Separate SW_netCDF.c into General, Input and Output

- Motivation: With nc inputs coming with the branch, it is good to modularize the different functionalities

- Rename current `SW_netCDF.c` to `SW_netCDF_General.c`
- Create two new files including their own header file
	* SW_netCDF_Input.c
	* SW_netCDF_Output.c

- SW_netCDF_General.c
	* Provides general functionality between itself and the two other files
	* This file includes
		- The writing/getting of attribute/values from netCDF variables/dimensions
		- The full creation of templates and variables
		- Getting dimension sizes
		- Reading input/output information
	* Most functions that were previously static in SW_netCDF.c have been converted to functions with global-level visibility or were moved to the other two files

- SW_netCDF_Output.c
	* Contains functionality that pertains to netCDF outputs
	* Main functionalities that are contained within this are
		- Reading the output variable information into the program
		- Conversion from SOILWAT2 units to output units
		- Creation of and writing to output files

- SW_netCDF_Input.c
	* Contains functionality that pertains to netCDF inputs
	* Main functionalities that are contained within this are
		- Creating/modifying domain/progress files
		- Reading user inputted values

- Modified function `SW_NC_init_ptrs()` to call helper functions within Output and Input files
	* `SW_NCOUT_init_ptrs()` and `SW_NCIN_init_ptrs()` do mostly the same of what `SW_NC_init_ptrs()` did minus the point below
- Removed commented chunk of code from `SW_OUTDOM_init_ptrs()` and placed it in `SW_NCIN_init_ptrs()`
- Moved static local variables and defines to their respective file

include/SW_netCDF_General.h

@@ -0,0 +1,181 @@
+#ifndef SWNETCDF_GEN_H
+#define SWNETCDF_GEN_H
+
+#include "include/generic.h"        // for Bool, IntUS
+#include "include/SW_datastructs.h" // for SW_DOMAIN, SW_NETCDF_OUT, S...
+#include "include/SW_Defines.h"     // for OutPeriod, SW_OUTNPERIODS, SW_OUTN...
+#include <stdio.h>                  // for size_t
+
+#ifdef __cplusplus
+extern "C" {
+#endif
+
+/* =================================================== */
+/*                  Local Definitions                  */
+/* --------------------------------------------------- */
+
+/** Domain netCDF index within `InFilesNC` and `varNC` (SW_NETCDF_OUT) */
+#define vNCdom 0
+
+/** Progress netCDF index within `InFilesNC` and `varNC` (SW_NETCDF_OUT) */
+#define vNCprog 1
+
+#define MAX_NUM_DIMS 5
+
+/** Number of possible keys within `attributes_nc.in` */
+#define NUM_ATT_IN_KEYS 28
+
+/* =================================================== */
+/*             Global Function Declarations            */
+/* --------------------------------------------------- */
+
+void SW_NC_get_dimlen_from_dimid(
+    int ncFileID, int dimID, size_t *dimVal, LOG_INFO *LogInfo
+);
+
+void SW_NC_get_dim_identifier(
+    int ncFileID, const char *dimName, int *dimID, LOG_INFO *LogInfo
+);
+
+void SW_NC_check(
+    SW_DOMAIN *SW_Domain, int ncFileID, const char *fileName, LOG_INFO *LogInfo
+);
+
+void SW_NC_get_single_val(
+    int ncFileID,
+    int *varID,
+    const char *varName,
+    size_t index[],
+    void *value,
+    const char *type,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_write_att(
+    const char *attName,
+    void *attVal,
+    int varID,
+    int ncFileID,
+    size_t numVals,
+    int ncType,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_write_string_att(
+    const char *attName,
+    const char *attStr,
+    int varID,
+    int ncFileID,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_write_string_vals(
+    int ncFileID, int varID, const char *const varVals[], LOG_INFO *LogInfo
+);
+
+Bool SW_NC_dimExists(const char *targetDim, int ncFileID);
+
+Bool SW_NC_varExists(int ncFileID, const char *varName);
+
+void SW_NC_write_vals(
+    int *varID,
+    int ncFileID,
+    const char *varName,
+    void *values,
+    size_t start[],
+    size_t count[],
+    const char *type,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_get_str_att_val(
+    int ncFileID,
+    const char *varName,
+    const char *attName,
+    char *strVal,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_create_netCDF_dim(
+    const char *dimName,
+    unsigned long size,
+    const int *ncFileID,
+    int *dimID,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_get_var_identifier(
+    int ncFileID, const char *varName, int *varID, LOG_INFO *LogInfo
+);
+
+void SW_NC_get_dimlen_from_dimname(
+    int ncFileID, const char *dimName, size_t *dimVal, LOG_INFO *LogInfo
+);
+
+void SW_NC_create_full_var(
+    int *ncFileID,
+    const char *domType,
+    int newVarType,
+    size_t timeSize,
+    size_t vertSize,
+    size_t pftSize,
+    const char *varName,
+    const char *attNames[],
+    const char *attVals[],
+    unsigned int numAtts,
+    Bool hasConsistentSoilLayerDepths,
+    double lyrDepths[],
+    double *startTime,
+    unsigned int baseCalendarYear,
+    unsigned int startYr,
+    OutPeriod pd,
+    int deflateLevel,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_dealloc_outputkey_var_info(SW_OUT_DOM *OutDom, IntUS k);
+
+void SW_NC_create_netCDF_var(
+    int *varID,
+    const char *varName,
+    int *dimIDs,
+    const int *ncFileID,
+    int varType,
+    int numDims,
+    size_t chunkSizes[],
+    int deflateLevel,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_create_template(
+    const char *domType,
+    const char *domFile,
+    const char *fileName,
+    int *newFileID,
+    Bool isInput,
+    const char *freq,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_deconstruct(SW_NETCDF_OUT *SW_netCDFOut, SW_NETCDF_IN *SW_netCDFIn);
+
+void SW_NC_deepCopy(
+    SW_NETCDF_OUT *source_output,
+    SW_NETCDF_IN *source_input,
+    SW_NETCDF_OUT *dest_output,
+    SW_NETCDF_IN *dest_input,
+    LOG_INFO *LogInfo
+);
+
+void SW_NC_read(
+    SW_NETCDF_IN *SW_netCDFIn,
+    SW_NETCDF_OUT *SW_netCDFOut,
+    SW_PATH_INPUTS *SW_PathInputs,
+    LOG_INFO *LogInfo
+);
+
+#ifdef __cplusplus
+}
+#endif
+
+#endif // SWNETCDF_GEN_H