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-rw-r--r--benchmarks/Dockerfile321
-rw-r--r--benchmarks/output/clifford_torus_50000.ripser.txt23
-rw-r--r--benchmarks/output/dragon-2.ripser-no-emergent.txt23
-rw-r--r--benchmarks/output/dragon-2.ripser.txt23
-rw-r--r--benchmarks/output/fractal-r.ripser.txt23
-rw-r--r--benchmarks/output/o3_1024.dipha-multicore.txt23
-rw-r--r--benchmarks/output/o3_1024.dipha.txt23
-rw-r--r--benchmarks/output/o3_1024.gudhi.txt23
-rw-r--r--benchmarks/output/o3_1024.ripser-no-emergent.txt23
-rw-r--r--benchmarks/output/o3_1024.ripser-store-reduced.txt23
-rw-r--r--benchmarks/output/o3_1024.ripser-use-reduced.txt23
-rw-r--r--benchmarks/output/o3_1024.ripser.txt23
-rw-r--r--benchmarks/output/o3_4096.gudhi.txt23
-rw-r--r--benchmarks/output/o3_4096.ripser-no-emergent.txt23
-rw-r--r--benchmarks/output/o3_4096.ripser.txt23
-rw-r--r--benchmarks/output/random.ripser-no-emergent.txt23
-rw-r--r--benchmarks/output/random.ripser-store-reduced.txt23
-rw-r--r--benchmarks/output/random.ripser-use-reduced.txt23
-rw-r--r--benchmarks/output/random.ripser.txt23
-rw-r--r--benchmarks/output/sphere_3_192.ripser-no-emergent.txt23
-rw-r--r--benchmarks/output/sphere_3_192.ripser-store-reduced.txt23
-rw-r--r--benchmarks/output/sphere_3_192.ripser-use-reduced.txt23
-rw-r--r--benchmarks/output/sphere_3_192.ripser.txt23
23 files changed, 827 insertions, 0 deletions
diff --git a/benchmarks/Dockerfile b/benchmarks/Dockerfile
new file mode 100644
index 0000000..e349648
--- /dev/null
+++ b/benchmarks/Dockerfile
@@ -0,0 +1,321 @@
+# FROM ubuntu:latest
+
+#FROM ubuntu:18.10 as benchmark-setup
+# RUN echo "deb http://archive.ubuntu.com/ubuntu/ cosmic main restricted universe" > /etc/apt/sources.list
+
+FROM ubuntu:19.04 as benchmark-setup
+
+RUN apt-get update && \
+ apt-get install -y \
+ apt-utils \
+ cmake \
+ curl \
+ g++ \
+ git \
+ gudhi-utils \
+ hdf5-tools \
+ libcgal-dev \
+ libboost-dev \
+ libboost-filesystem-dev \
+ libboost-test-dev \
+ libgmp3-dev \
+ libmpfr-dev \
+ libtbb-dev \
+ libopenmpi-dev \
+ make \
+ python-minimal \
+ python-pip \
+ time \
+ unzip \
+ && rm -rf /var/lib/apt/lists/*
+
+WORKDIR /external
+
+RUN curl -LO https://julialang-s3.julialang.org/bin/linux/x64/1.1/julia-1.1.0-linux-x86_64.tar.gz \
+ && tar xf julia-1.1.0-linux-x86_64.tar.gz
+ENV PATH="${PATH}:/external/julia-1.1.0/bin"
+
+RUN julia --eval 'using Pkg; Pkg.add("Plotly"); Pkg.add("Eirene"); using Eirene;'
+
+
+WORKDIR /benchmark
+COPY sphere_3_192_points.dat .
+COPY sphere_3_192.complex .
+COPY o3_1024.txt .
+COPY o3_1024_1.8.dipha .
+COPY o3_4096.txt .
+# COPY o3_4096_1.4.dipha .
+COPY clifford_torus_50000.points.txt .
+# COPY dragon_2000.dipha .
