Hi Teemu,
On 11/18/2024 10:59 PM, Teepean via Cygwin wrote:
2. Compile BWA with rpmalloc and the following patch:
// In thread worker function:
#ifdef __CYGWIN__
rpmalloc_thread_initialize();
#endif
// ... thread work ...
#ifdef __CYGWIN__
rpmalloc_thread_finalize(1);
#endif
How, exactly, did you compile BWA with rpmalloc? I ask because of the
three bwa* executables in the test_data directory, only bwa.exe is
purely Cygwin. The other two have both Cygwin and MSVCRT runtimes
associated, something that is not supported by us. Was your rpmalloc
compiled by Visual Studio?
BTW where exactly did you get rpmalloc from? Just so I do the same.
In spite of the different runtime libraries, all three executables have
similar run- and cpu-times on my test system (9-10s and 37-39s
respectively). That might indicate the Cygwin runtime is being used in
preference to MSVCRT here. Maybe that's different on your system?
Another BTW: are the input data files and output files on a hard disk or
an SSD on your system? They're on an SSD on mine.
Curiouser and curiouser,
..mark
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