diff options
Diffstat (limited to 'test/performance/releases.org')
| -rw-r--r-- | test/performance/releases.org | 54 |
1 files changed, 54 insertions, 0 deletions
diff --git a/test/performance/releases.org b/test/performance/releases.org index b54a4cf..4497d2f 100644 --- a/test/performance/releases.org +++ b/test/performance/releases.org @@ -10,6 +10,60 @@ core Eigenlib version and 0.97 went multi-core with openblas. Unfortunately I linked in lapack and an older BLAS which slowed things down. In 0.98 openblas is mostly used and is faster. +* GEMMA 0.98-beta1 + +#+BEGIN_SRC bash + linux-vdso.so.1 (0x00007ffe475d2000) + libgsl.so.23 => /home/wrk/opt/gemma-dev-env/lib/libgsl.so.23 (0x00007f95a21e3000) + libopenblas.so.0 => /home/wrk/opt/gemma-dev-env/lib/libopenblas.so.0 (0x00007f959fc45000) + libz.so.1 => /home/wrk/opt/gemma-dev-env/lib/libz.so.1 (0x00007f959fa2a000) + libgfortran.so.3 => /home/wrk/opt/gemma-dev-env/lib/libgfortran.so.3 (0x00007f959f709000) + libquadmath.so.0 => /home/wrk/opt/gemma-dev-env/lib/libquadmath.so.0 (0x00007f959f4c8000) + libstdc++.so.6 => /home/wrk/opt/gemma-dev-env/lib/libstdc++.so.6 (0x00007f959f14d000) + libm.so.6 => /home/wrk/opt/gemma-dev-env/lib/libm.so.6 (0x00007f959ee01000) + libgcc_s.so.1 => /home/wrk/opt/gemma-dev-env/lib/libgcc_s.so.1 (0x00007f959ebea000) + libpthread.so.0 => /home/wrk/opt/gemma-dev-env/lib/libpthread.so.0 (0x00007f959e9cc000) + libc.so.6 => /home/wrk/opt/gemma-dev-env/lib/libc.so.6 (0x00007f959e61a000) +#+END_SRC + +#+BEGIN_SRC bash +time ./bin/gemma -g ~/tmp/mouse_hs1940/mouse_hs1940.geno.txt.gz -p ~/tmp/mouse_hs1940/mouse_hs1940.pheno.txt -a ~/tmp/mouse_hs1940/mouse_hs1940.anno.txt -gk -no-check +GEMMA 0.98-beta1 (2018-09-06) by Xiang Zhou and team (C) 2012-2018 +Reading Files ... +## number of total individuals = 1940 +## number of analyzed individuals = 1410 +## number of covariates = 1 +## number of phenotypes = 1 +## number of total SNPs/var = 12226 +## number of analyzed SNPs = 10768 +Calculating Relatedness Matrix ... +================================================== 100% + +real 0m16.875s +user 0m25.180s +sys 0m1.740s +#+END_SRC + +#+BEGIN_SRC bash +lario:~/izip/git/opensource/genenetwork/gemma$ time bin/gemma -g ~/tmp/mouse_hs1940/mouse_hs1940.geno.txt.gz -p ~/tmp/mouse_hs1940/mouse_hs1940.pheno.txt -n 1 -a ~/tmp/mouse_hs1940/mouse_hs1940.anno.txt -k ./output/result.cXX.txt -lmm -no-check +GEMMA 0.98-beta1 (2018-09-06) by Xiang Zhou and team (C) 2012-2018 +Reading Files ... +## number of total individuals = 1940 +## number of analyzed individuals = 1410 +## number of covariates = 1 +## number of phenotypes = 1 +## number of total SNPs/var = 12226 +## number of analyzed SNPs = 10768 +Start Eigen-Decomposition... +pve estimate =0.608801 +se(pve) =0.032774 +================================================== 100% + +real 0m13.255s +user 0m18.272s +sys 0m3.324s +#+END_SRC + * GEMMA 0.98-pre #+BEGIN_SRC bash |