Read and write fixed filenames in `overlap_v6.py`

Instead of filenames constructed from the orientation. So we need to
create symlinks before running the script. It is clearer this way that
the script processes a single orientation, and that the processing
does not depend on the orientation. The script does not take a command
line argument any longer.

Convert_Matlab/overlap_v6.py

 #!/usr/bin/env python3
 
-"""This script reads the eddy graph from Matlab v6 files
-    id_child_(anti|cyclo).mat and N(anti|cyclo).mat, and writes the
-    graph to a new file in edgelist format.
+"""This script reads the eddy graph from Matlab v6 files id_child.mat
+    and N_eddies.mat, for a given orientation and writes the graph to
+    a new file in edgelist format.
 
 """
 
@@ -25,10 +25,8 @@ def adjust_n(n_Matlab):
     k = date_num[k_Matlab] - date_num[0]
     return n_Matlab + (k - k_Matlab) * e_overestim
 
-orientation = sys.argv[1] # "cyclo" or "anti"
-id_child = sio.loadmat(f"id_child_{orientation}.mat", squeeze_me=True)\
-    ["id_child"]
-n_eddies = sio.loadmat(f"N{orientation}.mat", squeeze_me = True)["N_eddies"]\
+id_child = sio.loadmat("id_child.mat", squeeze_me=True)["id_child"]
+n_eddies = sio.loadmat("N_eddies.mat", squeeze_me = True)["N_eddies"]\
               .astype(int, casting = "safe", copy = False)
 date_num = sio.loadmat("date_num.mat", squeeze_me = True)["date_num"]
 n_dates = n_eddies.size
@@ -40,7 +38,7 @@ d_init = to_days_1950(date_num[0])
 with open("node_id_param.json", "w") as f:
     json.dump({"e_overestim": e_overestim, "d_init": d_init}, f)
 
-with open(f"edgelist_{orientation}.csv", "w", newline = '') as edgelist:
+with open(f"edgelist.csv", "w", newline = '') as edgelist:
     writer = csv.writer(edgelist, delimiter = ' ', lineterminator = "\n")
 
     for j1 in range(n_dates):

Convert_Matlab/short_tests.json

 [
     {
 	"title": "Graph_from_Matlab_v6_cyclo",
-	"command": ["$src_dir/Convert_Matlab/overlap_v6.py", "cyclo"],
+	"command": "$src_dir/Convert_Matlab/overlap_v6.py",
 	"required":
 	[
-	    "$src_dir/Convert_Matlab/Eurec4A_OA/id_child_cyclo.mat",
-	    "$src_dir/Convert_Matlab/Eurec4A_OA/Ncyclo.mat",
+	    [
+		"$src_dir/Convert_Matlab/Eurec4A_OA/id_child_cyclo.mat",
+		"id_child.mat"
+	    ],
+	    ["$src_dir/Convert_Matlab/Eurec4A_OA/Ncyclo.mat", "N_eddies.mat"],
 	    "$src_dir/Convert_Matlab/Eurec4A_OA/date_num.mat"
 	]
     },
     {
 	"title": "Graph_from_Matlab_v6_anti",
-	"command": ["$src_dir/Convert_Matlab/overlap_v6.py", "anti"],
+	"command": "$src_dir/Convert_Matlab/overlap_v6.py",
 	"required":
 	[
-	    "$src_dir/Convert_Matlab/Eurec4A_OA/id_child_anti.mat",
-	    "$src_dir/Convert_Matlab/Eurec4A_OA/Nanti.mat",
+	    [
+		"$src_dir/Convert_Matlab/Eurec4A_OA/id_child_anti.mat",
+				"id_child.mat"
+	    ],
+	    ["$src_dir/Convert_Matlab/Eurec4A_OA/Nanti.mat", "N_eddies.mat"],
 	    "$src_dir/Convert_Matlab/Eurec4A_OA/date_num.mat"
 	]
     },

Overlap/Analysis/tests.json

@@ -34,10 +34,7 @@
 	],
 	"required":
 	[
-	    [
-		"$tests_old_dir/Graph_from_Matlab_v6_anti/edgelist_anti.csv",
-		"edgelist.csv"
-	    ],
+	    "$tests_old_dir/Graph_from_Matlab_v6_anti/edgelist.csv",
 	    "$tests_old_dir/Graph_from_Matlab_v6_anti/node_id_param.json"
 	]
     }