+
+
+
+RUN curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_distmat/fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt \
+&& curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_distmat/dipha/fractal_9_5_2_random.bin \
+\
+&& curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_point_cloud/dragon_vrip.ply.txt_2000_.txt \
+\
+# && curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_distmat/human_gene_distmat.txt \
+\
+&& curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_point_cloud/random_point_cloud_50_16_.txt \
+&& curl -LO https://github.com/n-otter/PH-roadmap/raw/master/data_sets/roadmap_datasets_distmat/dipha/random_50_16.bin
+
+RUN (echo "OFF\n2000 0 0" && cat dragon_vrip.ply.txt_2000_.txt) >dragon_vrip.ply.txt_2000_.off \
+&& (echo "OFF\n50 0 0" && cat random_point_cloud_50_16_.txt) >random_point_cloud_50_16_.off \
+&& (echo "OFF\n1024 0 0" && cat sphere_3_192_points.dat) > sphere_3_192.off \
+&& (echo "OFF\n1024 0 0" && cat o3_1024.txt) >o3_1024.off \
+&& (echo "OFF\n4096 0 0" && cat o3_4096.txt) >o3_4096.off \
+&& (echo "nOFF\n4 50000 0 0" && cat clifford_torus_50000.points.txt) >clifford_torus_50000.points.off
+
+
+FROM benchmark-setup as benchmark-ripser
+
+WORKDIR /ripser
+RUN git clone https://github.com/Ripser/ripser.git \
+&& cd ripser \
+&& git checkout dev \
+&& make
+
+ENV PATH="${PATH}:/ripser/ripser"
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.ripser.txt ripser sphere_3_192_points.dat --format point-cloud --dim 2
+RUN time -v -o o3_1024.ripser.txt ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2
+RUN time -v -o o3_4096.ripser.txt ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2
+RUN time -v -o clifford_torus_50000.ripser.txt ripser clifford_torus_50000.points.txt --format point-cloud --dim 2 --threshold .15 --ratio 2
+
+RUN time -v -o random.ripser.txt ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7
+RUN time -v -o fractal-r.ripser.txt ripser fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt --dim 2
+RUN time -v -o dragon-2.ripser.txt ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1
+# RUN time -v -o genome.ripser.txt ripser human_gene_distmat.txt --dim 1
+
+
+FROM benchmark-ripser as benchmark-ripser-no-emergent
+
+WORKDIR /ripser/ripser
+RUN git pull && git checkout benchmarks/disable-emergent-pairs \
+&& make
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.ripser-no-emergent.txt ripser sphere_3_192_points.dat --format point-cloud --dim 2
+RUN time -v -o random.ripser-no-emergent.txt ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7
+RUN time -v -o fractal-r.ripser-no-emergent.txt ripser fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt --dim 2
+RUN time -v -o dragon-2.ripser-no-emergent.txt ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1
+# RUN time -v -o genome.ripser-no-emergent.txt ripser human_gene_distmat.txt --dim 1
+RUN time -v -o o3_1024.ripser-no-emergent.txt ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2
+RUN time -v -o o3_4096.ripser-no-emergent.txt ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2
+RUN time -v -o clifford_torus_50000.ripser-no-emergent.txt ripser clifford_torus_50000.points.txt --format point-cloud --dim 2 --threshold .15 --ratio 2
+
+
+FROM benchmark-ripser as benchmark-ripser-store-reduced
+
+WORKDIR /ripser/ripser
+RUN git pull && git checkout benchmarks/store-reduced-matrix \
+&& make
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.ripser-store-reduced.txt ripser sphere_3_192_points.dat --format point-cloud --dim 2
+RUN time -v -o random.ripser-store-reduced.txt ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7
+# RUN time -v -o fractal-r.ripser-store-reduced.txt ripser fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt --dim 2
+# RUN time -v -o dragon-2.ripser-store-reduced.txt ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1
+# RUN time -v -o genome.ripser-store-reduced.txt ripser human_gene_distmat.txt --dim 1
+RUN time -v -o o3_1024.ripser-store-reduced.txt ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2
+# RUN time -v -o o3_4096.ripser-store-reduced.txt ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2
+# RUN time -v -o clifford_torus_50000.ripser-store-reduced.txt ripser clifford_torus_50000.points.txt --format point-cloud --dim 2 --threshold .15 --ratio 2
+
+
+FROM benchmark-ripser as benchmark-ripser-use-reduced
