Permalink
Commits on Nov 11, 2018
  1. Read L2 cache size from sysctl/sysconf if possible instead of hardcod…

    milot-mirdita committed Nov 11, 2018
    …ing it to 256K
  2. Update README.md

    milot-mirdita committed Nov 11, 2018
  3. Add NEON comptabile hmax8 and hmax16 instructions

    milot-mirdita committed Nov 11, 2018
  4. Add very experimental ARM NEON support, with sse2neon macro library:

    milot-mirdita committed Nov 11, 2018
    * support for _mm_minpos_epu16 missing still, so no align module
    * prefilter is computing different results
    * we probably have to check every single char, since x86 char != arm char
    * _mm_extract_epi8 _mm_srli_epi64 _mm_slli_epi64 _mm_mulhi_epu16 _mm_mul_epu32 _mm_cmpeq_epi32
      Are untested just implemented analogous to already existing functions
    * no idea what else might be broken
Commits on Nov 5, 2018
  1. Chosen parameters of precomputed index will be used over the ones spe…

    milot-mirdita committed Nov 5, 2018
    …cified in the command line in more cases now. This helps with consistence of the index
Commits on Nov 3, 2018
  1. easy-search automatically computes backtrace if requested by --format…

    milot-mirdita committed Nov 3, 2018
    …-output
  2. Update memory requirements in readme to exclude X residue

    milot-mirdita committed Nov 3, 2018
  3. Rework the MMseqs2 README

    milot-mirdita committed Nov 3, 2018
  4. Convertalis can show consensus sequence of a profile

    milot-mirdita committed Nov 3, 2018
  5. Whitespace

    milot-mirdita committed Nov 3, 2018
Commits on Nov 1, 2018
  1. Use correct db types in offsetalignments

    milot-mirdita committed Nov 1, 2018
  2. Remove mlocks that crash if seq (profile) db larger than available me…

    milot-mirdita committed Nov 1, 2018
    …mory was used
  3. Indexdb was not masking sequences at all

    milot-mirdita committed Nov 1, 2018
  4. Fix old parameter name

    milot-mirdita committed Oct 26, 2018
Commits on Oct 25, 2018
  1. Cascaded clustering would fail if aborted and restarted

    milot-mirdita committed Oct 25, 2018
Commits on Oct 22, 2018
  1. Silence shellcheck warning for parameter passing

    milot-mirdita committed Oct 22, 2018
Commits on Oct 19, 2018
  1. Copy paste typo

    milot-mirdita committed Oct 19, 2018
  2. Fix code broken through omp_set_num_threads earlier

    milot-mirdita committed Oct 19, 2018
Commits on Oct 18, 2018
  1. Remove redundant call to omp_set_num_threads everywhere

    milot-mirdita committed Oct 18, 2018
Commits on Oct 17, 2018
  1. Cleanup Util::touchMemory

    milot-mirdita committed Oct 17, 2018