Merge commit 'ce146657651cc320ca02f6a8d51c4ac00b5f4daa'

autofuzslppos/taudem_ext/src/CatchHydroGeo.cpp

@@ -47,7 +47,9 @@ email:  dtarb@usu.edu
 #include "linearpart.h"
 #include "createpart.h"
 #include "tiffIO.h"
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+
+using std::unordered_map;
 
 int readline(FILE *fp, char *fline)
 {

autofuzslppos/taudem_ext/src/CatchOutlets.cpp

@@ -59,7 +59,7 @@ email:  dtarb@usu.edu
 //#include "shapelib/shapefil.h"
 #include "CatchOutlets.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 OGRSFDriverH    driver;
 //OGRDataSourceH  hDSsh, hDSshmoved;
 //OGRLayerH       hLayersh, hLayershmoved;

autofuzslppos/taudem_ext/src/ConnectDown.cpp

@@ -66,7 +66,7 @@ email:  dtarb@usu.edu
 //#include "shapelib/shapefil.h"
 #include "ConnectDown.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 OGRSFDriverH driver;
 OGRDataSourceH hDSsh, hDSshmoved;

autofuzslppos/taudem_ext/src/D8HDistToStrm.cpp

@@ -52,7 +52,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int distgrid(char *pfile, char *srcfile, char *distfile, int thresh) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/D8flowpathextremeup.cpp

@@ -54,7 +54,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int d8flowpathextremeup(char *pfile,
                         char *safile,

autofuzslppos/taudem_ext/src/DinfAvalanche.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/DinfConcLimAccum.cpp

@@ -48,7 +48,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/DinfDistDown.cpp

@@ -49,7 +49,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "DinfDistDown.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/DinfDistUp.cpp

@@ -49,7 +49,7 @@ email:  dtarb@usu.edu
 #include "DinfDistUp.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/DinfRevAccum.cpp

@@ -46,7 +46,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int dsaccum(char *angfile, char *wgfile, char *raccfile, char *dmaxfile) {
 

autofuzslppos/taudem_ext/src/DinfTransLimAccum.cpp

@@ -48,7 +48,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/DinfUpDependence.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int depgrd(char *angfile, char *dgfile, char *depfile) {
 

autofuzslppos/taudem_ext/src/DropAnalysis.cpp

@@ -51,7 +51,8 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "DropAnalysis.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::setprecision;
 
 //returns true iff cell at [nrow][ncol] points to cell at [row][col]
 bool pointsToMe(long col, long row, long ncol, long nrow, tdpartition *dirData){

autofuzslppos/taudem_ext/src/EditRaster.cpp

@@ -45,7 +45,8 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 #include <stack>
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::stack;
 
 /*********************************************************************/
 int readline(FILE* fp, char* fline) {

autofuzslppos/taudem_ext/src/LengthArea.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int lengtharea(char *plenfile, char *ad8file, char *ssfile, float *p) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/MoveOutletsToStrm.cpp

@@ -67,7 +67,7 @@ email:  dtarb@usu.edu
 //#include "shapelib/shapefil.h"
 #include "MoveOutletsToStrm.h"
 #
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 OGRSFDriverH    driver;
 OGRDataSourceH  hDSsh, hDSshmoved;
 OGRLayerH       hLayersh, hLayershmoved;

autofuzslppos/taudem_ext/src/PeukerDouglas.cpp

@@ -49,7 +49,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "ctime"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int peukerdouglas(char *felfile, char *ssfile, float *p) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/RetlimFlow.cpp

@@ -49,7 +49,7 @@ email:  dtarb@usu.edu
 #include "initneighbor.h"
 #include <stdio.h>
 #include "retlimro.h"
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int retlimro(char *angfile, char *wgfile, char * rcfile, char *qrlfile)
 {

autofuzslppos/taudem_ext/src/SetRegion.cpp

@@ -54,7 +54,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 #include <stack>
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 /*********************************************************************/
 int readline(FILE *fp, char *fline)

autofuzslppos/taudem_ext/src/SlopeArea.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int slopearea(char *slopefile, char *scafile, char *safile, float *p) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/SlopeAreaRatio.cpp

@@ -45,7 +45,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int atanbgrid(char *slopefile, char *areafile, char *atanbfile) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/SlopeAveDown.cpp

@@ -47,7 +47,8 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::min;
 
 //float dist[9];
 float **dist;

autofuzslppos/taudem_ext/src/TWI.cpp

@@ -45,7 +45,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int twigrid(char *slopefile, char *areafile, char *twifile) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/Threshold.cpp