+
+WORKDIR /ripser/ripser
+RUN git pull && git checkout benchmarks/use-reduced-matrix \
+&& make
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.ripser-use-reduced.txt ripser sphere_3_192_points.dat --format point-cloud --dim 2
+RUN time -v -o random.ripser-use-reduced.txt ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7
+# RUN time -v -o fractal-r.ripser-use-reduced.txt ripser fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt --dim 2
+# RUN time -v -o dragon-2.ripser-use-reduced.txt ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1
+# RUN time -v -o genome.ripser-use-reduced.txt ripser human_gene_distmat.txt --dim 1
+RUN time -v -o o3_1024.ripser-use-reduced.txt ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2
+# RUN time -v -o o3_4096.ripser-use-reduced.txt ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2
+# RUN time -v -o clifford_torus_50000.ripser-use-reduced.txt ripser clifford_torus_50000.points.txt --format point-cloud --dim 2 --threshold .15 --ratio 2
+
+
+FROM benchmark-setup as benchmark-gudhi
+
+# WORKDIR /gudhi
+#
+# RUN curl -LO "https://gforge.inria.fr/frs/download.php/file/37696/2018-09-04-14-25-00_GUDHI_2.3.0.tar.gz" \
+# && tar xf 2018-09-04-14-25-00_GUDHI_2.3.0.tar.gz \
+# && cd 2018-09-04-14-25-00_GUDHI_2.3.0 \
+# && mkdir build \
+# && cd build \
+# && cmake -DCMAKE_BUILD_TYPE="Release" .. \
+# && make rips_distance_matrix_persistence
+#
+# ENV PATH="${PATH}:/gudhi/2018-09-04-14-25-00_GUDHI_2.3.0/build/utilities/Rips_complex"
+#
+# WORKDIR /benchmark
+# RUN time -v -o sphere_3_192.gudhi.txt rips_distance_matrix_persistence -d3 -p2 sphere_3_192.distance_matrix
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.gudhi.txt gudhi-rips-persistence -d3 -p2 sphere_3_192.off >sphere_3_192.gudhi.out.txt
+# RUN time -v -o fractal-r.gudhi.txt gudhi-rips-distance-matrix-persistence -d3 -p2 fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt >fractal-r.gudhi.out.txt
+RUN time -v -o o3_1024.gudhi.txt gudhi-rips-persistence -d4 -p2 -r 1.8 o3_1024.off >o3_1024.gudhi.out.txt
+RUN time -v -o o3_4096.gudhi.txt gudhi-rips-persistence -d4 -p2 -r 1.4 o3_4096.off >o3_4096.gudhi.out.txt
+RUN time -v -o clifford_torus_50000.gudhi.txt gudhi-rips-persistence -d3 -p2 -r 0.15 clifford_torus_50000.points.off >clifford_torus_50000.gudhi.out.txt
+
+
+FROM benchmark-setup as benchmark-dipha
+
+WORKDIR /dipha
+
+RUN git clone https://github.com/DIPHA/dipha.git \
+&& cd dipha \
+&& mkdir build \
+&& cd build \
+&& cmake .. \
+&& make
+
+ENV PATH="${PATH}:/dipha/dipha/build"
+
+WORKDIR /benchmark
+RUN time -v -o sphere_3_192.dipha.txt dipha --dual --benchmark --upper_dim 3 sphere_3_192.complex sphere_3_192.dipha.diagram
+RUN time -v -o o3_1024.dipha.txt dipha --dual --benchmark --upper_dim 4 o3_1024_1.8.dipha o3_1024_1.8.dipha.diagram
+# RUN time -v -o o3_4096.dipha.txt dipha --dual --benchmark --upper_dim 4 o3_4096_1.4.dipha o3_4096_1.4.dipha.diagram
+# RUN time -v -o dragon-2.dipha.txt dipha --dual --benchmark --upper_dim 2 dragon_2000.dipha dragon_2000.dipha.diagram
+
+
+
+# FROM benchmark-dipha as benchmark-dipha-multicore
+
+RUN time -v -o sphere_3_192.dipha-multicore.txt mpiexec --allow-run-as-root --mca btl_vader_single_copy_mechanism none \
+dipha --dual --benchmark --upper_dim 3 sphere_3_192.complex sphere_3_192.dipha-multicore.diagram
+
+RUN time -v -o o3_1024.dipha-multicore.txt mpiexec --allow-run-as-root --mca btl_vader_single_copy_mechanism none \
+dipha --dual --benchmark --upper_dim 4 o3_1024_1.8.dipha o3_1024_1.8.dipha-multicore.diagram
+
+
+### FROM benchmark-setup as benchmark-eirene037
+###
+### WORKDIR /eirene
+###
+### RUN curl -LO https://julialang-s3.julialang.org/bin/linux/x64/0.6/julia-0.6.4-linux-x86_64.tar.gz \
+### && tar xf julia-0.6.4-linux-x86_64.tar.gz
+###
+### RUN curl -LO "http://gregoryhenselman.org/eirene/ewExternalFiles/Eirene0_3_7.zip" \
+### && unzip Eirene0_3_7.zip \
+### && cd Eirene0_3_7
+###
+### # ENV PATH="${PATH}:/eirene/julia-9d11f62bcb/bin"
+###
+### # RUN julia --eval 'Pkg.clone("https://github.com/Eetion/Eirene.jl.git"); using Eirene'
+### # RUN julia --eval ' \
+### # Pkg.clone("https://github.com/bnels/PlotlyJS.jl.git"); \
+### # Pkg.checkout("PlotlyJS","fix-jsstring"); \
+### # Pkg.add("Eirene");'
+### RUN /eirene/julia-9d11f62bcb/bin/julia --eval ' \
+### Pkg.clone("https://github.com/bnels/PlotlyJS.jl.git"); \
