From 9ed0e2ee34fcf1f9222cff0a5d35dfcb483e740d Mon Sep 17 00:00:00 2001
From: voigta80 <aiko.voigt@univie.ac.at>
Date: Thu, 9 Jun 2022 22:37:26 +0200
Subject: [PATCH] New Benchmarks on DKRZ Levante HPC system, including
benachmarks for alternative methods with own bfs and networkx graph search
---
...G.benchmark_2d.run.747127.o_keep4reference | 601 ++++++++++++++++++
...G.benchmark_3d.run.747079.o_keep4reference | 302 +++++++++
.../levante/LOG.benchmark_3d.run.751637.o | 32 +
...ve_networkx_2d.run.749664.o_keep4reference | 527 +++++++++++++++
...lternative_networkx_fullgraph.run.747768.o | 601 ++++++++++++++++++
...ive_own-bfs_2d.run.751540.o_keep4reference | 347 ++++++++++
...ark_cubulation.run.746325.o_keep4reference | 249 ++++++++
...ark_cubulation.run.746956.o_keep4reference | 18 +
benchmarks/levante/README_benchmarks.txt | 18 +
benchmarks/levante/benchmark_2d.py | 75 +++
benchmarks/levante/benchmark_2d.run | 34 +
benchmarks/levante/benchmark_3d.py | 75 +++
benchmarks/levante/benchmark_3d.run | 34 +
.../benchmark_alternative_networkx_2d.py | 69 ++
.../benchmark_alternative_networkx_2d.run | 34 +
...enchmark_alternative_networkx_fullgraph.py | 61 ++
...nchmark_alternative_networkx_fullgraph.run | 38 ++
.../benchmark_alternative_own-bfs_2d.py | 66 ++
.../benchmark_alternative_own-bfs_2d.run | 35 +
benchmarks/levante/benchmark_cubulation.py | 40 ++
benchmarks/levante/benchmark_cubulation.run | 40 ++
21 files changed, 3296 insertions(+)
create mode 100644 benchmarks/levante/LOG.benchmark_2d.run.747127.o_keep4reference
create mode 100644 benchmarks/levante/LOG.benchmark_3d.run.747079.o_keep4reference
create mode 100644 benchmarks/levante/LOG.benchmark_3d.run.751637.o
create mode 100644 benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.749664.o_keep4reference
create mode 100644 benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.747768.o
create mode 100644 benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.751540.o_keep4reference
create mode 100644 benchmarks/levante/LOG.benchmark_cubulation.run.746325.o_keep4reference
create mode 100644 benchmarks/levante/LOG.benchmark_cubulation.run.746956.o_keep4reference
create mode 100644 benchmarks/levante/README_benchmarks.txt
create mode 100644 benchmarks/levante/benchmark_2d.py
create mode 100755 benchmarks/levante/benchmark_2d.run
create mode 100644 benchmarks/levante/benchmark_3d.py
create mode 100755 benchmarks/levante/benchmark_3d.run
create mode 100644 benchmarks/levante/benchmark_alternative_networkx_2d.py
create mode 100755 benchmarks/levante/benchmark_alternative_networkx_2d.run
create mode 100644 benchmarks/levante/benchmark_alternative_networkx_fullgraph.py
create mode 100755 benchmarks/levante/benchmark_alternative_networkx_fullgraph.run
create mode 100644 benchmarks/levante/benchmark_alternative_own-bfs_2d.py
create mode 100755 benchmarks/levante/benchmark_alternative_own-bfs_2d.run
create mode 100644 benchmarks/levante/benchmark_cubulation.py
create mode 100755 benchmarks/levante/benchmark_cubulation.run
diff --git a/benchmarks/levante/LOG.benchmark_2d.run.747127.o_keep4reference b/benchmarks/levante/LOG.benchmark_2d.run.747127.o_keep4reference
new file mode 100644
index 0000000..eb5ebdc
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_2d.run.747127.o_keep4reference
@@ -0,0 +1,601 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.047320 Min: 0:00:00.043995 Max: 0:00:00.114548
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026357 Min: 0:00:00.026131 Max: 0:00:00.028518
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026295 Min: 0:00:00.026062 Max: 0:00:00.026704
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043832 Min: 0:00:00.041656 Max: 0:00:00.114302
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026357 Min: 0:00:00.026118 Max: 0:00:00.026737
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026321 Min: 0:00:00.026132 Max: 0:00:00.026791
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043376 Min: 0:00:00.041299 Max: 0:00:00.105824
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026362 Min: 0:00:00.026138 Max: 0:00:00.026840
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026353 Min: 0:00:00.026125 Max: 0:00:00.027030
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.044481 Min: 0:00:00.041525 Max: 0:00:00.155646
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026320 Min: 0:00:00.026135 Max: 0:00:00.026892
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026304 Min: 0:00:00.026056 Max: 0:00:00.026688
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043348 Min: 0:00:00.041442 Max: 0:00:00.102656
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026445 Min: 0:00:00.026229 Max: 0:00:00.026840
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026415 Min: 0:00:00.026174 Max: 0:00:00.026732
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043342 Min: 0:00:00.041262 Max: 0:00:00.111672
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026325 Min: 0:00:00.026071 Max: 0:00:00.026795
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026296 Min: 0:00:00.026029 Max: 0:00:00.026697
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043355 Min: 0:00:00.041226 Max: 0:00:00.105673
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026364 Min: 0:00:00.026152 Max: 0:00:00.026757
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026360 Min: 0:00:00.026146 Max: 0:00:00.026684
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043154 Min: 0:00:00.041351 Max: 0:00:00.101264
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026327 Min: 0:00:00.026143 Max: 0:00:00.027000
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026321 Min: 0:00:00.026089 Max: 0:00:00.026684
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043797 Min: 0:00:00.041480 Max: 0:00:00.114416
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026418 Min: 0:00:00.026218 Max: 0:00:00.026913
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026385 Min: 0:00:00.026193 Max: 0:00:00.026780
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.043587 Min: 0:00:00.041536 Max: 0:00:00.110491
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.026409 Min: 0:00:00.026209 Max: 0:00:00.026857
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.026396 Min: 0:00:00.026150 Max: 0:00:00.026761
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.086876 Min: 0:00:00.083716 Max: 0:00:00.148860
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120251 Min: 0:00:00.118819 Max: 0:00:00.122146
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.120001 Min: 0:00:00.118913 Max: 0:00:00.123222
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.082221 Min: 0:00:00.079998 Max: 0:00:00.150464
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120045 Min: 0:00:00.119099 Max: 0:00:00.122321
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119730 Min: 0:00:00.118745 Max: 0:00:00.121451
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.082142 Min: 0:00:00.079778 Max: 0:00:00.139940
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.119994 Min: 0:00:00.118595 Max: 0:00:00.122324
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119737 Min: 0:00:00.118278 Max: 0:00:00.122069
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.081682 Min: 0:00:00.079599 Max: 0:00:00.142190
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.119918 Min: 0:00:00.118771 Max: 0:00:00.122278
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119664 Min: 0:00:00.118594 Max: 0:00:00.121499
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.081639 Min: 0:00:00.079647 Max: 0:00:00.142430
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120026 Min: 0:00:00.118707 Max: 0:00:00.124638
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119644 Min: 0:00:00.118228 Max: 0:00:00.121616
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.082031 Min: 0:00:00.079633 Max: 0:00:00.140319
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.119991 Min: 0:00:00.117654 Max: 0:00:00.122225
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119696 Min: 0:00:00.118151 Max: 0:00:00.121731
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.081793 Min: 0:00:00.079916 Max: 0:00:00.140066
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120158 Min: 0:00:00.118923 Max: 0:00:00.122610
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119885 Min: 0:00:00.118294 Max: 0:00:00.122226
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.081617 Min: 0:00:00.079618 Max: 0:00:00.140498
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120136 Min: 0:00:00.118974 Max: 0:00:00.122146
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119740 Min: 0:00:00.118649 Max: 0:00:00.121515
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.081600 Min: 0:00:00.079774 Max: 0:00:00.141666
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.120315 Min: 0:00:00.118381 Max: 0:00:00.123096
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119889 Min: 0:00:00.118491 Max: 0:00:00.122512
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.083550 Min: 0:00:00.079797 Max: 0:00:00.140989
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.119979 Min: 0:00:00.118829 Max: 0:00:00.121787
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.119701 Min: 0:00:00.118665 Max: 0:00:00.121487
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.248993 Min: 0:00:00.242487 Max: 0:00:00.343059
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.565420 Min: 0:00:00.560424 Max: 0:00:00.571002
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559877 Min: 0:00:00.556261 Max: 0:00:00.566578
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.240896 Min: 0:00:00.238575 Max: 0:00:00.299787
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.564505 Min: 0:00:00.559685 Max: 0:00:00.569732
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.560047 Min: 0:00:00.555944 Max: 0:00:00.565517
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.239918 Min: 0:00:00.236584 Max: 0:00:00.313157
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.563039 Min: 0:00:00.558598 Max: 0:00:00.569434
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.558889 Min: 0:00:00.551159 Max: 0:00:00.563753
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.239904 Min: 0:00:00.237160 Max: 0:00:00.297591
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.564326 Min: 0:00:00.557974 Max: 0:00:00.569930
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559838 Min: 0:00:00.553644 Max: 0:00:00.566298
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.242186 Min: 0:00:00.238258 Max: 0:00:00.311362
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.563785 Min: 0:00:00.559071 Max: 0:00:00.573120
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559567 Min: 0:00:00.553098 Max: 0:00:00.565477
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.240152 Min: 0:00:00.236548 Max: 0:00:00.295008
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.563592 Min: 0:00:00.555999 Max: 0:00:00.570654
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559941 Min: 0:00:00.552921 Max: 0:00:00.565393
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.241033 Min: 0:00:00.237286 Max: 0:00:00.296662
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.563550 Min: 0:00:00.555494 Max: 0:00:00.569942
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559474 Min: 0:00:00.553977 Max: 0:00:00.564803
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.239408 Min: 0:00:00.236497 Max: 0:00:00.295802
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.564465 Min: 0:00:00.556984 Max: 0:00:00.571663
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.560481 Min: 0:00:00.556106 Max: 0:00:00.567982
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.242380 Min: 0:00:00.238510 Max: 0:00:00.313454
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.565398 Min: 0:00:00.560672 Max: 0:00:00.573106
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.560636 Min: 0:00:00.556841 Max: 0:00:00.566223
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.240489 Min: 0:00:00.236581 Max: 0:00:00.297916
