Allow fitting with perturbative charm (or any other basis)

Created by: scarlehoff

There were a few places where the flavours were fixed (which assumed charm was fitted), this basically propagates the information from the runcard, hoping that at the end it will be rotated to whatever is the correct thing wanted by the fktable.

Two things are missing here,

1. An actual basis (from a quick look, all basis in pdfbases.py are for fitted charm right?, so it needs to be added)
2. An actual check (at the moment I am acting as if the fktables would be just the same meaning that combination 1-2 for theory 53 is the same as for theory 65. Is that the case? (i.e., is any reshuffling of the PDF output needed from one theory to the other?)

In any case, these were the basic points I mentioned in #1002 (closed) blocking the perturbative charm fit from the n3fit side.

n3fit/src/n3fit/tests/test_fit.py

@@ -151,11 +151,16 @@ def test_novalidation(tmp_path, timing=30):
 
 
 def test_weirdbasis(tmp_path, timing=30):
-    """ Runs a runcard with perturbative charm, success is assumed if it doesn't crash in 30 seconds
-    Checks that the code runs when it needs to rotate the output of the NN to the NN31IC basis
-    """
+    """ Runs a runcard with perturbative charm basis but an intrinsic charm theory
+    so the run will be stopped by the checks """
+    # Once we have a light theory with perturbative charm for testing, this test can be enabled
+    # to do the commented docstring
+#     """ Runs a runcard with perturbative charm, success is assumed if it doesn't crash in 30 seconds
+#     Checks that the code runs when it needs to rotate the output of the NN to the NN31IC basis
+#     """
     quickcard = f"pc-{QUICKNAME}.yml"
     quickpath = REGRESSION_FOLDER / quickcard
     shutil.copy(quickpath, tmp_path)
-    with pytest.raises(sp.TimeoutExpired):
-        sp.run(f"{EXE} {quickcard} {REPLICA}".split(), cwd=tmp_path, timeout=timing)
+#     with pytest.raises(sp.TimeoutExpired):
+    with pytest.raises(sp.CalledProcessError):
+        sp.run(f"{EXE} {quickcard} {REPLICA}".split(), cwd=tmp_path, timeout=timing, check=True)