Merge branch 'Data'

.gitignore

@@ -2,3 +2,92 @@
 *.png
 *.exe
 *.csv
+*.png
+*.dia
+
+Code-C/main
+Code-C/exect
+Code-C/ctest
+Code-C/DartConfiguration.tcl
+
+Makefile
+
+# Created by https://www.toptal.com/developers/gitignore/api/cmake,c
+# Edit at https://www.toptal.com/developers/gitignore?templates=cmake,c
+
+### C ###
+# Prerequisites
+*.d
+
+# Object files
+*.o
+*.ko
+*.obj
+*.elf
+
+# Linker output
+*.ilk
+*.map
+*.exp
+
+# Precompiled Headers
+*.gch
+*.pch
+
+# Libraries
+*.lib
+*.a
+*.la
+*.lo
+
+# Shared objects (inc. Windows DLLs)
+*.dll
+*.so
+*.so.*
+*.dylib
+
+# Executables
+*.exe
+*.out
+*.app
+*.i*86
+*.x86_64
+*.hex
+*/Executable
+
+# Debug files
+*.dSYM/
+*.su
+*.idb
+*.pdb
+
+# Kernel Module Compile Results
+*.mod*
+*.cmd
+.tmp_versions/
+modules.order
+Module.symvers
+Mkfile.old
+dkms.conf
+
+### CMake ###
+CMakeLists.txt.user
+CMakeCache.txt
+CMakeFiles
+CMakeScripts
+Testing
+Makefile
+cmake_install.cmake
+install_manifest.txt
+compile_commands.json
+CTestTestfile.cmake
+_deps
+
+### CMake Patch ###
+# External projects
+*-prefix/
+
+### DataFiles ###
+*/RawDataFiles
+
+# End of https://www.toptal.com/developers/gitignore/api/cmake,c

.vscode/launch.json

@@ -0,0 +1,7 @@
+{
+    // Use IntelliSense to learn about possible attributes.
+    // Hover to view descriptions of existing attributes.
+    // For more information, visit: https://go.microsoft.com/fwlink/?linkid=830387
+    "version": "0.2.0",
+    "configurations": []
+}

.vscode/settings.json

@@ -15,6 +15,11 @@
         "*.tcc": "c",
         "type_traits": "c",
         "simulateflux.h": "c",
-        "pthread.h": "c"
+        "pthread.h": "c",
+        "types.h": "c",
+        "average.h": "c",
+        "queue.h": "c",
+        "growthrate.h": "c",
+        "stdbool.h": "c"
     }
 }

Code-C/CMakeLists.txt

@@ -0,0 +1,41 @@
+cmake_minimum_required(VERSION 2.6)
+project(Traitement-signal-plantes C)
+
+include(CTest)
+enable_testing()
+set(CMAKE_C_FLAGS "-std=c99 -g -Wall") #what are the flag for ?
+
+file(MAKE_DIRECTORY RawDataFiles) #why do we make this folder each time ?
+file(MAKE_DIRECTORY Executable)
+
+set (CMAKE_RUNTIME_OUTPUT_DIRECTORY Executable) #Set Executable directory as default exectutable file location
+
+add_executable(exect fileGestion.c getArray.c average.c growthRate.c power.c queue.c simulateFlux.c main.c)
+# add_executable(exect main.c simulateFlux.c queue.c power.c growthRate.c average.c getArray.c fileGestion.c)
+
+find_package(Threads)
+target_link_libraries(exect ${CMAKE_THREAD_LIBS_INIT} m)
+
+set(CTEST_MEMORYCHECK_TYPE "AddressSanitizer")
+set(CTEST_MEMORYCHECK_SANITIZER_OPTIONS "verbosity=1:symbolize=1:abort_on_error=1:detect_leaks=1")
+
+add_executable(ctest fileGestion.c getArray.c average.c growthRate.c queue.c simulateFlux.c ctest.c)
+target_link_libraries(ctest ${CMAKE_THREAD_LIBS_INIT} m)
+
+add_test(test_queueCreateEmpty ./ctest queueCreateEmpty)
+add_test(test_queueCreateE ./ctest queueCreateE)
+
+add_test(test_queueSetCharLen ./ctest queueSetCharLen)
+add_test(test_queueGetCharLen ./ctest queueGetCharLen)
+
+add_test(test_queueSetTabChar ./ctest queueSetTabChar)
+add_test(test_queueGetTabChar ./ctest queueGetTabChar)
+
+add_test(test_queueSetNextE ./ctest queueSetNextE)
+add_test(test_queueGetNextE ./ctest queueGetNextE)
+
+add_test(test_queueAddLastQ ./ctest queueAddLastQ)
+add_test(test_queueRmLastE ./ctest queueRmLastE)
+add_test(test_queueRmFrstE ./ctest queueRmFrstE)
+add_test(test_queueNextDelFrst ./ctest queueNextDelFrst)
+

