Changes between Initial Version and Version 2 of Ticket #29131
- Timestamp:
- Apr 14, 2011, 3:16:55 PM (13 years ago)
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Ticket #29131
- Property Cc haroldpimentel@… removed
- Property Owner changed from macports-tickets@… to haroldpimentel@…
- Property Keywords malloc mmap nomem 64bit removed
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Ticket #29131 – Description
initial v2 1 1 Running bowtie on an Xserve with 24Gb RAM, aligning against Human reference (build 37/hg19) I get this message: 2 2 3 {{{ 3 4 bowtie(16525) malloc: *** mmap(size=716197888) failed (error code=12) 4 5 *** error: can't allocate region 5 6 *** set a breakpoint in malloc_error_break to debug 6 7 Error: Ran out of memory allocating space for the bitpacked reference. Please re-run on a computer with more memory. 8 }}} 7 9 8 10 I believe this is because the -m64 (or -arch x86_64) parameter needs to be provided during compilation in order for the program to be in 64-bit, rather than 32-bit mode. The stock version of bowtie from UMD works for me. Below are the results of --version run on each: 9 11 12 {{{ 10 13 /opt/local/bin/bowtie version 0.12.7 11 14 32-bit … … 23 26 Options: -O3 -m64 24 27 Sizeof {int, long, long long, void*, size_t, off_t}: {4, 8, 8, 8, 8, 8} 25 28 }}}