fix(weakRates): major progress in resolving bugs

bigs were introduced by the interface change from accepting raw molar abundance vectors to using the composition vector. This commit resolves many of these, including preformant ways to report that a species is not present in the composition and unified index lookups using composition object tooling.

BREAKING CHANGE:

src/include/gridfire/utils/logging.h

@@ -1,10 +1,9 @@
 #pragma once
 
 #include "gridfire/engine/engine_abstract.h"
+#include "fourdst/composition/composition.h"
 
 #include <string>
-#include <vector>
-
 
 namespace gridfire::utils {
     /**
@@ -17,7 +16,7 @@ namespace gridfire::utils {
      *
      * @param engine A constant reference to a `DynamicEngine` object, used to
      *               calculate the species timescales.
-     * @param Y A vector of the molar abundances (mol/g) for each species.
+     * @param composition The current composition of the plasma
      * @param T9 The temperature in units of 10^9 K.
      * @param rho The plasma density in g/cm^3.
      * @return A std::string containing the formatted table of species and their