Code-C/Makefile

@@ -1,7 +0,0 @@
-CC = gcc
-
-all: 
-	$(CC) fileGestion.c getArray.c average.c power.c queue.c simulateFlux.c main.c -lm -lpthread -o main 
-
-#	$(CC) queue.c simulateFlux.c main.c -lm -lpthread -o main 
-	./main < ../02400031.TXT

Code-C/Makefileold

@@ -0,0 +1,5 @@
+CC = gcc
+
+all: 
+	$(CC) -g fileGestion.c getArray.c average.c growthRate.c power.c queue.c simulateFlux.c main.c -lm -lpthread -o main 
+	./main < ../02400031.TXT

Code-C/average.c

@@ -1,26 +1,28 @@
-#include "average.h"
-#include "getArray.h"
-#include "fileGestion.h"
-#include "initialParameters.h"
-#include "queue.h"
+#include "include/average.h"
+#include "include/getArray.h"
+#include "include/fileGestion.h"
+#include "include/initialParameters.h"
+#include "include/queue.h"
 /**
  * @brief realize the average calcul
  *
  * @param p array with all the values that will be used for the calcul
  * @param averageArray array where results are stocked
- * @param N number of rows in p
- * @param M number of columns in p
  */
-void averageCalculation(long **p, double averageArray[]){
-    for(int i = 1; i < nCol; i++){
+void averageCalculation(long **p, double averageArray[])
+{
+    // printArrayData(p, nRowRawData, nCol);
+    // printf("\n");
+    for (int i = 1; i < nCol; i++)
+    {
         int j = 0;
         averageArray[i] = 0;
-        while(j < nRow -1){
-            averageArray[i] += p[i][j];
+        while (j < nRowRawData)
+        {
+            averageArray[i - 1] += (double)p[i][j];
             j++;
         }
-        averageArray[i] /= N;
-        //printf("%f\n", powerArray[i]);
+        averageArray[i] /= nRowRawData;
     }
 }
 
@@ -28,15 +30,26 @@ void averageCalculation(long **p, double averageArray[]){
  * @brief function that realize all the action to write one lign in the file averageData.csv
  *
  * @param rawDataFileName name of the raw data file to use to realize the calcul
- * @param N number of rows in the file
- * @param M number of columns in the file
  */
-void average(char* rawDataFileName,int N , int M){
-    long **p = getRawDataArray(rawDataFileName,N, M);
-    double aver[8];
-    if(p !=NULL){
-        averageCalculation(p,aver,N,M);
-        writeDataInFile("averageData.csv",aver,8);
-        freeArray(p,N);
+void averageFunction(char *rawDataFileName, double **aver)
+{
+    long **p = getRawDataArray(rawDataFileName);
+    double averN[nCol - 1];
+    if (p != NULL)
+    {
+        if (p != NULL)
+        {
+            if (aver == NULL)
+            {
+                averageCalculation(p, averN);
+                appendDataInFile("averageData.csv", averN, nCol - 1);
+            }
+            else
+            {
+                averageCalculation(p, aver[1]);
+                appendDataInFile("averageData.csv", aver[1], nCol - 1);
+            }
+            freeArray(p, nRowRawData);
+        }
     }
 }

Code-C/average.h

@@ -1,4 +0,0 @@
-#include <math.h>
-#include <stdbool.h>
-
-void average(char* rawDataFileName,int N , int M);