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.563254 Min: 0:00:00.558367 Max: 0:00:00.568390
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.559185 Min: 0:00:00.551149 Max: 0:00:00.565915
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.942997 Min: 0:00:00.901510 Max: 0:00:01.011932
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.950367 Min: 0:00:02.929327 Max: 0:00:02.976625
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.922217 Min: 0:00:02.903179 Max: 0:00:02.989015
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.912123 Min: 0:00:00.894005 Max: 0:00:00.959509
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.949048 Min: 0:00:02.915397 Max: 0:00:02.983371
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.919732 Min: 0:00:02.893121 Max: 0:00:02.974154
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.911638 Min: 0:00:00.896745 Max: 0:00:00.957949
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.958006 Min: 0:00:02.941926 Max: 0:00:02.987353
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.925632 Min: 0:00:02.894848 Max: 0:00:02.988890
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.912436 Min: 0:00:00.897848 Max: 0:00:00.959407
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.949593 Min: 0:00:02.926406 Max: 0:00:02.982023
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.921913 Min: 0:00:02.896419 Max: 0:00:02.988853
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.913460 Min: 0:00:00.901392 Max: 0:00:00.988340
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.951688 Min: 0:00:02.931261 Max: 0:00:02.983837
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.924034 Min: 0:00:02.896291 Max: 0:00:02.987492
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.914274 Min: 0:00:00.900104 Max: 0:00:01.010834
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.945117 Min: 0:00:02.924568 Max: 0:00:03.004134
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.917497 Min: 0:00:02.886215 Max: 0:00:02.974862
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.917887 Min: 0:00:00.904314 Max: 0:00:00.965166
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.937626 Min: 0:00:02.919860 Max: 0:00:02.970822
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.910161 Min: 0:00:02.877796 Max: 0:00:02.981398
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.914191 Min: 0:00:00.903073 Max: 0:00:00.968722
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.940000 Min: 0:00:02.919315 Max: 0:00:02.971981
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.909861 Min: 0:00:02.887162 Max: 0:00:02.968110
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.913549 Min: 0:00:00.903843 Max: 0:00:00.985015
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.942008 Min: 0:00:02.926134 Max: 0:00:02.978559
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.916714 Min: 0:00:02.891426 Max: 0:00:02.968422
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851
+
+Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps
+Mean: 0:00:00.919734 Min: 0:00:00.910794 Max: 0:00:00.963469
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.945365 Min: 0:00:02.922801 Max: 0:00:02.986674
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.919960 Min: 0:00:02.886660 Max: 0:00:02.985583
+-----------------------------------------
+
diff --git a/benchmarks/levante/LOG.benchmark_3d.run.747079.o_keep4reference b/benchmarks/levante/LOG.benchmark_3d.run.747079.o_keep4reference
new file mode 100644
index 0000000..9940eb1
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_3d.run.747079.o_keep4reference
@@ -0,0 +1,302 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.535750 Min: 0:00:00.517967 Max: 0:00:00.682055
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.461868 Min: 0:00:02.213415 Max: 0:00:02.996483
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.596718 Min: 0:00:03.032847 Max: 0:00:04.146725
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.500299 Min: 0:00:00.488426 Max: 0:00:00.549402
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.460177 Min: 0:00:02.215961 Max: 0:00:02.632500
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.612960 Min: 0:00:03.044926 Max: 0:00:04.171119
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.502022 Min: 0:00:00.488250 Max: 0:00:00.596184
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.451203 Min: 0:00:02.202592 Max: 0:00:02.638859
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.589344 Min: 0:00:03.023057 Max: 0:00:04.124934
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.503920 Min: 0:00:00.487918 Max: 0:00:00.563472
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.461172 Min: 0:00:02.220959 Max: 0:00:02.640697
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.612458 Min: 0:00:03.058838 Max: 0:00:04.167065
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.498511 Min: 0:00:00.488583 Max: 0:00:00.551391
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.460940 Min: 0:00:02.207428 Max: 0:00:02.643056
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.615491 Min: 0:00:03.043130 Max: 0:00:04.164490
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.501410 Min: 0:00:00.489711 Max: 0:00:00.552201
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.466363 Min: 0:00:02.208368 Max: 0:00:02.657631
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.623671 Min: 0:00:03.062377 Max: 0:00:04.163099
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.502821 Min: 0:00:00.489227 Max: 0:00:00.591412
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.450250 Min: 0:00:02.205727 Max: 0:00:02.624062
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.591842 Min: 0:00:03.038374 Max: 0:00:04.136704
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.501403 Min: 0:00:00.483623 Max: 0:00:00.555264
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.463470 Min: 0:00:02.208780 Max: 0:00:02.635418
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.613788 Min: 0:00:03.034784 Max: 0:00:04.166258
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.499750 Min: 0:00:00.487207 Max: 0:00:00.549522
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.452134 Min: 0:00:02.204172 Max: 0:00:02.621148
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.589437 Min: 0:00:03.029388 Max: 0:00:04.138749
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:00.503690 Min: 0:00:00.492763 Max: 0:00:00.554745
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:02.461718 Min: 0:00:02.197609 Max: 0:00:02.623865
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.617492 Min: 0:00:03.044749 Max: 0:00:04.148657
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.222402 Min: 0:00:02.162641 Max: 0:00:02.356888
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.416466 Min: 0:00:12.638005 Max: 0:00:15.012370
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.238612 Min: 0:00:20.573302 Max: 0:00:26.534214
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.144807 Min: 0:00:02.090139 Max: 0:00:02.234652
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.645246 Min: 0:00:12.889619 Max: 0:00:15.005168
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.671954 Min: 0:00:20.605765 Max: 0:00:26.666961
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.172154 Min: 0:00:02.098948 Max: 0:00:02.286438
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.475069 Min: 0:00:12.719189 Max: 0:00:15.021886
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.309563 Min: 0:00:20.555991 Max: 0:00:26.938205
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.162284 Min: 0:00:02.065776 Max: 0:00:02.358929
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.791673 Min: 0:00:13.086043 Max: 0:00:15.229221
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:24.168254 Min: 0:00:21.707488 Max: 0:00:26.981946
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.146291 Min: 0:00:02.068489 Max: 0:00:02.256504
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.712717 Min: 0:00:13.075472 Max: 0:00:14.940259
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.958047 Min: 0:00:21.258645 Max: 0:00:26.384655
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.161345 Min: 0:00:02.112435 Max: 0:00:02.273305
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.624135 Min: 0:00:12.719761 Max: 0:00:14.967970
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.662116 Min: 0:00:20.799698 Max: 0:00:26.682480
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.153616 Min: 0:00:02.098074 Max: 0:00:02.304156
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.610278 Min: 0:00:12.882927 Max: 0:00:15.194167
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.589964 Min: 0:00:20.845030 Max: 0:00:26.894504
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.156000 Min: 0:00:02.062193 Max: 0:00:02.506010
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.559722 Min: 0:00:12.764988 Max: 0:00:14.988539
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.535266 Min: 0:00:20.739622 Max: 0:00:26.730193
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.155097 Min: 0:00:02.073952 Max: 0:00:02.296683
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.524773 Min: 0:00:12.787725 Max: 0:00:15.002734
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.478686 Min: 0:00:20.756563 Max: 0:00:26.722402
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:02.257416 Min: 0:00:02.119760 Max: 0:00:05.992388
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.516342 Min: 0:00:12.794992 Max: 0:00:15.076415
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:23.394264 Min: 0:00:20.719419 Max: 0:00:26.591482
+-----------------------------------------
+
+slurmstepd: error: *** JOB 747079 ON l10408 CANCELLED AT 2022-06-08T17:45:48 DUE TO TIME LIMIT ***
diff --git a/benchmarks/levante/LOG.benchmark_3d.run.751637.o b/benchmarks/levante/LOG.benchmark_3d.run.751637.o
new file mode 100644
index 0000000..5a00caa
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_3d.run.751637.o
@@ -0,0 +1,32 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:08.663333 Min: 0:00:08.371023 Max: 0:00:09.290834
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:01:11.615940 Min: 0:01:06.874768 Max: 0:01:17.175754
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:02:08.855469 Min: 0:01:54.830939 Max: 0:02:24.150054
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423
+
+Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps
+Mean: 0:00:08.680939 Min: 0:00:08.432455 Max: 0:00:08.965579
+
+Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:01:12.289938 Min: 0:01:06.763456 Max: 0:01:17.665073
+
+Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps
+Mean: 0:02:10.517065 Min: 0:01:56.548499 Max: 0:02:25.360460
+-----------------------------------------
+
+slurmstepd: error: *** JOB 751637 ON l20112 CANCELLED AT 2022-06-09T06:10:48 DUE TO TIME LIMIT ***
diff --git a/benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.749664.o_keep4reference b/benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.749664.o_keep4reference
new file mode 100644
index 0000000..6f4d981
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.749664.o_keep4reference
@@ -0,0 +1,527 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.081820 Min: 0:00:00.047529 Max: 0:00:00.264090
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.805640 Min: 0:00:00.783459 Max: 0:00:00.901563
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.127721 Min: 0:00:00.121273 Max: 0:00:00.206510
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030251 Min: 0:00:00.028255 Max: 0:00:00.094703
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.796103 Min: 0:00:00.773235 Max: 0:00:00.858672
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.125734 Min: 0:00:00.120991 Max: 0:00:00.185817
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030051 Min: 0:00:00.028114 Max: 0:00:00.088003
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.796945 Min: 0:00:00.774563 Max: 0:00:00.858161