+### Pkg.checkout("PlotlyJS","fix-jsstring");'
+### RUN /eirene/julia-9d11f62bcb/bin/julia --eval 'Pkg.add("Distances"); Pkg.add("JLD"); Pkg.add("Blink"); Pkg.add("Plotly"); Pkg.add("MultivariateStats");'
+### RUN /eirene/julia-9d11f62bcb/bin/julia --load /eirene/Eirene0_3_7/Eirene0_3_7_mutable.jl --eval 'eirene([0 1; 1 0]);'
+###
+### WORKDIR /benchmark
+### RUN time -v -o sphere_3_192.eirene037.txt \
+### /eirene/julia-9d11f62bcb/bin/julia --load /eirene/Eirene0_3_7/Eirene0_3_7_mutable.jl --eval 'eirene([0 1; 1 0]); p = readdlm("sphere_3_192.distance_matrix"); \
+### tic(); eirene(p, record="none", bettimax=2); toc();' >sphere_3_192.eirene037.out.txt
+###
+### RUN time -v -o dragon-2.eirene037.txt \
+### /eirene/julia-9d11f62bcb/bin/julia --load /eirene/Eirene0_3_7/Eirene0_3_7_mutable.jl --eval 'eirene([0 1; 1 0]); p = readdlm("dragon_vrip.ply.txt_2000_.txt"); \
+### tic(); eirene(p, rowsare="points", record="none", bettimax=1); toc();' >dragon-2.eirene037.out.txt
+### RUN time -v -o fractal-r.eirene037.txt \
+### /eirene/julia-9d11f62bcb/bin/julia --load /eirene/Eirene0_3_7/Eirene0_3_7_mutable.jl --eval 'eirene([0 1; 1 0]); p = readdlm("fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt"); \
+### tic(); eirene(p, record="none", bettimax=2); toc();' >fractal-r.eirene037.out.txt
+### RUN time -v -o random.eirene037.txt \
+### /eirene/julia-9d11f62bcb/bin/julia --load /eirene/Eirene0_3_7/Eirene0_3_7_mutable.jl --eval 'eirene([0 1; 1 0]); p = readdlm("random_point_cloud_50_16_.txt"); \
+### tic(); eirene(p, rowsare="points", record="none", bettimax=7); toc();' >random.eirene037.out.txt
+
+
+
+FROM benchmark-setup as benchmark-eirene
+
+WORKDIR /eirene
+
+#RUN curl -LO https://julialang-s3.julialang.org/bin/linux/x64/1.1/julia-1.1.0-linux-x86_64.tar.gz \
+#&& tar xf julia-1.1.0-linux-x86_64.tar.gz
+#ENV PATH="${PATH}:/eirene/julia-1.1.0/bin"
+
+#RUN julia --eval 'using Pkg; Pkg.add("Plotly"); Pkg.add("Eirene"); using Eirene'
+
+WORKDIR /benchmark
+
+RUN time -v -o sphere_3_192.eirene.txt \
+ julia --eval 'maxdim = 2; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("sphere_3_192_points.dat")); result = eirene(d, model="pc", record="none", maxdim=maxdim))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' >sphere_3_192.eirene.out.txt
+
+RUN time -v -o o3_1024.eirene.txt \
+ julia --eval 'maxdim = 3; maxrad = 1.8; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("o3_1024.txt")); result = eirene(d, model="pc", record="none", maxdim=maxdim, maxrad=maxrad))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' > o3_1024.eirene.out.txt
+
+RUN time -v -o o3_4096.eirene.txt \
+ julia --eval 'maxdim = 3; maxrad = 1.4; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("o3_4096.txt")); result = eirene(d, model="pc", record="none", maxdim=maxdim, maxrad=maxrad))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' > o3_4096.eirene.out.txt
+
+# RUN time -v -o clifford_torus_50000.points.eirene.txt \
+# julia --eval 'maxdim = 2; maxrad = .15; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("clifford_torus_50000.points.txt")); result = eirene(d, model="pc", record="none", maxdim=maxdim, maxrad=maxrad))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' > clifford_torus_50000.eirene.out.txt
+
+RUN time -v -o dragon-2.eirene.txt \
+ julia --eval 'maxdim = 1; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("dragon_vrip.ply.txt_2000_.txt")); result = eirene(d, model="pc", record="none", maxdim=maxdim))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' >dragon-2.eirene.out.txt
+
+RUN time -v -o fractal-r.eirene.txt \
+ julia --eval 'maxdim = 2; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = (m->(m+transpose(m))/2)(readdlm("fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt")); result = eirene(d, record="none", maxdim=maxdim))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' >fractal-r.eirene.out.txt
+
+RUN time -v -o random.eirene.txt \
+ julia --eval 'maxdim = 7; maxrad = 1.7753855751520569; using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed (d = transpose(readdlm("random_point_cloud_50_16_.txt")); result = eirene(d, model="pc", record="none", maxdim=maxdim, maxrad=maxrad))); for i in 0:maxdim print("dim $(i): "); show(stdout, "text/plain", (barcode(result , dim = i))); println(); end' >random.eirene.out.txt
+
+#
