benchmarks

12 files changed, 627 insertions, 0 deletions

diff --git a/benchmarks/benchmarks.txt b/benchmarks/benchmarks.txt
new file mode 100644
index 0000000..9fbc688
--- /dev/null
+++ b/benchmarks/benchmarks.txt
@@ -0,0 +1,10 @@
+/usr/bin/time -l ~/Source/Dionysus/examples/cohomology/rips-pairwise-cohomology -s3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_192_points.dat
+
+/usr/bin/time -l ~/Bitbucket/phat/benchmark --primal --bit_tree_pivot_column --twist ~/Bitbucket/phat-paper/benchmark/sphere_3_192_coboundary.phat
+
+/usr/bin/time -l ~/Bitbucket/dipha/dipha --benchmark --upper_dim 3 --dual ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex /dev/null
+
+/usr/bin/time -l ~/Source/Gudhi_library_1.3.0/example/Persistent_cohomology/rips_persistence -d3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_192_points.dat -o/dev/null
+
+c++ -std=c++11 ripser.cpp -o ripser -Ofast -D NDEBUG -D FILE_FORMAT_DIPHA -D PRINT_PERSISTENCE_PAIRS && /usr/bin/time -l ./ripser --top_dim 2 ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex
+
diff --git a/benchmarks/examples.txt b/benchmarks/examples.txt
new file mode 100644
index 0000000..39afeb6
--- /dev/null
+++ b/benchmarks/examples.txt
@@ -0,0 +1,4 @@
+c++ -std=c++14 ripser.cpp -o ripser -Ofast -D NDEBUG -D STORE_DIAMETERS -D FILE_FORMAT_UPPER_TRIANGULAR_CSV -D PRINT_PERSISTENCE_PAIRS && /usr/bin/time -l ./ripser --top_dim 1 ~/Downloads/avian_all_nt_concat_jukes_cantor.csv
+
+c++ -std=c++14 ripser.cpp -o ripser -Ofast -D NDEBUG -D STORE_DIAMETERS -D FILE_FORMAT_DIPHA -D PRINT_PERSISTENCE_PAIRS && /usr/bin/time -l ./ripser --top_dim 2 ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex
+
diff --git a/benchmarks/sphere_3_192/dionysus.txt b/benchmarks/sphere_3_192/dionysus.txt
new file mode 100644
index 0000000..56e23d1
--- /dev/null
+++ b/benchmarks/sphere_3_192/dionysus.txt
@@ -0,0 +1,28 @@
+uli:Dionysus uli$ /usr/bin/time -l ~/Source/Dionysus/examples/cohomology/rips-pairwise-cohomology -s3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_192_points.dat
+Boundary matrix: 
+Cocycles:        *.ccl
+Vertices:        
+Diagram:         
+Simplex vector generated, size: 56050288
+
+0%   10   20   30   40   50   60   70   80   90   100%
+|----|----|----|----|----|----|----|----|----|----|
+***************************************************
+Rips timer : Elapsed time [393.20] seconds
+Persistence timer : Elapsed time [322.41] seconds
+Total timer : Elapsed time [807.98] seconds
+      843.40 real       787.80 user        26.13 sys
+3240779776  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+   4808144  page reclaims
+         0  page faults
+         0  swaps
+        11  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+     11585  voluntary context switches
+    691823  involuntary context switches
diff --git a/benchmarks/sphere_3_192/dipha.txt b/benchmarks/sphere_3_192/dipha.txt
new file mode 100644
index 0000000..38cc112
--- /dev/null
+++ b/benchmarks/sphere_3_192/dipha.txt
@@ -0,0 +1,58 @@
+uli:dipha uli$ /usr/bin/time -l ~/Bitbucket/dipha/dipha --benchmark --upper_dim 3 --dual ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex /dev/null
+
+Input filename: 
+/Users/uli/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex
+
+upper_dim: 3
+
+Number of processes used: 
+1
+
