Introduce two variables `Aviso_DT_dir` and `Eurec4A_NRT_dir` to
replace the single variable `large_input_dir`. This should remove the
need to create symbolic links to the files in these directories.

Dictionary instead of list, following update of `test_compare.py`.

Instead of symbolic links. We want to avoid creating symbolic links
above SHPC because we want to run several instances of `inst_eddies`
in parallel.

So the script can write to a slice other than 0.

I do not see why this was not done in commit 24b5b079.

Changing my mind. In an SHPC, store shapefiles in
"Slice_{slice}/{orientation}" instead of
"{orientation}/Slice_{slice}". Two reasons: easier to store accessory
files from running `inst_eddies`, such as `perf_report` and output
from Torque submission script; clearer that a slice should contain the
same dates for both orientations.

Assume that a slice is in a directory
"{shpc_dir}/{orientation}/Slice_{slice}" where shpc_dir can be any
name, orientation is "Anticyclones" or "Cyclones" and slice is an
integer. Do not read or create any longer a file "orientation.txt" in
the slice directory. Add procedure `get_slice_dir`. Add dummy
arguments cyclone and slice to procedure `shpc_open`. Add dummy
argument slice to procedure `shpc_create`.

Rename `main_nml` to `config_nml` in module `config_m`.

Extract code from program `inst_eddies` into new procedure `input_ssh`.

Following update of `test_compare.py`.

Following modifications of `CMakeLists.txt` files.

When there are more than 3 input files. We recover the convenience of
commit b34b85a8, with the underlying generality of commit d365e754.

Provide list of input files as arguments of `inst_eddies.py`,
following commit 8e0c03e1.

For programs `inst_eddies` and `test_get_1_outerm`, following commits
9a59d13 and 9dc139d.

Following commit b0e3ce55.

Now that `inst_eddies` reads `main_nml` only on the first date, we do
not need to create a file `main_nml.txt` before running
`inst_eddies.py`. `inst_eddies.py` can just read `main_nml` from
standard input.

Thanks to commit 5ff9e1d2, we are reverting in part commit f04aea8b.

Replace `SHPC_(anti|cyclo)_all_dates` by `SHPC_(anti|cyclo)`.

Thanks to commit 5ff9e1d2, we are reverting in part commit 83123e30.

Replace positional argument template by optional argument. This
argument is now needed only in case we process several dates, since
the first date is now read from the NetCDF file.

Even for a run with a single MPI process, otherwise execution will not
work on some systems (jean-zay).

Replace `/proju/lmd-oce/data/AVISO/DT_2018/2006/01` by
`$large_input_dir`.

Since `Inst_eddies_loop` is in the same series of tests as
`Nearby_extr`, take it from `$PWD` rather than `$tests_old_dir`.

Make it 15 days long because we want to use it in place of
`Overlap/Tests/Input/Region_2_SHPC`.

Instead of reading `extr_map.nc`, `ishape_last.txt` and shapefile
extremum. The problem was the consistency between `extr_map.nc` and
the two other files. `extr_map.nc` contains eddies with the two
orientations while extremum now contains a single orientation, with
eddies renumbered.

This SHPC was made with an old version of `inst_eddies`: it contains
cyclones and anticyclones output together. We use
`$tests_old_dir/Inst_eddies_loop` instead. See also commit 8ed324ff.

Move the test `Inst_eddies_lopp` earlier in the test series because we
are going to use its results in subsequent tests.

Run it with two dates and the new input NetCDF files. Two dates so it
can replace the SHPC that was in `$src_dir/Tests/Eddies_region_4`.