+# using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed result=eirene(transpose(readdlm("/Users/uli/Bitbucket/ripser/examples/o3_1024.txt")), model="pc", record="none", maxdim=3, maxrad=1.8))
+# using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed result=eirene(transpose(readdlm("/Users/uli/Bitbucket/ripser/examples/o3_2048.txt")), model="pc", record="none", maxdim=3, maxrad=1.6))
+# using Eirene; using DelimitedFiles; eirene([0 1; 1 0]); println(@elapsed result=eirene(transpose(readdlm("/Users/uli/Bitbucket/ripser/examples/o3_4096.txt")), model="pc", record="none", maxdim=3, maxrad=1.4))
+#
+
+FROM benchmark-setup as benchmark-dionysus2
+
+WORKDIR /dionysus2
+
+RUN pip install numpy scipy dionysus
+
+# RUN git clone https://github.com/mrzv/dionysus.git \
+# && cd dionysus \
+# && mkdir build \
+# && cd build \
+# && cmake .. \
+# && make rips-pairwise
+#
+# ENV PATH="${PATH}:/dionysus2/dionysus/build/examples/rips"
+
+WORKDIR /benchmark
+# RUN time -v -o sphere_3_192.dionysus-cpp.txt rips-pairwise sphere_3_192_points.dat -s3
+
+#RUN time -v -o sphere.dionysus-py.txt python -c 'import dionysus as d; from numpy import loadtxt, inf; import math; from scipy.spatial.distance import squareform; \
+# d.cohomology_persistence(d.fill_rips(squareform(loadtxt("sphere_3_192.distance_matrix")), 3, inf));'
+
+#RUN time -v -o dragon-2.dionysus-py.txt python -c 'import dionysus as d; from numpy import loadtxt, inf; import math; from scipy.spatial.distance import squareform; \
+# d.cohomology_persistence(d.fill_rips(loadtxt("dragon_vrip.ply.txt_2000_.txt"), 2, inf));'
+
+#RUN time -v -o fractal.dionysus-py.txt python -c 'import dionysus as d; from numpy import loadtxt, inf; import math; from scipy.spatial.distance import squareform; \
+# d.cohomology_persistence(d.fill_rips(squareform(loadtxt("fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt")), 3, inf));'
+
+
+FROM benchmark-setup as benchmark-output
+
+COPY --from=benchmark-ripser /benchmark /benchmark
+COPY --from=benchmark-gudhi /benchmark /benchmark
+COPY --from=benchmark-dipha /benchmark /benchmark
+COPY --from=benchmark-eirene /benchmark /benchmark
+# COPY --from=benchmark-eirene037 /benchmark /benchmark
+COPY --from=benchmark-dionysus2 /benchmark /benchmark
+
+COPY --from=benchmark-ripser-no-emergent /benchmark /benchmark
+COPY --from=benchmark-ripser-store-reduced /benchmark /benchmark
+COPY --from=benchmark-ripser-use-reduced /benchmark /benchmark
+
+RUN ls -l /benchmark
+
diff --git a/benchmarks/output/clifford_torus_50000.ripser.txt b/benchmarks/output/clifford_torus_50000.ripser.txt
new file mode 100644
index 0000000..756f7ae
--- /dev/null
+++ b/benchmarks/output/clifford_torus_50000.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser clifford_torus_50000.points.txt --format point-cloud --dim 2 --threshold .15 --ratio 2"
+ User time (seconds): 129.19
+ System time (seconds): 12.06
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 2:21.35
+ 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): 8593448
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 4911670
+ Voluntary context switches: 7
+ Involuntary context switches: 1506
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/dragon-2.ripser-no-emergent.txt b/benchmarks/output/dragon-2.ripser-no-emergent.txt
new file mode 100644
index 0000000..2693a67
--- /dev/null
+++ b/benchmarks/output/dragon-2.ripser-no-emergent.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1"
+ User time (seconds): 40.30
+ System time (seconds): 0.32
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:40.66
+ 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): 257872
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 150721
+ Voluntary context switches: 1
+ Involuntary context switches: 462
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/dragon-2.ripser.txt b/benchmarks/output/dragon-2.ripser.txt
new file mode 100644
index 0000000..2319b97
--- /dev/null
+++ b/benchmarks/output/dragon-2.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser dragon_vrip.ply.txt_2000_.txt --format point-cloud --dim 1"
+ User time (seconds): 1.78
+ System time (seconds): 0.19
+ Percent of CPU this job got: 91%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:02.14
+ 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): 257864
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 150721