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.125658 Min: 0:00:00.120780 Max: 0:00:00.187135
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030564 Min: 0:00:00.028601 Max: 0:00:00.099240
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.794550 Min: 0:00:00.776462 Max: 0:00:00.856754
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.125262 Min: 0:00:00.119936 Max: 0:00:00.191910
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030385 Min: 0:00:00.028121 Max: 0:00:00.100671
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.797181 Min: 0:00:00.774028 Max: 0:00:00.856112
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.126107 Min: 0:00:00.120602 Max: 0:00:00.186513
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030533 Min: 0:00:00.028174 Max: 0:00:00.103609
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.797274 Min: 0:00:00.774659 Max: 0:00:00.860707
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.126146 Min: 0:00:00.120627 Max: 0:00:00.186036
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030398 Min: 0:00:00.028227 Max: 0:00:00.099375
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.801063 Min: 0:00:00.781720 Max: 0:00:00.862974
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.126552 Min: 0:00:00.121076 Max: 0:00:00.187250
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030522 Min: 0:00:00.028383 Max: 0:00:00.095987
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.796011 Min: 0:00:00.773143 Max: 0:00:00.856871
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.125863 Min: 0:00:00.120458 Max: 0:00:00.186104
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.031158 Min: 0:00:00.028136 Max: 0:00:00.100363
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.794615 Min: 0:00:00.772052 Max: 0:00:00.859756
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.125301 Min: 0:00:00.120061 Max: 0:00:00.185629
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.030223 Min: 0:00:00.028211 Max: 0:00:00.089406
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:00.797848 Min: 0:00:00.767500 Max: 0:00:00.864189
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.126675 Min: 0:00:00.121254 Max: 0:00:00.188726
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.085107 Min: 0:00:00.052466 Max: 0:00:00.176035
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.236985 Min: 0:00:03.147133 Max: 0:00:03.318931
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.541530 Min: 0:00:00.503584 Max: 0:00:00.614426
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.041476 Min: 0:00:00.029106 Max: 0:00:00.153930
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.223865 Min: 0:00:03.130315 Max: 0:00:03.319206
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.543750 Min: 0:00:00.505805 Max: 0:00:00.611902
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.041362 Min: 0:00:00.029249 Max: 0:00:00.173021
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.254399 Min: 0:00:03.118393 Max: 0:00:03.460348
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.548825 Min: 0:00:00.507181 Max: 0:00:00.703701
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.040561 Min: 0:00:00.028954 Max: 0:00:00.120603
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.233354 Min: 0:00:03.169897 Max: 0:00:03.343131
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.543019 Min: 0:00:00.504631 Max: 0:00:00.614959
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.041244 Min: 0:00:00.029268 Max: 0:00:00.129730
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.237554 Min: 0:00:03.171983 Max: 0:00:03.340029
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.550272 Min: 0:00:00.506811 Max: 0:00:00.627759
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.040004 Min: 0:00:00.029040 Max: 0:00:00.119898
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.224093 Min: 0:00:03.145580 Max: 0:00:03.333742
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.543418 Min: 0:00:00.502876 Max: 0:00:00.614001
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.039875 Min: 0:00:00.029064 Max: 0:00:00.119074
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.259085 Min: 0:00:03.178278 Max: 0:00:03.348211
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.546120 Min: 0:00:00.506183 Max: 0:00:00.616407
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.039719 Min: 0:00:00.028817 Max: 0:00:00.118830
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.227346 Min: 0:00:03.155616 Max: 0:00:03.313618
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.544065 Min: 0:00:00.506515 Max: 0:00:00.613994
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.040196 Min: 0:00:00.029070 Max: 0:00:00.118166
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.206644 Min: 0:00:03.111727 Max: 0:00:03.329257
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.538914 Min: 0:00:00.496481 Max: 0:00:00.614900
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.040461 Min: 0:00:00.029201 Max: 0:00:00.121401
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:03.168182 Min: 0:00:03.109265 Max: 0:00:03.256546
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.533458 Min: 0:00:00.496549 Max: 0:00:00.604193
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.091878 Min: 0:00:00.057150 Max: 0:00:00.191525
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.346439 Min: 0:00:12.730507 Max: 0:00:13.842094
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.529951 Min: 0:00:02.151884 Max: 0:00:03.096736
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.051898 Min: 0:00:00.032659 Max: 0:00:00.624930
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:12.896380 Min: 0:00:12.546156 Max: 0:00:13.320134
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.263937 Min: 0:00:02.038409 Max: 0:00:02.598713
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.035456 Min: 0:00:00.032296 Max: 0:00:00.099456
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.126550 Min: 0:00:12.790223 Max: 0:00:13.468212
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.296527 Min: 0:00:02.069685 Max: 0:00:02.623507
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.038456 Min: 0:00:00.032476 Max: 0:00:00.122300
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.132339 Min: 0:00:12.754484 Max: 0:00:13.449913
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.304827 Min: 0:00:02.067787 Max: 0:00:02.637528
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.036226 Min: 0:00:00.032493 Max: 0:00:00.126833
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.019726 Min: 0:00:12.641908 Max: 0:00:13.695439
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.282477 Min: 0:00:02.059785 Max: 0:00:02.589111
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.038703 Min: 0:00:00.032774 Max: 0:00:00.118866
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.207991 Min: 0:00:12.709365 Max: 0:00:13.985346
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.350097 Min: 0:00:02.062194 Max: 0:00:03.073188
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.036051 Min: 0:00:00.032652 Max: 0:00:00.098571
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.176232 Min: 0:00:12.808397 Max: 0:00:13.551201
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.333552 Min: 0:00:02.070007 Max: 0:00:02.696524
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.037697 Min: 0:00:00.033032 Max: 0:00:00.120227
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:13.118187 Min: 0:00:12.724527 Max: 0:00:13.486222
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.330586 Min: 0:00:02.065182 Max: 0:00:02.698974
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.038041 Min: 0:00:00.032120 Max: 0:00:00.143508
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:12.912510 Min: 0:00:12.491811 Max: 0:00:13.289656
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.273914 Min: 0:00:02.045226 Max: 0:00:02.591381
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.035560 Min: 0:00:00.031966 Max: 0:00:00.108263
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:12.833858 Min: 0:00:12.476455 Max: 0:00:13.222013
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.258210 Min: 0:00:02.036265 Max: 0:00:02.582586
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R10000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.099866 Min: 0:00:00.060396 Max: 0:00:00.212667
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:52.590933 Min: 0:00:51.620461 Max: 0:00:55.588499
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:09.750767 Min: 0:00:09.158301 Max: 0:00:12.538121
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R10000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.059003 Min: 0:00:00.033553 Max: 0:00:00.181322
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:54.040862 Min: 0:00:52.132674 Max: 0:00:56.020196
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:10.640899 Min: 0:00:09.258358 Max: 0:00:12.239533
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R10000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.047771 Min: 0:00:00.032754 Max: 0:00:00.151808
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:53.047300 Min: 0:00:52.169536 Max: 0:00:54.102341
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:09.693203 Min: 0:00:09.278759 Max: 0:00:10.453948
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R10000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:01.030742 Min: 0:00:00.032765 Max: 0:00:48.210146
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:56.637038 Min: 0:00:51.761244 Max: 0:03:15.211394
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:10.496615 Min: 0:00:09.257741 Max: 0:00:12.502641
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative for 2d connected component labeling
+Working on resolution of R10000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.048046 Min: 0:00:00.033222 Max: 0:00:00.128933
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:54.170224 Min: 0:00:51.883226 Max: 0:00:56.162972
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:10.761857 Min: 0:00:09.223069 Max: 0:00:12.543978
+-----------------------------------------
+
+slurmstepd: error: *** JOB 749664 ON l40650 CANCELLED AT 2022-06-09T00:14:45 DUE TO TIME LIMIT ***
diff --git a/benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.747768.o b/benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.747768.o
new file mode 100644
index 0000000..758ce64
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.747768.o
@@ -0,0 +1,601 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.133598 Min: 0:00:00.133598 Max: 0:00:00.133598
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.622183 Min: 0:00:02.622183 Max: 0:00:02.622183
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.563298 Min: 0:00:01.563298 Max: 0:00:01.563298
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.104277 Min: 0:00:00.104277 Max: 0:00:00.104277
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.603408 Min: 0:00:02.603408 Max: 0:00:02.603408
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.560256 Min: 0:00:01.560256 Max: 0:00:01.560256
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.105093 Min: 0:00:00.105093 Max: 0:00:00.105093
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.638113 Min: 0:00:02.638113 Max: 0:00:02.638113
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.555929 Min: 0:00:01.555929 Max: 0:00:01.555929
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.104986 Min: 0:00:00.104986 Max: 0:00:00.104986
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.608029 Min: 0:00:02.608029 Max: 0:00:02.608029
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.576113 Min: 0:00:01.576113 Max: 0:00:01.576113
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.103611 Min: 0:00:00.103611 Max: 0:00:00.103611
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.624511 Min: 0:00:02.624511 Max: 0:00:02.624511
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.592776 Min: 0:00:01.592776 Max: 0:00:01.592776
