With `target_sources` rather than referring to their path from another
directory.

With `target_sources` rather than referring to their path from another
directory.

Since `NR_util` has been integrated into Jumble.

Following update of the library.

Following updates of the libraries.

Following updates of the libraries.

Note that programs `test_max_speed_contour_ssh` and `test_weight`
depend on fortranGIS through the module derived_types. Compilation
worked without linking to fortranGIS because objects used by
`test_max_speed_contour_ssh` and `test_weight` in
derived types do not use fortranGIS.

Thanks to commit 5ff9e1d2, we are reverting in part commits e1aa5bcc and
338dd393.

Thanks to commit 5ff9e1d2, we are reverting in part commit e1aa5bcc.

Than ks to commit 5ff9e1d2, we are reverting in part commits e1aa5bcc and
fda1e6cd.

Because we are going to add preprocessor directives.

Remove `shpc_create` from use list in main program `test_overlap`. It
is no longer needed since commit 50d2f596.

In case we are a sub-project.

In procedure overlap, write an edge across delta days instead of delta
edges across single days. So we do not need procedure `write_overlap`
any longer, nor program `test_write_overlap`.

We now impose that all eddies in an SHPC have the same
orientation. Remove field `extr_cycl` from the derived type shpc and
add field cyclone to shpc. When reading an eddy, give it the
orientation of its SHPC. Add argument cyclone to procedure
`shpc_create`. Create a file `orientation.txt` in each SHPC. When
writing an eddy, check that its orientation matches that of the SHPC.

Rename triplet to collection, `shp_tr` to shpc, shpt to shpc in
comments, identifiers and file names.

We are reverting commits 35fad1b7 and df2b397d because we want the
program `eddy_graph.sh` to read an SHPC containing a single
orientation.

Because we are going to use it in `test_nearby_extr`.

We are in Overlap so MPI has already been found in top-level `CMakeLists.txt`.

`read_eddy.f90`, `read_field_indices.f90` and `shp_tr_open.f90` will
become common to Overlap and `Inst_eddies` because they will be used
in `Inst_eddies/Tests/test_set_max_speed.f90`. So there are now enough
common files to justify a new directory.

Following update of libraries: NetCDF-Fortran is private in NetCDF95
and MPI-Fortran is private in EZMPI.

Move Fortran source files used in tests of both parts, `Inst_eddies`
and Overlap, to directory Tests at root of repository.

Also split the tests, Fortran source files, Python files and JSon
files. Keep at the top level the files used in both `Inst_eddies` and
Overlap.

Motivations for the split:

- The top directory contained many files.

- It may be useful to compile only one of the two sub-projects. For
example, only `Inst_eddies` on Ciclad, where MPI 3 is not available.