@@ -45,7 +45,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int threshold(char *ssafile, char *srcfile, char *maskfile, float thresh, int usemask) {
     MPI_Init(NULL, NULL);

autofuzslppos/taudem_ext/src/aread8.cpp

@@ -48,7 +48,7 @@ email:  dtarb@usu.edu
 #include <iostream>
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int aread8(char *pfile,
            char *afile,

autofuzslppos/taudem_ext/src/areadinf.cpp

@@ -48,7 +48,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int area(char *angfile,
          char *scafile,

autofuzslppos/taudem_ext/src/commonLib.h

@@ -68,10 +68,21 @@ email:  dtarb@usu.edu
 #include <sys/time.h>
 #include <fcntl.h>
 #endif /* windows */
+
 #define MCW MPI_COMM_WORLD
 #define MAX_STRING_LENGTH 255
 #define MAXLN 4096
 
+using std::cout;
+using std::endl;
+using std::nothrow;
+
+using std::queue;
+using std::vector;
+
+using std::ifstream;
+using std::ios;
+
 //TODO: revisit these to see if they are used/needed
 //#define ABOVE 1
 //#define BELOW 2

autofuzslppos/taudem_ext/src/d8.cpp

@@ -46,7 +46,7 @@ email:  dtarb@usu.edu
 //#include "tiffIO.h"    Part of Commonlib
 #include "Node.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 double **fact;
 

autofuzslppos/taudem_ext/src/dinf.cpp

@@ -47,7 +47,8 @@ email:  dtarb@usu.edu
 #include <math.h>
 #include "Node.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::max;
 
 //double fact[9];
 double **fact;

autofuzslppos/taudem_ext/src/dinfdecayaccum.cpp

@@ -48,7 +48,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 
 // The old program was written in column major order.

autofuzslppos/taudem_ext/src/flood.cpp

@@ -46,7 +46,8 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include <stack>
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::stack;
 
 int flood(char *demfile, char *felfile, char *sfdrfile, int usesfdr, bool verbose,
           bool is_4Point, bool use_mask, char *maskfile)  // these three added by arb, 5/31/11

autofuzslppos/taudem_ext/src/flowdircond.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "initneighbor.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int flowdircond(char* pfile, char* zfile, char* zfdcfile) {
 

autofuzslppos/taudem_ext/src/gagewatershed.cpp

@@ -49,7 +49,7 @@ email:  dtarb@usu.edu
 #include "tiffIO.h"
 #include "ogrsf_frmts.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int gagewatershed(char *pfile,
                   char *wfile,

autofuzslppos/taudem_ext/src/gridnet.cpp

@@ -47,7 +47,7 @@ email:  dtarb@usu.edu
 #include "createpart.h"
 #include "tiffIO.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 int gridnet(char *pfile, char *plenfile, char *tlenfile, char *gordfile, char *maskfile,
             char *datasrc, char *lyrname, int uselyrname, int lyrno, int useMask, int useOutlets, int thresh) {//1

autofuzslppos/taudem_ext/src/linearpart.h

@@ -51,7 +51,8 @@ email:  dtarb@usu.edu
 
 #ifndef LINEARPART_H
 #define LINEARPART_H
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
+using std::bad_alloc;
 
 template<class datatype>
 class linearpart : public tdpartition {

autofuzslppos/taudem_ext/src/linklib.h

@@ -53,7 +53,7 @@ email:  dtarb@usu.edu
 //#include "shapelib/shapefil.h"
 //#ifndef LINKLIB_H
 //#define LINKLIB_H
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 long LAST_ID = -1;
 

autofuzslppos/taudem_ext/src/ogrtest.cpp

@@ -1,7 +1,7 @@
 #include "ogr_api.h"
 #include "commonLib.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 int readwriteogr(char *datasrc, char *layername, char *datasrcnew, char *layernamenew) {
 
     OGRSFDriverH hDriver, hDriver1;

autofuzslppos/taudem_ext/src/ogrtestmn.cpp

@@ -1,7 +1,7 @@
 #include "ogr_api.h"
 #include "commonLib.h"
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 int readwriteogr(char *datasrc, char *layername, char *datasrcnew, char *layernamenew);
 int main(int argc, char **argv) {
     char datasrc[MAXLN], layername[MAXLN], datasrcnew[MAXLN], layernamenew[MAXLN];

autofuzslppos/taudem_ext/src/streamnet.cpp

@@ -59,7 +59,7 @@ email:  dtarb@usu.edu
 #include "ogr_api.h"
 #include <limits>
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 OGRSFDriverH driver;
 OGRDataSourceH hDS1;

autofuzslppos/taudem_ext/src/tiffIO.cpp

@@ -50,7 +50,7 @@ email:  dtarb@usu.edu
 //#include "commonLib.h"  //Part of tiffIO.h
 #include <iostream>
 
-using namespace std;
+// using namespace std; // Avoid to using the entire namespace of std. Comment by Liangjun, 01/23/19
 
 tiffIO::tiffIO(char *fname, DATA_TYPE newtype) {
     MPI_Status status;