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.103860 Min: 0:00:00.103860 Max: 0:00:00.103860
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.592279 Min: 0:00:02.592279 Max: 0:00:02.592279
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.561453 Min: 0:00:01.561453 Max: 0:00:01.561453
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.103943 Min: 0:00:00.103943 Max: 0:00:00.103943
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.631848 Min: 0:00:02.631848 Max: 0:00:02.631848
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.611960 Min: 0:00:01.611960 Max: 0:00:01.611960
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.101206 Min: 0:00:00.101206 Max: 0:00:00.101206
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.593808 Min: 0:00:02.593808 Max: 0:00:02.593808
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.541156 Min: 0:00:01.541156 Max: 0:00:01.541156
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.104249 Min: 0:00:00.104249 Max: 0:00:00.104249
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.632068 Min: 0:00:02.632068 Max: 0:00:02.632068
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.633528 Min: 0:00:01.633528 Max: 0:00:01.633528
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R80000m
+
+Time to prepare grid:
+Mean: 0:00:00.110508 Min: 0:00:00.110508 Max: 0:00:00.110508
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:02.619709 Min: 0:00:02.619709 Max: 0:00:02.619709
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:01.553270 Min: 0:00:01.553270 Max: 0:00:01.553270
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.180463 Min: 0:00:00.180463 Max: 0:00:00.180463
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.902751 Min: 0:00:10.902751 Max: 0:00:10.902751
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.678449 Min: 0:00:07.678449 Max: 0:00:07.678449
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.104843 Min: 0:00:00.104843 Max: 0:00:00.104843
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.944180 Min: 0:00:10.944180 Max: 0:00:10.944180
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.765273 Min: 0:00:07.765273 Max: 0:00:07.765273
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.102913 Min: 0:00:00.102913 Max: 0:00:00.102913
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.996426 Min: 0:00:10.996426 Max: 0:00:10.996426
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.825530 Min: 0:00:07.825530 Max: 0:00:07.825530
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.103063 Min: 0:00:00.103063 Max: 0:00:00.103063
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.997366 Min: 0:00:10.997366 Max: 0:00:10.997366
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.544013 Min: 0:00:07.544013 Max: 0:00:07.544013
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.105627 Min: 0:00:00.105627 Max: 0:00:00.105627
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.977819 Min: 0:00:10.977819 Max: 0:00:10.977819
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.737505 Min: 0:00:07.737505 Max: 0:00:07.737505
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.131263 Min: 0:00:00.131263 Max: 0:00:00.131263
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.972198 Min: 0:00:10.972198 Max: 0:00:10.972198
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.556434 Min: 0:00:07.556434 Max: 0:00:07.556434
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.135607 Min: 0:00:00.135607 Max: 0:00:00.135607
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:11.110348 Min: 0:00:11.110348 Max: 0:00:11.110348
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.901840 Min: 0:00:07.901840 Max: 0:00:07.901840
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.178661 Min: 0:00:00.178661 Max: 0:00:00.178661
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.878930 Min: 0:00:10.878930 Max: 0:00:10.878930
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.467142 Min: 0:00:07.467142 Max: 0:00:07.467142
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.138170 Min: 0:00:00.138170 Max: 0:00:00.138170
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:11.002104 Min: 0:00:11.002104 Max: 0:00:11.002104
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.555005 Min: 0:00:07.555005 Max: 0:00:07.555005
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R40000m
+
+Time to prepare grid:
+Mean: 0:00:00.123494 Min: 0:00:00.123494 Max: 0:00:00.123494
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:10.958492 Min: 0:00:10.958492 Max: 0:00:10.958492
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:07.574178 Min: 0:00:07.574178 Max: 0:00:07.574178
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.160745 Min: 0:00:00.160745 Max: 0:00:00.160745
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.269971 Min: 0:00:48.269971 Max: 0:00:48.269971
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.757054 Min: 0:00:46.757054 Max: 0:00:46.757054
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.106532 Min: 0:00:00.106532 Max: 0:00:00.106532
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.266459 Min: 0:00:48.266459 Max: 0:00:48.266459
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.670455 Min: 0:00:46.670455 Max: 0:00:46.670455
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.125804 Min: 0:00:00.125804 Max: 0:00:00.125804
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.537878 Min: 0:00:48.537878 Max: 0:00:48.537878
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:47.276220 Min: 0:00:47.276220 Max: 0:00:47.276220
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.108873 Min: 0:00:00.108873 Max: 0:00:00.108873
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.226383 Min: 0:00:48.226383 Max: 0:00:48.226383
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.530420 Min: 0:00:46.530420 Max: 0:00:46.530420
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.110277 Min: 0:00:00.110277 Max: 0:00:00.110277
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.225212 Min: 0:00:48.225212 Max: 0:00:48.225212
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.604124 Min: 0:00:46.604124 Max: 0:00:46.604124
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.107298 Min: 0:00:00.107298 Max: 0:00:00.107298
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.022387 Min: 0:00:48.022387 Max: 0:00:48.022387
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.283012 Min: 0:00:46.283012 Max: 0:00:46.283012
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.108644 Min: 0:00:00.108644 Max: 0:00:00.108644
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.266554 Min: 0:00:48.266554 Max: 0:00:48.266554
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.613933 Min: 0:00:46.613933 Max: 0:00:46.613933
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.105705 Min: 0:00:00.105705 Max: 0:00:00.105705
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:47.948534 Min: 0:00:47.948534 Max: 0:00:47.948534
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.342517 Min: 0:00:46.342517 Max: 0:00:46.342517
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.106413 Min: 0:00:00.106413 Max: 0:00:00.106413
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.187350 Min: 0:00:48.187350 Max: 0:00:48.187350
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.556154 Min: 0:00:46.556154 Max: 0:00:46.556154
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R20000m
+
+Time to prepare grid:
+Mean: 0:00:00.106385 Min: 0:00:00.106385 Max: 0:00:00.106385
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:00:48.137511 Min: 0:00:48.137511 Max: 0:00:48.137511
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:00:46.854065 Min: 0:00:46.854065 Max: 0:00:46.854065
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.314771 Min: 0:00:00.314771 Max: 0:00:00.314771
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:15.909900 Min: 0:04:15.909900 Max: 0:04:15.909900
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:12.061882 Min: 0:07:12.061882 Max: 0:07:12.061882
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.289721 Min: 0:00:00.289721 Max: 0:00:00.289721
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:16.217630 Min: 0:04:16.217630 Max: 0:04:16.217630
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:12.760997 Min: 0:07:12.760997 Max: 0:07:12.760997
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.157608 Min: 0:00:00.157608 Max: 0:00:00.157608
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:20.355197 Min: 0:04:20.355197 Max: 0:04:20.355197
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:14.102438 Min: 0:07:14.102438 Max: 0:07:14.102438
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.144382 Min: 0:00:00.144382 Max: 0:00:00.144382
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:15.228165 Min: 0:04:15.228165 Max: 0:04:15.228165
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:10.566481 Min: 0:07:10.566481 Max: 0:07:10.566481
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.147876 Min: 0:00:00.147876 Max: 0:00:00.147876
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:14.893287 Min: 0:04:14.893287 Max: 0:04:14.893287
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:11.450834 Min: 0:07:11.450834 Max: 0:07:11.450834
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.148499 Min: 0:00:00.148499 Max: 0:00:00.148499
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:14.735740 Min: 0:04:14.735740 Max: 0:04:14.735740
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:09.524447 Min: 0:07:09.524447 Max: 0:07:09.524447
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.148729 Min: 0:00:00.148729 Max: 0:00:00.148729
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:15.280043 Min: 0:04:15.280043 Max: 0:04:15.280043
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:11.979958 Min: 0:07:11.979958 Max: 0:07:11.979958
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.146361 Min: 0:00:00.146361 Max: 0:00:00.146361
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:16.797762 Min: 0:04:16.797762 Max: 0:04:16.797762
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:13.659663 Min: 0:07:13.659663 Max: 0:07:13.659663
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.152567 Min: 0:00:00.152567 Max: 0:00:00.152567
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:09.556027 Min: 0:04:09.556027 Max: 0:04:09.556027
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:10.285728 Min: 0:07:10.285728 Max: 0:07:10.285728
+-----------------------------------------
+
+
+-----------------------------------------
+Networkx alternative, compute and save full graph of grids for vertex and edge connectivity
+Working on resolution of R10000m
+
+Time to prepare grid:
+Mean: 0:00:00.205256 Min: 0:00:00.205256 Max: 0:00:00.205256
+
+Time to compute and store full graph for vertex connectivity
+Mean: 0:04:10.511829 Min: 0:04:10.511829 Max: 0:04:10.511829
+
+Time to compute and store full graph for edge connectivity
+Mean: 0:07:13.013199 Min: 0:07:13.013199 Max: 0:07:13.013199
+-----------------------------------------
+
diff --git a/benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.751540.o_keep4reference b/benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.751540.o_keep4reference
new file mode 100644
index 0000000..3c3d76c
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.751540.o_keep4reference
@@ -0,0 +1,347 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.841072 Min: 0:00:00.058970 Max: 0:00:37.139549
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.813631 Min: 0:00:01.730532 Max: 0:00:01.897263
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.452462 Min: 0:00:00.434637 Max: 0:00:00.471026
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058713 Min: 0:00:00.056285 Max: 0:00:00.135207
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.812281 Min: 0:00:01.732443 Max: 0:00:01.915978
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.451504 Min: 0:00:00.429266 Max: 0:00:00.476348