+Detailed information for rank 0:
+       time    prior mem     peak mem   bytes recv
+       0.0s         3 MB         4 MB         0 MB   complex.load_binary( input_filename, upper_dim );
+
+Number of cells in input: 
+56050288
+      20.1s         4 MB      1714 MB         0 MB   get_filtration_to_cell_map( complex, dualize, filtration_to_cell_map );
+      11.5s       431 MB      2756 MB       855 MB   get_cell_to_filtration_map( complex.get_num_cells(), filtration_to_cell_map, cell_to_filtration_map );
+       1.9s      1713 MB      2756 MB         0 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+       0.0s      2144 MB      2756 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+       1.7s      2145 MB      2756 MB        53 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+       0.1s      2226 MB      2756 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+      35.9s      2244 MB      2809 MB      3349 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+      17.1s      1359 MB      2809 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+      14.9s       943 MB      3638 MB       106 MB   dipha::outputs::save_persistence_diagram( output_filename, complex, filtration_to_cell_map, reduced_columns, dualize, upper_dim );
+
+Overall running time in seconds: 
+104.5
+
+Reduction kernel running time in seconds: 
+17.2
+
+Overall peak mem in GB of all ranks: 
+3.6
+
+Individual peak mem in GB of per rank: 
+3.6
+
+Maximal communication traffic (without sorting) in GB between any pair of nodes:
+4.3
+
+Total communication traffic (without sorting) in GB between all pairs of nodes:
+4.3
+      104.51 real        71.06 user        25.97 sys
+3815686144  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+   8788553  page reclaims
+         0  page faults
+         0  swaps
+         0  block input operations
+         4  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+      2337  voluntary context switches
+    238131  involuntary context switches
diff --git a/benchmarks/sphere_3_192/gudhi.txt b/benchmarks/sphere_3_192/gudhi.txt
new file mode 100644
index 0000000..87763c8
--- /dev/null
+++ b/benchmarks/sphere_3_192/gudhi.txt
@@ -0,0 +1,18 @@
+uli:Gudhi_library_1.3.0 uli$ /usr/bin/time -l ~/Source/Gudhi_library_1.3.0/example/Persistent_cohomology/rips_persistence -d3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_192_points.dat -o/dev/null
+The complex contains 56050288 simplices 
+   and has dimension 3 
+       71.98 real       120.27 user         5.86 sys
+2905890816  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+   1535169  page reclaims
+       129  page faults
+         0  swaps
+         0  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+      1957  voluntary context switches
+    168798  involuntary context switches
diff --git a/benchmarks/sphere_3_192/phat.txt b/benchmarks/sphere_3_192/phat.txt
new file mode 100644
index 0000000..3ebcfff
--- /dev/null
+++ b/benchmarks/sphere_3_192/phat.txt
@@ -0,0 +1,17 @@
+uli:phat uli$ /usr/bin/time -l ~/Bitbucket/phat/benchmark --primal --bit_tree_pivot_column --twist ~/Bitbucket/phat-paper/benchmark/sphere_3_192_coboundary.phat 
+/Users/uli/Bitbucket/phat-paper/benchmark/sphere_3_192_coboundary.phat, bit_tree_pivot_column, twist, primal, Reduction time: 2.649s