+ Voluntary context switches: 2
+ Involuntary context switches: 337
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/fractal-r.ripser.txt b/benchmarks/output/fractal-r.ripser.txt
new file mode 100644
index 0000000..f245ae3
--- /dev/null
+++ b/benchmarks/output/fractal-r.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser fractal_9_5_2_random_edge_list.txt_0.19795_distmat.txt --dim 2"
+ User time (seconds): 13.98
+ System time (seconds): 1.01
+ Percent of CPU this job got: 98%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:15.16
+ 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): 1803484
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 768895
+ Voluntary context switches: 1
+ Involuntary context switches: 1041
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.dipha-multicore.txt b/benchmarks/output/o3_1024.dipha-multicore.txt
new file mode 100644
index 0000000..9f29568
--- /dev/null
+++ b/benchmarks/output/o3_1024.dipha-multicore.txt
@@ -0,0 +1,23 @@
+ Command being timed: "mpiexec --allow-run-as-root --mca btl_vader_single_copy_mechanism none dipha --dual --benchmark --upper_dim 4 o3_1024_1.8.dipha o3_1024_1.8.dipha-multicore.diagram"
+ User time (seconds): 315.48
+ System time (seconds): 2.79
+ Percent of CPU this job got: 787%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:40.42
+ 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): 288828
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 6
+ Minor (reclaiming a frame) page faults: 947004
+ Voluntary context switches: 6113
+ Involuntary context switches: 7400
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 16560
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.dipha.txt b/benchmarks/output/o3_1024.dipha.txt
new file mode 100644
index 0000000..59f810a
--- /dev/null
+++ b/benchmarks/output/o3_1024.dipha.txt
@@ -0,0 +1,23 @@
+ Command being timed: "dipha --dual --benchmark --upper_dim 4 o3_1024_1.8.dipha o3_1024_1.8.dipha.diagram"
+ User time (seconds): 45.89
+ System time (seconds): 1.32
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:47.53
+ 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): 1412520
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 1413259
+ Voluntary context switches: 742
+ Involuntary context switches: 393
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 128
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.gudhi.txt b/benchmarks/output/o3_1024.gudhi.txt
new file mode 100644
index 0000000..27f1c3e
--- /dev/null
+++ b/benchmarks/output/o3_1024.gudhi.txt
@@ -0,0 +1,23 @@
+ Command being timed: "gudhi-rips-persistence -d4 -p2 -r 1.8 o3_1024.off"
+ User time (seconds): 13.51
+ System time (seconds): 0.17
+ Percent of CPU this job got: 179%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:07.63
+ 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): 624828
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 1
+ Minor (reclaiming a frame) page faults: 155463
+ Voluntary context switches: 116
+ Involuntary context switches: 1252
+ Swaps: 0
+ File system inputs: 232
+ File system outputs: 72
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.ripser-no-emergent.txt b/benchmarks/output/o3_1024.ripser-no-emergent.txt
new file mode 100644
index 0000000..2c2f69a
--- /dev/null
+++ b/benchmarks/output/o3_1024.ripser-no-emergent.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2"
+ User time (seconds): 5.24
+ System time (seconds): 0.10
+ Percent of CPU this job got: 100%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:05.32
+ 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): 178804
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 60265
+ Voluntary context switches: 1
+ Involuntary context switches: 48
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.ripser-store-reduced.txt b/benchmarks/output/o3_1024.ripser-store-reduced.txt
new file mode 100644
index 0000000..4fc65cf
--- /dev/null
+++ b/benchmarks/output/o3_1024.ripser-store-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2"
+ User time (seconds): 6.50
+ System time (seconds): 0.64
+ Percent of CPU this job got: 98%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:07.23
+ 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): 1239792
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 514672
+ Voluntary context switches: 1
+ Involuntary context switches: 100