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058072 Min: 0:00:00.055987 Max: 0:00:00.136261
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.835858 Min: 0:00:01.744010 Max: 0:00:01.905956
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.456049 Min: 0:00:00.433252 Max: 0:00:00.475596
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058683 Min: 0:00:00.055937 Max: 0:00:00.136795
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.816360 Min: 0:00:01.732147 Max: 0:00:01.910119
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.452112 Min: 0:00:00.432803 Max: 0:00:00.474777
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058737 Min: 0:00:00.056178 Max: 0:00:00.135053
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.830909 Min: 0:00:01.770106 Max: 0:00:01.930622
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.455611 Min: 0:00:00.439224 Max: 0:00:00.478078
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058367 Min: 0:00:00.055967 Max: 0:00:00.136566
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.814204 Min: 0:00:01.743938 Max: 0:00:01.884895
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.452244 Min: 0:00:00.434322 Max: 0:00:00.472305
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058531 Min: 0:00:00.056357 Max: 0:00:00.134920
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.812282 Min: 0:00:01.735869 Max: 0:00:01.896134
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.451294 Min: 0:00:00.432004 Max: 0:00:00.476688
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.059232 Min: 0:00:00.057085 Max: 0:00:00.139850
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.803266 Min: 0:00:01.720335 Max: 0:00:01.890809
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.449898 Min: 0:00:00.430983 Max: 0:00:00.470736
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058530 Min: 0:00:00.056130 Max: 0:00:00.135594
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.823941 Min: 0:00:01.719946 Max: 0:00:01.955966
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.452149 Min: 0:00:00.427989 Max: 0:00:00.484958
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R80000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.058255 Min: 0:00:00.056249 Max: 0:00:00.136171
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:01.804240 Min: 0:00:01.719913 Max: 0:00:01.889265
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:00.451568 Min: 0:00:00.429055 Max: 0:00:00.473994
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.112835 Min: 0:00:00.060430 Max: 0:00:00.237800
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.741633 Min: 0:00:11.047880 Max: 0:00:13.037827
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.804459 Min: 0:00:02.670181 Max: 0:00:02.928044
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.066282 Min: 0:00:00.060609 Max: 0:00:00.144507
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.689641 Min: 0:00:10.977274 Max: 0:00:13.056141
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.790793 Min: 0:00:02.649672 Max: 0:00:02.929472
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.066997 Min: 0:00:00.061442 Max: 0:00:00.146309
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.748019 Min: 0:00:11.157877 Max: 0:00:13.049716
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.817387 Min: 0:00:02.691829 Max: 0:00:02.934471
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.068907 Min: 0:00:00.061523 Max: 0:00:00.204040
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.855890 Min: 0:00:11.215937 Max: 0:00:13.105010
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.839184 Min: 0:00:02.715038 Max: 0:00:02.975583
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.066445 Min: 0:00:00.060987 Max: 0:00:00.198300
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.907494 Min: 0:00:11.229726 Max: 0:00:13.063933
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.840606 Min: 0:00:02.711602 Max: 0:00:02.962789
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.068189 Min: 0:00:00.061071 Max: 0:00:00.209450
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.886436 Min: 0:00:11.256733 Max: 0:00:12.951939
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.855835 Min: 0:00:02.732459 Max: 0:00:03.039219
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.068318 Min: 0:00:00.061638 Max: 0:00:00.172090
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:12.135802 Min: 0:00:11.460507 Max: 0:00:13.572767
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.899813 Min: 0:00:02.743560 Max: 0:00:03.048647
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.066609 Min: 0:00:00.061103 Max: 0:00:00.147904
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.952231 Min: 0:00:11.409944 Max: 0:00:13.099324
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.861240 Min: 0:00:02.747167 Max: 0:00:02.961579
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.069454 Min: 0:00:00.061015 Max: 0:00:00.171569
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:11.972089 Min: 0:00:11.310552 Max: 0:00:13.099566
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.857194 Min: 0:00:02.693729 Max: 0:00:03.032465
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R40000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.069869 Min: 0:00:00.061572 Max: 0:00:00.165979
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:00:12.060542 Min: 0:00:11.363261 Max: 0:00:13.306222
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:02.890548 Min: 0:00:02.752932 Max: 0:00:03.017463
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.134744 Min: 0:00:00.076718 Max: 0:00:00.417964
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:01:42.652603 Min: 0:01:26.746837 Max: 0:02:05.267857
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:20.160642 Min: 0:00:18.981943 Max: 0:00:22.087087
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.105685 Min: 0:00:00.065255 Max: 0:00:00.219487
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:01:43.564684 Min: 0:01:28.466029 Max: 0:02:06.915713
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:20.450507 Min: 0:00:19.382780 Max: 0:00:22.107816
+-----------------------------------------
+
+
+-----------------------------------------
+Own BFS alternative for 2d connected component labeling
+Working on resolution of R20000m
+
+Time to read 2d cloud data for 1 time step; done for 48 time steps
+Mean: 0:00:00.085241 Min: 0:00:00.064297 Max: 0:00:00.180708
+
+Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps
+Mean: 0:01:42.690418 Min: 0:01:26.777747 Max: 0:02:05.228272
+
+Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps
+Mean: 0:00:20.190591 Min: 0:00:19.066214 Max: 0:00:22.549308
+-----------------------------------------
+
+slurmstepd: error: *** JOB 751540 ON l30313 CANCELLED AT 2022-06-09T05:42:48 DUE TO TIME LIMIT ***
diff --git a/benchmarks/levante/LOG.benchmark_cubulation.run.746325.o_keep4reference b/benchmarks/levante/LOG.benchmark_cubulation.run.746325.o_keep4reference
new file mode 100644
index 0000000..bb9e92d
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_cubulation.run.746325.o_keep4reference
@@ -0,0 +1,249 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.111539
+Time to compute cubulation: 0:00:11.691935
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.098447
+Time to compute cubulation: 0:00:11.405875
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.101065
+Time to compute cubulation: 0:00:11.446452
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.099490
+Time to compute cubulation: 0:00:11.235260
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.102894
+Time to compute cubulation: 0:00:11.327536
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.098214
+Time to compute cubulation: 0:00:11.448181
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.102450
+Time to compute cubulation: 0:00:11.409802
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.102942
+Time to compute cubulation: 0:00:11.328397
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.109839
+Time to compute cubulation: 0:00:11.250979
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R80000m
+Start cell: 5570 Search radius: 104 Save cubulation: 1
+Time to read the grid: 0:00:00.100064
+Time to compute cubulation: 0:00:11.800567
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.143886
+Time to compute cubulation: 0:01:21.604662
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.100746
+Time to compute cubulation: 0:01:22.176071
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.106161
+Time to compute cubulation: 0:01:21.732051
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.102499
+Time to compute cubulation: 0:01:21.259108
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.102508
+Time to compute cubulation: 0:01:21.842264
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.108001
+Time to compute cubulation: 0:01:23.440947
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.146369
+Time to compute cubulation: 0:01:22.053555
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.099371
+Time to compute cubulation: 0:01:21.685052
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.098383
+Time to compute cubulation: 0:01:22.348166
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R40000m
+Start cell: 18494 Search radius: 210 Save cubulation: 1
+Time to read the grid: 0:00:00.099496
+Time to compute cubulation: 0:01:21.622861
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.109458
+Time to compute cubulation: 0:14:44.740432
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.163926
+Time to compute cubulation: 0:14:51.691015
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.113933
+Time to compute cubulation: 0:14:49.668303
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.188500
+Time to compute cubulation: 0:14:51.699327
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.117718
+Time to compute cubulation: 0:14:46.001933
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.167342
+Time to compute cubulation: 0:14:48.245944
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.117295
+Time to compute cubulation: 0:14:47.907541
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.173820
+Time to compute cubulation: 0:14:57.161018
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.115833
+Time to compute cubulation: 0:14:50.834056
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R20000m
+Start cell: 69220 Search radius: 423 Save cubulation: 1
+Time to read the grid: 0:00:00.196257
+Time to compute cubulation: 0:14:47.884634
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851 Save cubulation: 1
+Time to read the grid: 0:00:00.337632
+Time to compute cubulation: 3:42:34.257770
+-----------------------------------------
+
diff --git a/benchmarks/levante/LOG.benchmark_cubulation.run.746956.o_keep4reference b/benchmarks/levante/LOG.benchmark_cubulation.run.746956.o_keep4reference
new file mode 100644
index 0000000..d81081d
--- /dev/null
+++ b/benchmarks/levante/LOG.benchmark_cubulation.run.746956.o_keep4reference
@@ -0,0 +1,18 @@
+Working with /sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851 Save cubulation: 1
+Time to read the grid: 0:00:00.661804
+Time to compute cubulation: 3:53:56.613207
+-----------------------------------------
+
+
+-----------------------------------------
+Working on resolution of R10000m
+Start cell: 264617 Search radius: 851 Save cubulation: 1
+Time to read the grid: 0:00:00.251910
+Time to compute cubulation: 3:41:33.532182
+-----------------------------------------
+
+slurmstepd: error: *** JOB 746956 ON l40005 CANCELLED AT 2022-06-08T17:18:19 DUE TO TIME LIMIT ***
diff --git a/benchmarks/levante/README_benchmarks.txt b/benchmarks/levante/README_benchmarks.txt
new file mode 100644
index 0000000..8fbdf4d
--- /dev/null
+++ b/benchmarks/levante/README_benchmarks.txt
@@ -0,0 +1,18 @@
+Benchmarking runtime of cubulation and connected component identification
+
+Tests are performed on an exclusive compute node of the DKRZ supercomputer Levante in Hamburg, Germany.