+       16.91 real        12.22 user         4.38 sys
+3742277632  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+   1568913  page reclaims
+         8  page faults
+         0  swaps
+        10  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+        20  voluntary context switches
+     13471  involuntary context switches
diff --git a/benchmarks/sphere_3_192/ripser.txt b/benchmarks/sphere_3_192/ripser.txt
new file mode 100644
index 0000000..60b7939
--- /dev/null
+++ b/benchmarks/sphere_3_192/ripser.txt
@@ -0,0 +1,268 @@
+uli:ripser uli$ c++ -std=c++11 ripser.cpp -o ripser -Ofast -D NDEBUG -D FILE_FORMAT_DIPHA -D PRINT_PERSISTENCE_PAIRS && /usr/bin/time -l ./ripser --top_dim 2 ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_192.complex
+distance matrix with 192 points
+distance matrix transformed to lower triangular form
+value range: [0.00367531,2]
+persistence intervals in dim 0:
+ [0,0.145018)
+ [0,0.0831521)
+ [0,0.115939)
+ [0,0.202564)
+ [0,0.0217315)
+ [0,0.127383)
+ [0,0.0387451)
+ [0,0.0623736)
+ [0,0.282169)
+ [0,0.126595)
+ [0,0.195722)
+ [0,0.0792212)
+ [0,0.149226)
+ [0,0.2286)
+ [0,0.197377)
+ [0,0.0651112)
+ [0,0.138674)
+ [0,0.147427)
+ [0,0.124774)
+ [0,0.293466)
+ [0,0.17493)
+ [0,0.131438)
+ [0,0.151643)
+ [0,0.208063)
+ [0,0.129741)
+ [0,0.127864)
+ [0,0.131638)
+ [0,0.0959033)
+ [0,0.150747)
+ [0,0.119187)
+ [0,0.0870489)
+ [0,0.165592)
+ [0,0.121955)
+ [0,0.1569)
+ [0,0.0433426)
+ [0,0.280629)
+ [0,0.0487061)
+ [0,0.0746054)
+ [0,0.0728647)
+ [0,0.0471186)
+ [0,0.0988752)
+ [0,0.111131)
+ [0,0.141823)
+ [0,0.249345)
+ [0,0.283881)
+ [0,0.0522132)
+ [0,0.157293)
+ [0,0.0496187)
+ [0,0.143151)
+ [0,0.135402)
+ [0,0.192733)
+ [0,0.057488)
+ [0,0.0311057)
+ [0,0.159282)
+ [0,0.109526)
+ [0,0.234112)
+ [0,0.084341)
+ [0,0.0593071)
+ [0,0.133033)
+ [0,0.240632)
+ [0,0.248879)
+ [0,0.134886)
+ [0,0.228917)
+ [0,0.249339)
+ [0,0.204544)
+ [0,0.048826)
+ [0,0.143085)
+ [0,0.231675)
+ [0,0.191661)
+ [0,0.0637053)
+ [0,0.0560443)
+ [0,0.142537)
+ [0,0.00367531)
+ [0,0.257997)
+ [0,0.037954)
+ [0,0.204208)
+ [0,0.201961)
+ [0,0.215759)
+ [0,0.162464)
+ [0,0.0692368)
+ [0,0.145725)
+ [0,0.205389)
+ [0,0.203812)
+ [0,0.15587)
+ [0,0.123527)
+ [0,0.108768)
+ [0,0.165314)
+ [0,0.0782455)
+ [0,0.0173134)
+ [0,0.176306)
+ [0,0.0741239)
+ [0,0.0831358)
+ [0,0.266592)
+ [0,0.0515157)
+ [0,0.223232)
+ [0,0.0120098)
+ [0,0.122089)
+ [0,0.147203)
+ [0,0.283562)
+ [0,0.304062)
+ [0,0.253227)
+ [0,0.164809)
+ [0,0.149017)
+ [0,0.133525)
+ [0,0.237571)
+ [0,0.0743236)
+ [0,0.0672609)
+ [0,0.218526)
+ [0,0.0559886)
+ [0,0.165907)
+ [0,0.0800348)
+ [0,0.192356)
+ [0,0.164815)
+ [0,0.142834)
+ [0,0.174172)
+ [0,0.0714516)
+ [0,0.227933)
+ [0,0.0702075)
+ [0,0.18428)
+ [0,0.0970981)
+ [0,0.133722)
+ [0,0.0753955)
+ [0,0.0884133)
+ [0,0.15244)
+ [0,0.157373)
+ [0,0.234969)
+ [0,0.173412)
+ [0,0.193791)
+ [0,0.147289)
+ [0,0.111798)
+ [0,0.277191)
+ [0,0.167455)
+ [0,0.189106)
+ [0,0.179609)
+ [0,0.297053)
+ [0,0.158413)
+ [0,0.165494)
+ [0,0.199673)
+ [0,0.227524)
+ [0,0.076909)
+ [0,0.332695)
+ [0,0.0802451)
+ [0,0.0994522)
+ [0,0.154095)
+ [0,0.274611)
+ [0,0.24348)
+ [0,0.207016)
+ [0,0.218561)
+ [0,0.270996)
+ [0,0.214018)
+ [0,0.323964)
+ [0,0.184757)
+ [0,0.193804)
+ [0,0.276431)
+ [0,0.175016)
+ [0,0.142152)
+ [0,0.0857401)
+ [0,0.207714)