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.ripser-use-reduced.txt b/benchmarks/output/o3_1024.ripser-use-reduced.txt
new file mode 100644
index 0000000..c93a2c0
--- /dev/null
+++ b/benchmarks/output/o3_1024.ripser-use-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2"
+ User time (seconds): 6.37
+ System time (seconds): 0.56
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:06.94
+ 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): 1239568
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 514607
+ Voluntary context switches: 1
+ Involuntary context switches: 111
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_1024.ripser.txt b/benchmarks/output/o3_1024.ripser.txt
new file mode 100644
index 0000000..1d2f195
--- /dev/null
+++ b/benchmarks/output/o3_1024.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_1024.txt --format point-cloud --dim 3 --threshold 1.8 --ratio 2"
+ User time (seconds): 2.07
+ System time (seconds): 0.11
+ Percent of CPU this job got: 96%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:02.26
+ 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): 178776
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 60267
+ Voluntary context switches: 1
+ Involuntary context switches: 81
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_4096.gudhi.txt b/benchmarks/output/o3_4096.gudhi.txt
new file mode 100644
index 0000000..876507a
--- /dev/null
+++ b/benchmarks/output/o3_4096.gudhi.txt
@@ -0,0 +1,23 @@
+ Command being timed: "gudhi-rips-persistence -d4 -p2 -r 1.4 o3_4096.off"
+ User time (seconds): 675.55
+ System time (seconds): 25.12
+ Percent of CPU this job got: 198%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 5:52.73
+ 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): 18652260
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 4663080
+ Voluntary context switches: 42
+ Involuntary context switches: 12700
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 296
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_4096.ripser-no-emergent.txt b/benchmarks/output/o3_4096.ripser-no-emergent.txt
new file mode 100644
index 0000000..4b1ff37
--- /dev/null
+++ b/benchmarks/output/o3_4096.ripser-no-emergent.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2"
+ User time (seconds): 174.88
+ System time (seconds): 2.05
+ Percent of CPU this job got: 100%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 2:56.88
+ 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): 3861344
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 1672013
+ Voluntary context switches: 1
+ Involuntary context switches: 594
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/o3_4096.ripser.txt b/benchmarks/output/o3_4096.ripser.txt
new file mode 100644
index 0000000..2a5d61e
--- /dev/null
+++ b/benchmarks/output/o3_4096.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser o3_4096.txt --format point-cloud --dim 3 --threshold 1.4 --ratio 2"
+ User time (seconds): 60.51
+ System time (seconds): 2.02
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 1:02.54
+ 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): 3861300
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 1672012
+ Voluntary context switches: 2
+ Involuntary context switches: 434
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/random.ripser-no-emergent.txt b/benchmarks/output/random.ripser-no-emergent.txt
new file mode 100644
index 0000000..cfdb8fc
--- /dev/null
+++ b/benchmarks/output/random.ripser-no-emergent.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7"
+ User time (seconds): 13.82
+ System time (seconds): 0.22
+ Percent of CPU this job got: 100%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:14.02
+ 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): 339084
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 150128
+ Voluntary context switches: 2
+ Involuntary context switches: 102
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/random.ripser-store-reduced.txt b/benchmarks/output/random.ripser-store-reduced.txt
new file mode 100644
index 0000000..efeb5b5
--- /dev/null
+++ b/benchmarks/output/random.ripser-store-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7"
+ User time (seconds): 15.99
+ System time (seconds): 0.92
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:16.92
+ 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): 1366796