+
+A compute node has the following specs (https://docs.dkrz.de/doc/levante/configuration.html):
+ * 2x AMD 7763 CPU @ 2.45 Ghz,
+ * 128 cores in total,
+ * 256 GB main memory.
+
+As for the grids we consider limited-area ICON grids that cover a large part of the North Atlantic. They were for example used for the NAWDEX simulations described Senf, F., A. Voigt et al, 2020: Increasing Resolution and Resolving Convection Improve the Simulation of Cloudâ€Radiative Effects Over the North Atlantic, JGR Atmospheres. https://agupubs.onlinelibrary.wiley.com/doi/full/10.1029/2020JD032667.
+
+Usage:
+
+benchmark_cubulation.run is a batch job that is submitted to an exclusive compute node via sbatch and that calls benchmark_cubulation.py. The grid resolution, start triangle and search radius for the cubulation are handed over to benchmark_cubulation.py, which reads in the grid file and does the cubulation.
+
+In a similar manner, benchmark_2d.run and benchmark_3d.run measure the execution time for computing connected components using the tricco cubulation approach.
+
+benchmark_alternative_networkx_2d.run and benchmark_alternative_own-bfs_2d.run measure the execution time for using the alternative approaches for 2d connected component finding. benchmark_alternative_networkx_fullgraph.run measure the time to compute and save the full graph of the grids with all possible connections between cells.
diff --git a/benchmarks/levante/benchmark_2d.py b/benchmarks/levante/benchmark_2d.py
new file mode 100644
index 0000000..1b4f25c
--- /dev/null
+++ b/benchmarks/levante/benchmark_2d.py
@@ -0,0 +1,75 @@
+# Perform benchmarking of 2d cloud data given a previously computed cubulation
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+startcell = int(sys.argv[2])
+searchrad = int(sys.argv[3])
+
+# gridfile including path
+gridfile = '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/grids/icon-grid_nawdex_78w40e23n80n_'+resol+'.nc'
+
+# load other needed packages
+import cc3d
+sys.path.append('/home/b/b380459/tricco/')
+import tricco
+import datetime
+
+print(' ')
+print('-----------------------------------------')
+print('Working on resolution of', resol)
+print('Start cell:', startcell, 'Search radius:', searchrad)
+
+# load previously computed cubulation
+import numpy as np
+cubulpath = '/scratch/b/b380459/tricco_output/'
+cubulfile = cubulpath+'/icon-grid_nawdex_78w40e23n80n_'+resol+'_cubulation_start'+str(startcell)+'_radius'+str(searchrad)+'.npy'
+cubulation = np.load(cubulfile, allow_pickle=True)
+
+# read in cloud data
+
+# cloud file depends on resolution
+datapath={'R80000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-80km-mis-0001/',
+ 'R40000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-40km-mis-0001/',
+ 'R20000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-20km-mis-0001/',
+ 'R10000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-10km-mis-0001/'}
+datafile={'R80000m': 'nawdexnwp-80km-mis-0001_2016092200_2d_30min_DOM01_ML_',
+ 'R40000m': 'nawdexnwp-40km-mis-0001_2016092200_2d_30min_DOM01_ML_',
+ 'R20000m': 'nawdexnwp-20km-mis-0001_2016092200_2d_30min_DOM01_ML_',
+ 'R10000m': 'nawdexnwp-10km-mis-0001_2016092200_2d_30min_DOM01_ML_'}
+
+dtime_dat = list()
+dtime_ver = list()
+dtime_edg = list()
+# loop over 1 day of 30-min output data --> 48 timesteps
+for time in range(10,59):
+ # read in data
+ begin_time = datetime.datetime.now()
+ field, field_cube = tricco.prepare_field(model='ICON', path=datapath[resol],
+ file=datafile[resol]+'00'+str(time)+'.nc',
+ var='clct', threshold=85.0, cubulation=cubulation)
+ end_time = datetime.datetime.now()
+ dtime_dat.append(end_time-begin_time)
+ # perform connected component analysis for vertex connectivity
+ begin_time = datetime.datetime.now()
+ _ = tricco.compute_connected_components_2d(cubulation, field_cube, connectivity = 'vertex')
+ end_time = datetime.datetime.now()
+ dtime_ver.append(end_time-begin_time)
+ # perform connected component analysis for edge connectivity
+ begin_time = datetime.datetime.now()
+ _ = tricco.compute_connected_components_2d(cubulation, field_cube, connectivity = 'edge')
+ end_time = datetime.datetime.now()
+ dtime_edg.append(end_time-begin_time)
+
+print(' ')
+print('Time to read in 1 time step of data, including moving it onto the 3d cubulated grid; done for 48 time steps')
+print('Mean:', np.mean(dtime_dat), 'Min:', np.min(dtime_dat), 'Max:', np.max(dtime_dat))
+print(' ')
+print('Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps')
+print('Mean:', np.mean(dtime_ver), 'Min:', np.min(dtime_ver), 'Max:', np.max(dtime_ver))
+print(' ')
+print('Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps')
+print('Mean:', np.mean(dtime_edg), 'Min:', np.min(dtime_edg), 'Max:', np.max(dtime_edg))
+
+print('-----------------------------------------')
+print(' ')
diff --git a/benchmarks/levante/benchmark_2d.run b/benchmarks/levante/benchmark_2d.run
new file mode 100755
index 0000000..b328bef
--- /dev/null
+++ b/benchmarks/levante/benchmark_2d.run
@@ -0,0 +1,34 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_2d.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_2d.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_2d.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante/
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_2d.py R80000m 5570 104
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_2d.py R40000m 18494 210
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_2d.py R20000m 69220 423
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_2d.py R10000m 264617 851
+done
diff --git a/benchmarks/levante/benchmark_3d.py b/benchmarks/levante/benchmark_3d.py
new file mode 100644
index 0000000..9f32faa
--- /dev/null
+++ b/benchmarks/levante/benchmark_3d.py
@@ -0,0 +1,75 @@
+# Perform benchmarking of 3d cloud data given a previously computed cubulation
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+startcell = int(sys.argv[2])
+searchrad = int(sys.argv[3])
+
+# gridfile including path
+gridfile = '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/grids/icon-grid_nawdex_78w40e23n80n_'+resol+'.nc'
+
+# load other needed packages
+import cc3d
+sys.path.append('/home/b/b380459/tricco/')
+import tricco
+import datetime
+
+print(' ')
+print('-----------------------------------------')
+print('Working on resolution of', resol)
+print('Start cell:', startcell, 'Search radius:', searchrad)
+
+# load previously computed cubulation
+import numpy as np
+cubulpath = '/scratch/b/b380459/tricco_output/'
+cubulfile = cubulpath+'/icon-grid_nawdex_78w40e23n80n_'+resol+'_cubulation_start'+str(startcell)+'_radius'+str(searchrad)+'.npy'
+cubulation = np.load(cubulfile, allow_pickle=True)
+
+# read in cloud data
+
+# cloud file depends on resolution
+datapath={'R80000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-80km-mis-0001/',
+ 'R40000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-40km-mis-0001/',
+ 'R20000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-20km-mis-0001/',
+ 'R10000m': '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-10km-mis-0001/'}
+datafile={'R80000m': 'nawdexnwp-80km-mis-0001_2016092200_3dcloud_DOM01_ML_',
+ 'R40000m': 'nawdexnwp-40km-mis-0001_2016092200_3dcloud_DOM01_ML_',
+ 'R20000m': 'nawdexnwp-20km-mis-0001_2016092200_3dcloud_DOM01_ML_',
+ 'R10000m': 'nawdexnwp-10km-mis-0001_2016092200_3dcloud_DOM01_ML_'}
+
+dtime_dat = list()
+dtime_ver = list()
+dtime_edg = list()
+# loop over 2 days of 1-hour output data --> 48 timesteps
+for time in range(10,59):
+ # read in data
+ begin_time = datetime.datetime.now()
+ field, field_cube = tricco.prepare_field_lev(model='ICON', path=datapath[resol],
+ file=datafile[resol]+'00'+str(time)+'.nc',
+ var='clc', threshold=85.0, cubulation=cubulation)
+ end_time = datetime.datetime.now()
+ dtime_dat.append(end_time-begin_time)
+ # perform connected component analysis for vertex connectivity
+ begin_time = datetime.datetime.now()
+ _ = tricco.compute_connected_components_3d(cubulation, field_cube, connectivity = 'vertex')
+ end_time = datetime.datetime.now()
+ dtime_ver.append(end_time-begin_time)
+ # perform connected component analysis for edge connectivity
+ begin_time = datetime.datetime.now()