+ [0,0.00391946)
+ [0,0.168587)
+ [0,0.192406)
+ [0,0.246491)
+ [0,0.148506)
+ [0,0.25725)
+ [0,0.165202)
+ [0,0.0814685)
+ [0,0.247042)
+ [0,0.0633425)
+ [0,0.253163)
+ [0,0.157251)
+ [0,0.285416)
+ [0,0.173586)
+ [0,0.210372)
+ [0,0.266635)
+ [0,0.316023)
+ [0,0.287316)
+ [0,0.264334)
+ [0,0.208851)
+ [0,0.277582)
+ [0,0.288591)
+ [0,0.231179)
+ [0,0.190642)
+ [0,0.24509)
+ [0,0.319493)
+ [0,0.207261)
+ [0,0.173684)
+ [0,0.264483)
+ [0,0.289189)
+ [0,0.23879)
+ [0,0.297933)
+ [0,0.268806)
+ [0, )
+persistence intervals in dim 1:
+ [0.542696,0.558863)
+ [0.531636,0.578093)
+ [0.530723,0.576869)
+ [0.463389,0.505345)
+ [0.445398,0.448892)
+ [0.443911,0.54761)
+ [0.431628,0.477277)
+ [0.413789,0.487379)
+ [0.412572,0.46308)
+ [0.411549,0.471715)
+ [0.409968,0.478461)
+ [0.386278,0.4922)
+ [0.381084,0.421374)
+ [0.377729,0.514046)
+ [0.377147,0.414788)
+ [0.377019,0.434385)
+ [0.374531,0.477153)
+ [0.370051,0.483155)
+ [0.361715,0.403181)
+ [0.354747,0.454956)
+ [0.352356,0.541947)
+ [0.350913,0.369543)
+ [0.35058,0.580726)
+ [0.347806,0.638039)
+ [0.347388,0.559978)
+ [0.344005,0.387193)
+ [0.34298,0.65758)
+ [0.339394,0.463666)
+ [0.33836,0.350411)
+ [0.33392,0.35111)
+ [0.33364,0.3797)
+ [0.331259,0.356381)
+ [0.329066,0.386148)
+ [0.324571,0.343083)
+ [0.324159,0.399094)
+ [0.322683,0.482958)
+ [0.318032,0.417462)
+ [0.317521,0.349622)
+ [0.316534,0.682559)
+ [0.309419,0.37151)
+ [0.309336,0.310216)
+ [0.308779,0.346297)
+ [0.304761,0.647803)
+ [0.301986,0.478334)
+ [0.301045,0.303943)
+ [0.29997,0.311993)
+ [0.298341,0.360737)
+ [0.279016,0.301331)
+ [0.2576,0.373749)
+ [0.253337,0.292286)
+ [0.24546,0.248903)
+ [0.240869,0.288747)
+ [0.189652,0.197515)
+persistence intervals in dim 2:
+ [0.720484,1.65562)
+        2.22 real         2.09 user         0.11 sys
+ 182439936  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+     44546  page reclaims
+         9  page faults
+         0  swaps
+         0  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+         1  voluntary context switches
+      1307  involuntary context switches
diff --git a/benchmarks/sphere_3_64/dionysus.txt b/benchmarks/sphere_3_64/dionysus.txt
new file mode 100644
index 0000000..52b879d
--- /dev/null
+++ b/benchmarks/sphere_3_64/dionysus.txt
@@ -0,0 +1,28 @@
+uli:Dionysus uli$ /usr/bin/time -l ~/Source/Dionysus/examples/cohomology/rips-pairwise-cohomology -s3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_64_points.dat 
+Boundary matrix: 
+Cocycles:        *.ccl
+Vertices:        
+Diagram:         
+Simplex vector generated, size: 679120
+
+0%   10   20   30   40   50   60   70   80   90   100%
+|----|----|----|----|----|----|----|----|----|----|
+***************************************************
+Rips timer : Elapsed time [3.01] seconds
+Persistence timer : Elapsed time [1.98] seconds
+Total timer : Elapsed time [5.85] seconds
+        5.94 real         5.85 user         0.05 sys
+  76812288  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+     18766  page reclaims
+         0  page faults
+         0  swaps
+         0  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+         0  voluntary context switches
+      2160  involuntary context switches
diff --git a/benchmarks/sphere_3_64/dipha.txt b/benchmarks/sphere_3_64/dipha.txt
new file mode 100644
