This commit calls the aquifer model's 'initFromRestart' function if
the loadParallelRestart() function happens to return any aquifer
data from the restart file. Such data is currently limited to two
items of information for analytic aquifers (from XAAQ vector), but
future extensions are likely.
In the case where two were direct vertical neighbors in the grid
but not in the underlying cartesian grid (e.g. because of MINPV or
pinch outs), we treated them as NNCs and wrote the transmissibilty
to TRANNC.
With this patch we detect this situation (two neighbor cells with identical
i and i and no active cells between them) and do not create an NNC
in the eclipse output files but write the transmissibility to TRANZ.
It seems like eclipse ignores NNCs with small transmissibility.
Small means less than 1e-6 for Eclipse (Even if it says that it
is ignoring values below 1e-5 and/or zero values)!.
This commit now implements the same threshold during IO.
Also fixes a bug when applying EDITNNC, it needs to have cell1<=cell2 to work.
We first add all NNCs specified in the deck to the ouput
and then determine additional NNCs by iterating over all faces that
connect cells that are not connected in the underlying cartesian grid.
Therefore we need to make sure that we do not output NNCs twice
and for faults that also have a specified NNC we need to substract
the transmissibility specified via NNC.
- when an episode/report step is over, the next is started by endEpisode()
- the problem does not deal with updating the simulation time anymore
- rename `episodeIdx` in to `reportStepIdx` the 'EclWriter' because
this variable is -- and always has been -- the report step number
used by some parts of `opm-output`'s ECL writing code (the report
step number is equivalent to the episode index plus 1). IMO, the
output and parser code should be made more consistent in regard of
whether it expects 0-based or 1-based indices, but this is a story
for another day.
this is part of the release maintainance. in this context "core
headers" means the ones which do not include the well model headers,
and only those which are concerned with non-exotic functionality,
e.g., the PolyhedralGrid and ALUGrid vanguards are not changed.
Some time loop stuff was missing in the doobly-doo, the init() method
of the well model was not called and there was the slightly deeper
issue that the initial solutions where not calculated on restarts
which breaks everything that relies on them. (at the moment, that's
everything which is related to non-trivial boundary contitions.)
the flags which I used are
```
-pedantic \
-Wall \
-Wextra \
-Wformat-nonliteral \
-Wcast-align
-Wpointer-arith \
-Wmissing-declarations \
-Wcast-qual \
-Wshadow
-Wwrite-strings \
-Wchar-subscripts \
-Wredundant-decls \
-fstrict-overflow \
-O3 \
-march=native \
-DNDEBUG=1
```
note that some heavy filtering is not the worst idea because DUNE is
far from not emiting any warnings with these flags.
Also, there were some pesky warnings in test_ecl_output which I don't
know how to fix:
```
tests/test_ecl_output.cc:218:73: warning: missing initializer for member ‘Opm::data::Connection::effective_Kh’ [-Wmissing-field-initializers]
```
there are about a trillion places within ebos where the availability
of the ECL I/O routines is hardcoded, so it does not make sense to
pretent that the EclWriter can be useful without them.
(in fact, ebos is deactivated at build system level if the ECL I/O
routines have not been detected.)
