418a580888
EVOLUTION: Print 'err/tol' not the error during the integration.
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This is more meaninful, since it shows the ratio of the maximum error to
the tolerance atol + rtol * max(U).
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-15 15:29:42 -03:00
155b5d7575
EVOLUTION: Implement L2 and maximum norms for error calculation.
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Alow the user to choose between these two norms.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-15 13:51:25 -03:00
271af020df
EVOLUTION: Implement 3rd order embedded SSP3(2)4 with error control.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-15 12:15:14 -03:00
27b6daebca
PYTHON: Version 0.9.5
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 18:06:43 -03:00
0d4e955eb0
PYTHON: Reduce dimensions for 2D datasets in AmunH5.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 18:06:07 -03:00
9a7235b72d
PYTHON: Use None for fields in chunks with dblocks == 0.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 18:05:58 -03:00
51cc3ea83b
PYTHON: Determine toplev only for chunks with dblocks > 0.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 18:05:46 -03:00
d217d092ab
PYTHON: Version 0.9.4
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 13:31:05 -03:00
e13bd00a0e
PYTHON: Replace numpy.empty with numpy.zeros in AmunXML.__fill_chunks().
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 13:07:57 -03:00
07fc5c20b0
PYTHON: Create empty chunk fields for chunks with no dblocks.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 13:02:31 -03:00
5eec85e598
PYTHON: Version 0.9.3.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 10:06:16 -03:00
ec8ddac795
PYTHON: Add velocity and magnetic field components.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 10:05:18 -03:00
f4df543b2c
PYTHON: Import numpy without abbreviation.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 09:44:49 -03:00
b7496e0b3d
PYTHON: Make sure dataset() accepts maxlev > 9.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-06 09:37:15 -03:00
c2c9c37b45
PYTHON: Version 0.9.2
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 11:12:07 -03:00
6945b90b66
PYTHON: Export WriteVTK through the AmunPy interface.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 11:11:17 -03:00
5a8526ef82
PYTHON: Version 0.9.1.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 10:59:39 -03:00
1c4fa6035d
PYTHON: Rewrite vtkio.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 10:58:44 -03:00
e153cd417e
PYTHON: Rewrite interpolations.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 10:19:18 -03:00
d714974b33
PYTHON: Restore zmin/zmax/zblocks for 2D AmunXML snapshots.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 09:38:49 -03:00
b6edd6ca97
PYTHON: Version 0.9
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 09:13:24 -03:00
764c1596b5
PYTHON: Improve comments in AmunH5 structures.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 09:09:24 -03:00
919e0ce6c2
PYTHON: Separate deprecated AmunH5 functions.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 09:05:57 -03:00
dbf977de36
PYTHON: Rewrite AmunXML class to use Amun base class.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-05 09:03:23 -03:00
61d5eeb839
PYTHON: Convert returns to exceptions in Amun class.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-04 22:24:08 -03:00
8e125253f7
PYTHON: Make AmunH5 class public.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-04 22:19:43 -03:00
da339f1ac9
PYTHON: Implement AmunH5 class for Amun's HDF5 format.
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Mark the previous subroutines deprecated.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-04 22:17:53 -03:00
d28194dc23
PYTHON: Add amun.py defining the base class for Amun snapshots.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-04 22:15:59 -03:00
abd1749945
PYTHON: Use None for no compression of VTK files.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-10-04 22:14:30 -03:00
6ffb3f5910
INTERPOLATIONS: Add a couple of limiters.
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Use limiter_average() which is not a limiter, just returns average of
left and right derivatives, as the default limiter for prolongation.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-09-21 11:29:16 -03:00
d3c0737c8d
BOUNDARIES, MESH: Allow to choose prolongation limiter.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-09-21 11:28:23 -03:00
61ed993821
EVOLUTION: Fix decay rate of ψ field.
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This scalar potential tracks the development of div(B). Its decay
depends on the cell size, so make it calculated per refinement level.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-09-20 08:44:38 -03:00
7b79d88b6d
CMAKE: Turn off HDF5 by default.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-09-12 12:02:04 -03:00
9d48cc9367
OPERATORS: Implement high-order differential operators.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-09-10 18:25:11 -03:00
7713df3ebf
EVOLUTION: Add dth to track hydrodynamic timestep.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-08-17 11:23:36 -03:00
c766bb9059
MESH: Redistribute data blocks after each refinement.
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There are situations when one process can suddenly have many data
blocks refined resulting in a significant memory stress before
the new blocks are redistributed among all processes. Just
redistribute data blocks each time the block refinement is
performed to avoid such a situation.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-20 17:58:44 -03:00
6dbda8bf14
IO: Use the same array to store each variable in write_snapshot_xml().
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-20 17:56:51 -03:00
a0b6e60d7e
EVOLUTION: Simplify conditions for the new time step.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-19 15:12:08 -03:00
b2a7bd08b6
EVOLUTION: Consider dte only for methods with error control.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-19 13:16:31 -03:00
8ec801228c
EVOLUTION: Fix formatting once again.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-19 13:03:40 -03:00
d8bd7eb800
EVOLUTION: Fix formatting.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-19 13:02:14 -03:00
30215029d4
EVOLUTION: Be explicit about the method with error control.
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Do not show the parameters controlling the integration errors if the
method do not control this error.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-19 12:58:57 -03:00
74693bd7ed
Merge branch 'memory_usage_reduction'
2021-07-18 19:49:33 -03:00
548b7a456d
Revert "IO: Do not read non-existing data blocks during job restart."
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This reverts commit 2a2ab474800cf3653081eb214bb9102528f18e5e.
2021-07-18 19:49:26 -03:00
3817822f6f
HELPERS: Move flush_and_sync() to HELPERS.
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Use it in mesh statistics.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-18 19:25:49 -03:00
92f5905b6b
MESH: Store statistics when the distribution of blocks changes too.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-18 19:07:00 -03:00
7ba3d7ae37
DRIVER: Print message on received signal to error unit.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-16 11:33:49 -03:00
047e9af130
MESH: Balance data blocks not only among processes but nodes too.
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This change tries to maintain a similar number of data blocks per node,
while balancing them across all processes. This should improve the
memory utilization among nodes.
Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-15 21:10:17 -03:00
19e89c4dd2
MPITOOLS: Add maximum rank of the node.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-15 17:25:32 -03:00
b933c444df
MPITOOLS: Determine the number of nodes, processes per node, and local rank.
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Signed-off-by: Grzegorz Kowal <grzegorz@amuncode.org>
2021-07-15 17:22:00 -03:00