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 961778
+ Voluntary context switches: 1
+ Involuntary context switches: 242
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/random.ripser-use-reduced.txt b/benchmarks/output/random.ripser-use-reduced.txt
new file mode 100644
index 0000000..d767db9
--- /dev/null
+++ b/benchmarks/output/random.ripser-use-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7"
+ User time (seconds): 16.15
+ System time (seconds): 1.03
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:17.26
+ 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): 1366620
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 964013
+ Voluntary context switches: 1
+ Involuntary context switches: 118
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/random.ripser.txt b/benchmarks/output/random.ripser.txt
new file mode 100644
index 0000000..ac9822c
--- /dev/null
+++ b/benchmarks/output/random.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser random_point_cloud_50_16_.txt --format point-cloud --dim 7"
+ User time (seconds): 6.25
+ System time (seconds): 0.18
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:06.43
+ 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): 339084
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 150127
+ Voluntary context switches: 1
+ Involuntary context switches: 62
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/sphere_3_192.ripser-no-emergent.txt b/benchmarks/output/sphere_3_192.ripser-no-emergent.txt
new file mode 100644
index 0000000..37134ce
--- /dev/null
+++ b/benchmarks/output/sphere_3_192.ripser-no-emergent.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser sphere_3_192_points.dat --format point-cloud --dim 2"
+ User time (seconds): 5.49
+ System time (seconds): 0.06
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:05.56
+ 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): 201136
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 66913
+ Voluntary context switches: 1
+ Involuntary context switches: 62
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/sphere_3_192.ripser-store-reduced.txt b/benchmarks/output/sphere_3_192.ripser-store-reduced.txt
new file mode 100644
index 0000000..22e6702
--- /dev/null
+++ b/benchmarks/output/sphere_3_192.ripser-store-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser sphere_3_192_points.dat --format point-cloud --dim 2"
+ User time (seconds): 13.80
+ System time (seconds): 1.77
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:15.57
+ 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): 4288268
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 1860885
+ Voluntary context switches: 1
+ Involuntary context switches: 240
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/sphere_3_192.ripser-use-reduced.txt b/benchmarks/output/sphere_3_192.ripser-use-reduced.txt
new file mode 100644
index 0000000..66d80ac
--- /dev/null
+++ b/benchmarks/output/sphere_3_192.ripser-use-reduced.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser sphere_3_192_points.dat --format point-cloud --dim 2"
+ User time (seconds): 13.58
+ System time (seconds): 1.76
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:15.34
+ 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): 4288276
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 1865102
+ Voluntary context switches: 1
+ Involuntary context switches: 193
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0
diff --git a/benchmarks/output/sphere_3_192.ripser.txt b/benchmarks/output/sphere_3_192.ripser.txt
new file mode 100644
index 0000000..d6f9446
--- /dev/null
+++ b/benchmarks/output/sphere_3_192.ripser.txt
@@ -0,0 +1,23 @@
+ Command being timed: "ripser sphere_3_192_points.dat --format point-cloud --dim 2"
+ User time (seconds): 1.04
+ System time (seconds): 0.04
+ Percent of CPU this job got: 99%
+ Elapsed (wall clock) time (h:mm:ss or m:ss): 0:01.08
+ 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): 201136
+ Average resident set size (kbytes): 0
+ Major (requiring I/O) page faults: 0
+ Minor (reclaiming a frame) page faults: 66924
+ Voluntary context switches: 1
+ Involuntary context switches: 57
+ Swaps: 0
+ File system inputs: 0
+ File system outputs: 0
+ Socket messages sent: 0
+ Socket messages received: 0
+ Signals delivered: 0
+ Page size (bytes): 4096
+ Exit status: 0