+ _ = tricco.compute_connected_components_3d(cubulation, field_cube, connectivity = 'edge')
+ end_time = datetime.datetime.now()
+ dtime_edg.append(end_time-begin_time)
+
+print(' ')
+print('Time to read in 1 time step of data, including moving it onto the 3d x lev cubulated grid; done for 48 time steps')
+print('Mean:', np.mean(dtime_dat), 'Min:', np.min(dtime_dat), 'Max:', np.max(dtime_dat))
+print(' ')
+print('Time to do 3d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps')
+print('Mean:', np.mean(dtime_ver), 'Min:', np.min(dtime_ver), 'Max:', np.max(dtime_ver))
+print(' ')
+print('Time to do 3d connected component labeling with edge connectivity for 1 time step; done for 48 time steps')
+print('Mean:', np.mean(dtime_edg), 'Min:', np.min(dtime_edg), 'Max:', np.max(dtime_edg))
+
+print('-----------------------------------------')
+print(' ')
diff --git a/benchmarks/levante/benchmark_3d.run b/benchmarks/levante/benchmark_3d.run
new file mode 100755
index 0000000..ebb1ce4
--- /dev/null
+++ b/benchmarks/levante/benchmark_3d.run
@@ -0,0 +1,34 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_3d.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_3d.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_3d.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante/
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_3d.py R80000m 5570 104
+#done
+#
+#for i in {1..10}; do
+# $MYPYTHON benchmark_3d.py R40000m 18494 210
+#done
+#
+for i in {1..10}; do
+ $MYPYTHON benchmark_3d.py R20000m 69220 423
+done
+
+for i in {1..1}; do
+ $MYPYTHON benchmark_3d.py R10000m 264617 851
+done
diff --git a/benchmarks/levante/benchmark_alternative_networkx_2d.py b/benchmarks/levante/benchmark_alternative_networkx_2d.py
new file mode 100644
index 0000000..d82356f
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_networkx_2d.py
@@ -0,0 +1,69 @@
+# Perform benchmarking of 2d cloud data using networkx graph alternative
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+
+# load other needed packages
+sys.path.append("/home/b/b380459/tricco/")
+import tricco
+from tricco.alternatives import nwx
+import datetime
+import networkx as networkx
+import xarray as xr
+
+print(" ")
+print("-----------------------------------------")
+print("Networkx alternative for 2d connected component labeling")
+print("Working on resolution of", resol)
+
+# load previously computed full graph
+import numpy as np
+graphpath = "/scratch/b/b380459/tricco_output/"
+fgraph_vert = networkx.read_gpickle(graphpath+"/icon-grid_nawdex_78w40e23n80n_"+resol+"_fgraph_vertex.gpickle")
+fgraph_edge = networkx.read_gpickle(graphpath+"/icon-grid_nawdex_78w40e23n80n_"+resol+"_fgraph_edge.gpickle")
+
+# cloud file depends on resolution
+datapath={"R80000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-80km-mis-0001/",
+ "R40000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-40km-mis-0001/",
+ "R20000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-20km-mis-0001/",
+ "R10000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-10km-mis-0001/"}
+datafile={"R80000m": "nawdexnwp-80km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R40000m": "nawdexnwp-40km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R20000m": "nawdexnwp-20km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R10000m": "nawdexnwp-10km-mis-0001_2016092200_2d_30min_DOM01_ML_"}
+
+dtime_read = list()
+dtime_vert = list()
+dtime_edge = list()
+# loop over 1 day of 30-min output data --> 48 timesteps
+for time in range(10,59):
+ # read cloud data
+ begin_time = datetime.datetime.now()
+ filename = datapath[resol]+"/"+datafile[resol]+"00"+str(time)+".nc"
+ data = xr.open_dataset(filename)["clct"].squeeze()
+ end_time = datetime.datetime.now()
+ dtime_read.append(end_time-begin_time)
+ # perform connected component analysis for vertex connectivity
+ begin_time = datetime.datetime.now()
+ components_vert = nwx.compute_connected_components_2d(data, fgraph_vert, 85.0)
+ end_time = datetime.datetime.now()
+ dtime_vert.append(end_time-begin_time)
+ # perform connected component analysis for edge connectivity
+ begin_time = datetime.datetime.now()
+ components_edge = nwx.compute_connected_components_2d(data, fgraph_edge, 85.0)
+ end_time = datetime.datetime.now()
+ dtime_edge.append(end_time-begin_time)
+
+print(" ")
+print("Time to read 2d cloud data for 1 time step; done for 48 time steps")
+print("Mean:", np.mean(dtime_read), "Min:", np.min(dtime_read), "Max:", np.max(dtime_read))
+print(" ")
+print("Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps")
+print("Mean:", np.mean(dtime_vert), "Min:", np.min(dtime_vert), "Max:", np.max(dtime_vert))
+print(" ")
+print("Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps")
+print("Mean:", np.mean(dtime_edge), "Min:", np.min(dtime_edge), "Max:", np.max(dtime_edge))
+
+print("-----------------------------------------")
+print(" ")
diff --git a/benchmarks/levante/benchmark_alternative_networkx_2d.run b/benchmarks/levante/benchmark_alternative_networkx_2d.run
new file mode 100755
index 0000000..411d917
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_networkx_2d.run
@@ -0,0 +1,34 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_alternative_networkx_2d.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_networkx_2d.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante/
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_2d.py R80000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_2d.py R40000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_2d.py R20000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_2d.py R10000m
+done
diff --git a/benchmarks/levante/benchmark_alternative_networkx_fullgraph.py b/benchmarks/levante/benchmark_alternative_networkx_fullgraph.py
new file mode 100644
index 0000000..14529c7
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_networkx_fullgraph.py
@@ -0,0 +1,61 @@
+# Perform benchmarking of 2d cloud data given a previously computed cubulation
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+
+# load other needed packages
+sys.path.append("/home/b/b380459/tricco/")
+import tricco
+from tricco.alternatives import nwx
+import datetime
+import networkx as networkx
+import numpy as np
+
+print(" ")
+print("-----------------------------------------")
+print("Networkx alternative, compute and save full graph of grids for vertex and edge connectivity")
+print("Working on resolution of", resol)
+
+# grid file
+gridfile = "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/grids/icon-grid_nawdex_78w40e23n80n_"+resol+".nc"
+
+# location where to save full graphs
+graphpath = "/scratch/b/b380459/tricco_output/"
+
+dtime_prep = list()
+dtime_vert = list()
+dtime_edge = list()
+
+# prepare grid
+begin_time = datetime.datetime.now()
+grid = nwx.prepare_grid(model="ICON", file=gridfile)
+end_time = datetime.datetime.now()
+dtime_prep.append(end_time-begin_time)
+
+# vertex connectivity
+begin_time = datetime.datetime.now()
+fgraph_vert = nwx.compute_fullgraph(grid, connectivity="vertex")
+networkx.write_gpickle(fgraph_vert, graphpath+"/icon-grid_nawdex_78w40e23n80n_"+resol+"_fgraph_vertex.gpickle")
+end_time = datetime.datetime.now()
+dtime_vert.append(end_time-begin_time)
+
+# edge connectivity
+begin_time = datetime.datetime.now()
+fgraph_edge = nwx.compute_fullgraph(grid, connectivity="edge")
+networkx.write_gpickle(fgraph_edge, graphpath+"/icon-grid_nawdex_78w40e23n80n_"+resol+"_fgraph_edge.gpickle")
+end_time = datetime.datetime.now()
+dtime_edge.append(end_time-begin_time)
+
+print(" ")
+print("Time to prepare grid:")
+print("Mean:", np.mean(dtime_prep), "Min:", np.min(dtime_prep), "Max:", np.max(dtime_prep))
+print(" ")
+print("Time to compute and store full graph for vertex connectivity")
+print("Mean:", np.mean(dtime_vert), "Min:", np.min(dtime_vert), "Max:", np.max(dtime_vert))
+print(" ")
+print("Time to compute and store full graph for edge connectivity")
+print("Mean:", np.mean(dtime_edge), "Min:", np.min(dtime_edge), "Max:", np.max(dtime_edge))
+
+print("-----------------------------------------")
+print(" ")
diff --git a/benchmarks/levante/benchmark_alternative_networkx_fullgraph.run b/benchmarks/levante/benchmark_alternative_networkx_fullgraph.run