index 0000000..67534d6
--- /dev/null
+++ b/benchmarks/sphere_3_64/dipha.txt
@@ -0,0 +1,58 @@
+uli:dipha uli$ /usr/bin/time -l ~/Bitbucket/dipha/dipha --benchmark --upper_dim 3 --dual ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_64.complex /dev/null
+
+Input filename: 
+/Users/uli/Bitbucket/phat-paper/benchmark/dipha/sphere_3_64.complex
+
+upper_dim: 3
+
+Number of processes used: 
+1
+
+Detailed information for rank 0:
+       time    prior mem     peak mem   bytes recv
+       0.0s         3 MB         3 MB         0 MB   complex.load_binary( input_filename, upper_dim );
+
+Number of cells in input: 
+679120
+       0.2s         3 MB        24 MB         0 MB   get_filtration_to_cell_map( complex, dualize, filtration_to_cell_map );
+       0.1s        24 MB        69 MB        10 MB   get_cell_to_filtration_map( complex.get_num_cells(), filtration_to_cell_map, cell_to_filtration_map );
+       0.0s        84 MB        85 MB         0 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+       0.0s        85 MB        85 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+       0.0s        85 MB        88 MB         1 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+       0.0s        88 MB        89 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+       0.3s        89 MB       122 MB        38 MB   generate_unreduced_columns( complex, filtration_to_cell_map, cell_to_filtration_map, cur_dim, dualize, unreduced_columns );
+       0.1s       102 MB       142 MB         0 MB   reduction_kernel( complex.get_num_cells(), unreduced_columns, reduced_columns );
+       0.1s       141 MB       142 MB         3 MB   dipha::outputs::save_persistence_diagram( output_filename, complex, filtration_to_cell_map, reduced_columns, dualize, upper_dim );
+
+Overall running time in seconds: 
+0.8
+
+Reduction kernel running time in seconds: 
+0.1
+
+Overall peak mem in GB of all ranks: 
+0.1
+
+Individual peak mem in GB of per rank: 
+0.1
+
+Maximal communication traffic (without sorting) in GB between any pair of nodes:
+0.1
+
+Total communication traffic (without sorting) in GB between all pairs of nodes:
+0.1
+        0.81 real         0.65 user         0.13 sys
+ 149577728  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+     51467  page reclaims
+         0  page faults
+         0  swaps
+         0  block input operations
+         1  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+         7  voluntary context switches
+      1069  involuntary context switches
diff --git a/benchmarks/sphere_3_64/gudhi.txt b/benchmarks/sphere_3_64/gudhi.txt
new file mode 100644
index 0000000..ee69c4a
--- /dev/null
+++ b/benchmarks/sphere_3_64/gudhi.txt
@@ -0,0 +1,18 @@
+uli:Gudhi_library_1.3.0 uli$ /usr/bin/time -l ~/Source/Gudhi_library_1.3.0/example/Persistent_cohomology/rips_persistence -d3 -p2 ~/Bitbucket/phat-paper/benchmark/point\ cloud/sphere_3_64_points.dat -o/dev/null
+The complex contains 679120 simplices 
+   and has dimension 3 
+        0.45 real         0.75 user         0.02 sys
+  37740544  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+      9124  page reclaims
+       122  page faults
+         0  swaps
+         1  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+        14  voluntary context switches
+      2324  involuntary context switches
