in std.parallelism.__T4TaskS213std11parallelism3runTDFAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleTAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZ.Task.impl() () | |
#9 0x00000000005472c4 in std.parallelism.TaskPool.doJob() () | |
#10 0x000000000054746b in std.parallelism.TaskPool.startWorkLoop() () | |
#11 0x000000000055e7fe in thread_entryPoint () | |
#12 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#13 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 6 (Thread 0x2aed9c402700 (LWP 27986)): | |
#0 0x00002aed71c2c790 in sem_wait () from /lib64/libpthread.so.0 | |
#1 0x000000000055f931 in core.thread.suspend() () | |
#2 0x000000000055fad4 in thread_suspendAll () | |
#3 0x000000000056faac in gc.gc.Gcx.fullcollect() () | |
#4 0x0000000000570791 in gc.gc.Gcx.bigAlloc() () | |
#5 0x000000000056f8c2 in gc.gc.GC.mallocNoSync() () | |
#6 0x000000000056f67e in gc.gc.GC.malloc() () | |
#7 0x0000000000411d34 in bio.bam.readrange.__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ.BamReadRange.readNext() () | |
#8 0x0000000000442e49 in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
#9 0x0000000000442eaf in std.parallelism.TaskPool.__T3mapS403bio3bam11multireader17adjustTagsInRangeZ.__T3mapTS3std5range575__T3ZipTS3std9algorithm422__T9MapResultS2523bio3bam11multireader110__T13multiBamReadsTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeZ13multiBamReadsFS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangemZ9__lambda3TS3std5range133__T3ZipTS3bio3bam9readrange55__T12BamReadRangeS343bio3bam9readrange14withoutOffsetsZ12BamReadRangeTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ9MapResultTS3std5range61__T6RepeatTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ6RepeatTS3std5range13__T6RepeatTmZ6RepeatZ3ZipZ.map() () | |
#10 0x0000000000442993 in std.parallelism.__T4TaskS213std11parallelism3runTDFAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleTAS3std8typecons140__T5TupleTS3bio3bam11multireader41__T12MultiBamReadTS3bio3bam4read7BamReadZ12MultiBamReadTC3bio3bam5utils15samheadermerger15SamHeaderMergerZ5TupleZ.Task.impl() () | |
#11 0x00000000005472c4 in std.parallelism.TaskPool.doJob() () | |
#12 0x000000000054746b in std.parallelism.TaskPool.startWorkLoop() () | |
#13 0x000000000055e7fe in thread_entryPoint () | |
#14 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#15 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 5 (Thread 0x2aed9c603700 (LWP 27987)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 4 (Thread 0x2aed9c804700 (LWP 27988)): | |
#0 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#1 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#2 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#3 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#4 0x000000000055e7fe in thread_entryPoint () | |
#5 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#6 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 3 (Thread 0x2aed9ca05700 (LWP 27989)): | |
#0 0x00002aed72388972 in sigsuspend () from /lib64/libc.so.6 | |
#1 0x000000000055eaf0 in core.thread.thread_suspendHandler() () | |
#2 0x000000000055eb82 in core.thread.callWithStackShell() () | |
#3 <signal handler called> | |
#4 0x00002aed71c2a6d3 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
---Type <return> to continue, or q <return> to quit--- | |
#5 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#6 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#7 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#8 0x000000000055e7fe in thread_entryPoint () | |
#9 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#10 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 2 (Thread 0x2aed9cc06700 (LWP 27990)): | |
#0 0x00002aed72388972 in sigsuspend () from /lib64/libc.so.6 | |
#1 0x000000000055eaf0 in core.thread.thread_suspendHandler() () | |
#2 0x000000000055eb82 in core.thread.callWithStackShell() () | |
#3 <signal handler called> | |
#4 0x00002aed71c2a6d5 in pthread_cond_wait@@GLIBC_2.3.2 () from /lib64/libpthread.so.0 | |
#5 0x00000000005608e0 in core.sync.condition.Condition.wait() () | |
#6 0x000000000054754a in std.parallelism.TaskPool.pop() () | |
#7 0x000000000054747a in std.parallelism.TaskPool.startWorkLoop() () | |
#8 0x000000000055e7fe in thread_entryPoint () | |
#9 0x00002aed71c26dc5 in start_thread () from /lib64/libpthread.so.0 | |
#10 0x00002aed72449ced in clone () from /lib64/libc.so.6 | |
Thread 1 (Thread 0x2aed71823600 (LWP 27972)): | |
#0 0x00002aed71c2cf4d in __lll_lock_wait () from /lib64/libpthread.so.0 | |
#1 0x00002aed71c28d1d in _L_lock_840 () from /lib64/libpthread.so.0 | |
#2 0x00002aed71c28c3a in pthread_mutex_lock () from /lib64/libpthread.so.0 | |
#3 0x0000000000560f7a in core.sync.mutex.Mutex.lock() () | |
#4 0x000000000056f66d in gc.gc.GC.malloc() () | |
#5 0x0000000000564acf in gc_qalloc () | |
#6 0x000000000056acc1 in _adDupT () | |
#7 0x000000000044b65a in sambamba.markdup.__T20CollateReadPairRangeTC3std5range51__T10InputRangeTS8sambamba7markdup14IndexedBamReadZ10InputRangeVb1S298sambamba7markdup10simpleHashZ.CollateReadPairRange.copyToOverflowList() () | |
#8 0x000000000044a928 in sambamba.markdup.__T20CollateReadPairRangeTC3std5range51__T10InputRangeTS8sambamba7markdup14IndexedBamReadZ10InputRangeVb1S298sambamba7markdup10simpleHashZ.CollateReadPairRange.popFrontHashTable() () | |
#9 0x00000000004493a1 in sambamba.markdup.__T19getDuplicateOffsetsTC3std5range51__T10InputRangeTS8sambamba7markdup14IndexedBamReadZ10InputRangeZ.getDuplicateOffsets() () | |
#10 0x0000000000447615 in sambamba.markdup.markdup_main() () | |
#11 0x000000000056684c in _d_run_main () | |
#12 0x00002aed72374b15 in __libc_start_main () from /lib64/libc.so.6 | |
#13 0x0000000000404e19 in _start () | |
======== |
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