new file mode 100755
index 0000000..eb75f36
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_networkx_fullgraph.run
@@ -0,0 +1,38 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_alternative_networkx_fullgraph.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_networkx_fullgraph.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+# compute full graphs for edge and vertex connectivity and save as gpickle
+# parameters given to benchmark_alternative_networkx_fullgraph.py:
+# resolution, e.g., R80000m
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_fullgraph.py R80000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_fullgraph.py R40000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_fullgraph.py R20000m
+done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_networkx_fullgraph.py R10000m
+done
diff --git a/benchmarks/levante/benchmark_alternative_own-bfs_2d.py b/benchmarks/levante/benchmark_alternative_own-bfs_2d.py
new file mode 100644
index 0000000..bba069c
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_own-bfs_2d.py
@@ -0,0 +1,66 @@
+# Perform benchmarking of 2d cloud data using the self-programmed breadth-first search
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+
+# load other needed packages
+sys.path.append("/home/b/b380459/tricco/")
+import tricco
+from tricco.alternatives import ownbfs
+import datetime
+import xarray as xr
+import numpy as np
+
+print(" ")
+print("-----------------------------------------")
+print("Own BFS alternative for 2d connected component labeling")
+print("Working on resolution of", resol)
+
+# read in cloud data
+# cloud file depends on resolution
+datapath={"R80000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-80km-mis-0001/",
+ "R40000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-40km-mis-0001/",
+ "R20000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-20km-mis-0001/",
+ "R10000m": "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/ICON_OUTPUT_NWP/nawdexnwp-10km-mis-0001/"}
+datafile={"R80000m": "nawdexnwp-80km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R40000m": "nawdexnwp-40km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R20000m": "nawdexnwp-20km-mis-0001_2016092200_2d_30min_DOM01_ML_",
+ "R10000m": "nawdexnwp-10km-mis-0001_2016092200_2d_30min_DOM01_ML_"}
+
+dtime_read = list()
+dtime_vert = list()
+dtime_edge = list()
+# loop over 1 day of 30-min output data --> 48 timesteps
+for time in range(10,59):
+ # read grid and cloud data
+ begin_time = datetime.datetime.now()
+ gridfile = "/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/grids/icon-grid_nawdex_78w40e23n80n_"+resol+".nc"
+ grid = ownbfs.prepare_grid(model="ICON", file=gridfile)
+ filename = datapath[resol]+"/"+datafile[resol]+"00"+str(time)+".nc"
+ data = xr.open_dataset(filename)["clct"].squeeze()
+ end_time = datetime.datetime.now()
+ dtime_read.append(end_time-begin_time)
+ # perform connected component analysis for vertex connectivity
+ begin_time = datetime.datetime.now()
+ components_vert = ownbfs.compute_components_2d(grid, data, 85.0, connectivity="vertex")
+ end_time = datetime.datetime.now()
+ dtime_vert.append(end_time-begin_time)
+ # perform connected component analysis for edge connectivity
+ begin_time = datetime.datetime.now()
+ components_edge = ownbfs.compute_components_2d(grid, data, 85.0, connectivity="edge")
+ end_time = datetime.datetime.now()
+ dtime_edge.append(end_time-begin_time)
+
+print(" ")
+print("Time to read 2d cloud data for 1 time step; done for 48 time steps")
+print("Mean:", np.mean(dtime_read), "Min:", np.min(dtime_read), "Max:", np.max(dtime_read))
+print(" ")
+print("Time to do 2d connected component labeling with vertex connectivity for 1 time step; done for 48 time steps")
+print("Mean:", np.mean(dtime_vert), "Min:", np.min(dtime_vert), "Max:", np.max(dtime_vert))
+print(" ")
+print("Time to do 2d connected component labeling with edge connectivity for 1 time step: done for 48 time steps")
+print("Mean:", np.mean(dtime_edge), "Min:", np.min(dtime_edge), "Max:", np.max(dtime_edge))
+
+print("-----------------------------------------")
+print(" ")
diff --git a/benchmarks/levante/benchmark_alternative_own-bfs_2d.run b/benchmarks/levante/benchmark_alternative_own-bfs_2d.run
new file mode 100755
index 0000000..8137b0d
--- /dev/null
+++ b/benchmarks/levante/benchmark_alternative_own-bfs_2d.run
@@ -0,0 +1,35 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_alternative_own-bfs_2d.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_alternative_own-bfs_2d.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante/
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_alternative_own-bfs_2d.py R80000m
+#done
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_alternative_own-bfs_2d.py R40000m
+#done
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_alternative_own-bfs_2d.py R20000m
+#done
+
+# Note: 10km analyis does not finish within 8 hour time limit ...
+for i in {1..10}; do
+ $MYPYTHON benchmark_alternative_own-bfs_2d.py R10000m
+done
diff --git a/benchmarks/levante/benchmark_cubulation.py b/benchmarks/levante/benchmark_cubulation.py
new file mode 100644
index 0000000..c8416c7
--- /dev/null
+++ b/benchmarks/levante/benchmark_cubulation.py
@@ -0,0 +1,40 @@
+# Perform benchmarking of cubulation routine on DKRZ Levante
+
+# parse command line parameters
+import sys
+resol = sys.argv[1]
+startcell = int(sys.argv[2])
+searchrad = int(sys.argv[3])
+savecubul = int(sys.argv[4])
+
+# gridfile including path
+gridfile = '/work/bb1018/from_Mistral/bb1018/b380459/NAWDEX/grids/icon-grid_nawdex_78w40e23n80n_'+resol+'.nc'
+
+# load other needed packages
+sys.path.append('/home/b/b380459/tricco/')
+import tricco
+import datetime
+
+print(' ')
+print('-----------------------------------------')
+print('Working on resolution of', resol)
+print('Start cell:', startcell, 'Search radius:', searchrad, 'Save cubulation:', savecubul)
+
+begin_time = datetime.datetime.now()
+tricco.grid_functions.grid = tricco.prepare_grid(model='ICON',path='/', file=gridfile)
+end_time = datetime.datetime.now()
+print('Time to read the grid:', end_time-begin_time)
+
+begin_time = datetime.datetime.now()
+cubulation = tricco.compute_cubulation(start_triangle=startcell, radius=searchrad, print_progress=False)
+end_time = datetime.datetime.now()
+print('Time to compute cubulation:', end_time-begin_time)
+
+# optional: save cubulation
+if savecubul == 1:
+ import numpy as np
+ np.save('/scratch/b/b380459/tricco_output/icon-grid_nawdex_78w40e23n80n_'
+ +resol+'_cubulation_start'+str(startcell)+'_radius'+str(searchrad), cubulation)
+
+print('-----------------------------------------')
+print(' ')
diff --git a/benchmarks/levante/benchmark_cubulation.run b/benchmarks/levante/benchmark_cubulation.run
new file mode 100755
index 0000000..432f6de
--- /dev/null
+++ b/benchmarks/levante/benchmark_cubulation.run
@@ -0,0 +1,40 @@
+#!/bin/bash
+#=============================================================================
+# mistral batch job parameters
+#-----------------------------------------------------------------------------
+#SBATCH --account=bb1152
+#SBATCH --job-name=benchmark_cubulation.run
+#SBATCH --partition=compute
+#SBATCH --nodes=1
+#SBATCH --threads-per-core=1
+#SBATCH --output=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_cubulation.run.%j.o
+#SBATCH --error=/home/b/b380459/tricco/benchmarks/levante/LOG.benchmark_cubulation.run.%j.o
+#SBATCH --exclusive
+#SBATCH --time=08:00:00
+
+cd /home/b/b380459/tricco/benchmarks/levante
+
+MYPYTHON="/sw/spack-levante/mambaforge-4.11.0-0-Linux-x86_64-sobz6z/bin/python3"
+echo "Working with" ${MYPYTHON}
+
+# parameters given to benchmark_cubulation.py:
+# resolution, e.g., R80000m
+# start cell
+# radius
+# save cubulation by setting 4ht parameter to 1
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_cubulation.py R80000m 5570 104 1
+#done
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_cubulation.py R40000m 18494 210 1
+#done
+
+#for i in {1..10}; do
+# $MYPYTHON benchmark_cubulation.py R20000m 69220 423 1
+#done
+
+for i in {1..10}; do
+ $MYPYTHON benchmark_cubulation.py R10000m 264617 851 1
+done
--
GitLab