Sambamba 0.7.1

ChangeLog v0.7.1 (20191128)

• Fixed major segfault problem that got introduced after ldc 1.10, see #393
• make error message more informative - see https://github.com/biod/sambamba/pull/411/files, thanks https://github.com/EwaMarek

penguin2:~$ /usr/bin/time --verbose ./sambamba-0.7.1-linux-static markdup HG00100.chrom20.ILLUMINA.bwa.GBR.low_coverage.20130415.bam test.bam 

sambamba 0.7.1
 by Artem Tarasov and Pjotr Prins (C) 2012-2019
    LDC 1.17.0 / DMD v2.087.1 / LLVM8.0.1 / bootstrap LDC - the LLVM D compiler (1.17.0)

finding positions of the duplicate reads in the file...
  sorted 3969781 end pairs
     and 73839 single ends (among them 22397 unmatched pairs)
  collecting indices of duplicate reads...   done in 642 ms
  found 239673 duplicates
collected list of positions in 0 min 8 sec
marking duplicates...
collected list of positions in 0 min 18 sec
        Command being timed: "./sambamba-0.7.1-linux-static markdup HG00100.chrom20.ILLUMINA.bwa.GBR.low_coverage.20130415.bam test.bam"
        User time (seconds): 177.73
        System time (seconds): 45.90
        Percent of CPU this job got: 1097%
        Elapsed (wall clock) time (h:mm:ss or m:ss): 0:20.38
        Average shared text size (kbytes): 0
        Average unshared data size (kbytes): 0
        Average stack size (kbytes): 0
        Average total size (kbytes): 0
        Maximum resident set size (kbytes): 1343524
        Average resident set size (kbytes): 0
        Major (requiring I/O) page faults: 0
        Minor (reclaiming a frame) page faults: 436841
        Voluntary context switches: 4610690
        Involuntary context switches: 11696
        Swaps: 0
        File system inputs: 48
        File system outputs: 1967368
        Socket messages sent: 0
        Socket messages received: 0
        Signals delivered: 0
        Page size (bytes): 4096
        Exit status: 0

Static file was built on Debian testing. Md5sum:

  a47932d27f92a2639d4b228eb7847e04  /home/wrk/sambamba-0.7.1-linux-static.gz