diff --git a/benchmarks/sphere_3_64/phat.txt b/benchmarks/sphere_3_64/phat.txt
new file mode 100644
index 0000000..0dff324
--- /dev/null
+++ b/benchmarks/sphere_3_64/phat.txt
@@ -0,0 +1,17 @@
+uli:phat uli$ /usr/bin/time -l ~/Bitbucket/phat/benchmark --primal --bit_tree_pivot_column --twist ~/Bitbucket/phat-paper/benchmark/sphere_3_64_coboundary.phat
+/Users/uli/Bitbucket/phat-paper/benchmark/sphere_3_64_coboundary.phat, bit_tree_pivot_column, twist, primal, Reduction time: 0.019s
+        0.22 real         0.15 user         0.04 sys
+  47742976  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+     11669  page reclaims
+         2  page faults
+         0  swaps
+         2  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+         4  voluntary context switches
+       106  involuntary context switches
diff --git a/benchmarks/sphere_3_64/ripser.txt b/benchmarks/sphere_3_64/ripser.txt
new file mode 100644
index 0000000..016143d
--- /dev/null
+++ b/benchmarks/sphere_3_64/ripser.txt
@@ -0,0 +1,103 @@
+uli:ripser uli$ c++ -std=c++11 ripser.cpp -o ripser -Ofast -D NDEBUG -D FILE_FORMAT_DIPHA -D PRINT_PERSISTENCE_PAIRS && /usr/bin/time -l ./ripser --top_dim 2 ~/Bitbucket/phat-paper/benchmark/dipha/sphere_3_64.complex
+distance matrix with 64 points
+distance matrix transformed to lower triangular form
+value range: [0.00391946,1.99927]
+persistence intervals in dim 0:
+ [0,0.147289)
+ [0,0.111798)
+ [0,0.279354)
+ [0,0.379849)
+ [0,0.217485)
+ [0,0.179609)
+ [0,0.297053)
+ [0,0.227524)
+ [0,0.334523)
+ [0,0.205129)
+ [0,0.266643)
+ [0,0.076909)
+ [0,0.424333)
+ [0,0.0802451)
+ [0,0.141103)
+ [0,0.154095)
+ [0,0.280747)
+ [0,0.561426)
+ [0,0.255364)
+ [0,0.218561)
+ [0,0.344005)
+ [0,0.457212)
+ [0,0.339394)
+ [0,0.184757)
+ [0,0.193804)
+ [0,0.276431)
+ [0,0.276383)
+ [0,0.273482)
+ [0,0.162738)
+ [0,0.208851)
+ [0,0.00391946)
+ [0,0.168587)
+ [0,0.231288)
+ [0,0.370337)
+ [0,0.151879)
+ [0,0.336643)
+ [0,0.176636)
+ [0,0.0814685)
+ [0,0.287316)
+ [0,0.0633425)
+ [0,0.46675)
+ [0,0.169115)
+ [0,0.387245)
+ [0,0.354112)
+ [0,0.236525)
+ [0,0.377019)
+ [0,0.396994)
+ [0,0.58991)
+ [0,0.374531)
+ [0,0.374138)
+ [0,0.439977)
+ [0,0.487279)
+ [0,0.231179)
+ [0,0.200333)
+ [0,0.401576)
+ [0,0.574945)
+ [0,0.252863)
+ [0,0.173684)
+ [0,0.284319)
+ [0,0.355419)
+ [0,0.23879)
+ [0,0.381084)
+ [0,0.532104)
+ [0, )
+persistence intervals in dim 1:
+ [0.84172,1.04196)
+ [0.763446,0.863406)
+ [0.727244,0.74155)
+ [0.708398,0.757279)
+ [0.655113,0.849319)
+ [0.62495,0.753672)
+ [0.60904,0.682559)
+ [0.607973,0.672219)
+ [0.606907,0.829538)
+ [0.588045,1.04527)
+ [0.57698,0.769491)
+ [0.559498,0.586113)
+ [0.525224,0.645181)
+ [0.445398,0.448892)
+ [0.412572,0.478334)
+ [0.376457,0.63549)
+persistence intervals in dim 2:
+ [1.10328,1.67029)
+        0.05 real         0.05 user         0.00 sys
+   4300800  maximum resident set size
+         0  average shared memory size
+         0  average unshared data size
+         0  average unshared stack size
+      1054  page reclaims
+         9  page faults
+         0  swaps
+         0  block input operations
+         0  block output operations
+         0  messages sent
+         0  messages received
+         0  signals received
+         1  voluntary context switches
+        10  involuntary context switches