Code-C/b2hd.c

@@ -1,4 +1,20 @@
-#include "b2hd.h"
+#include "include/b2hd.h"
+#include <time.h>
+
+
+
+int64_t millis(){
+    //struct timespec now;
+    struct timespec *now = (struct timespec *) malloc(sizeof(struct timespec));
+    //timespec_get(&now, TIME_UTC);
+    timespec_get(now, TIME_UTC);
+
+    //#ifdef __USE_ISOC11 ????
+    int64_t tmp = (((int64_t) now->tv_sec) * 1000 + ((int64_t) now->tv_nsec) / ((int64_t) 1000000));
+    free(now);
+    return tmp;
+}
+
 /**
  * @brief allow to transform all binary hex data send by the Vegetal Signal captor in a .TXT file into decimal values in a .csv
  * 
@@ -14,7 +30,7 @@ void b2hd()
   quartet value;
   
   while (fread(&buff, 26, 1, stdin)) {
-    fprintf(stdout , "%d,", millis());
+    fprintf(stdout , "%ld,", millis());
     for (int i = 1; i < 9; i++){
     /*buff[25] = '\0';*/
       if (strncmp(buff, "#################\n", (size_t)18) == 0) {
@@ -44,7 +60,6 @@ void b2hd()
   }
 }
 
-
 int main(int argc , char** argv){
   b2hd();
 }

Code-C/csv2json.c

@@ -0,0 +1,25 @@
+#include <stdio.h>
+#include <string.h>
+#include <stdint.h>
+#include <stdlib.h>
+#include <stdbool.h>
+
+void writeCaptorNumber(int N)
+{
+    fprintf(stdout ,"{\n\"captorNumber\" : %d , " , N);
+}
+
+void writeTimeArray()
+{
+    while 
+}
+
+void writeValuesArray(int N)
+{
+
+}
+
+int main(int argc, char **argv)
+{
+
+}

Code-C/ctest.c

@@ -0,0 +1,308 @@
+#define __USE_GNU
+#include <assert.h>
+#include <stdbool.h>
+#include <stdlib.h>
+#include <stdio.h>
+#include <string.h>
+
+#include "include/fileGestion.h"
+#include "include/getArray.h"
+#include "include/growthRate.h"
+#include "include/power.h"
+#include "include/simulateFlux.h"
+#include "include/queue.h"
+#include "include/average.h"
+//#include "b2hd.h"
+
+bool rawDataWriteFlag;
+int nRowRawData = 500;
+int nRowGR = 150;
+int nCol = 1;
+double freqEch = 250;
+
+int nbRowBinFile = 900011;
+int nbRowIgnore = 19;
+
+Pqueue firstRawDataQueue;
+// Captor                    1     2      3     4      5      6      7     8
+bool selectionCaptors[] = {true, false, true, false, false, false, true, false};
+
+int cptData = 0;
+int cptFile = 1;
+int cptValue = 0;
+
+double period = 0;
+double invTimeBandWidth = 0;
+
+bool test_queueCreateEmpty()
+{
+  Pqueue new = queueCreateEmpty();
+
+  assert(queueGetCharLen(new) == 0);
+  assert(queueGetTabChar(new) == NULL);
+  assert(queueGetNextE(new) == NULL);
+
+  // queueDelAll(new);
+  queueRmFrstE(new);
+
+  return EXIT_SUCCESS;
+}
+
+bool test_queueCreateE()
+{
+  const char tabChar[12] = "PetitNavire\0";
+  Pqueue new = queueCreateE(12, tabChar);
+
+  const char *test = queueGetTabChar(new);
+
+  assert(queueGetCharLen(new) == 12);
+  assert(test != NULL);
+  assert(strcmp(test, tabChar) == 0);
+  assert(queueGetNextE(new) == NULL);
+
+  queueRmFrstE(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueSetCharLen()
+{
+  Pqueue new = queueCreateEmpty();
+
+  queueSetCharLen(new, 13);
+
+  assert(queueGetCharLen(new) == 13);
+  assert(queueGetTabChar(new) == NULL);
+  assert(queueGetNextE(new) == NULL);
+
+  // queueDelAll(new);
+  queueRmFrstE(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueSetTabChar()
+{
+  // Set and Get tabChar are similar because use for same test
+  Pqueue new = queueCreateEmpty();
+
+  const char tabChar[12] = "PetitNavire\0";
+  queueSetTabChar(new, 12, tabChar);
+  const char *test = queueGetTabChar(new);
+
+  assert(queueGetCharLen(new) == 12);
+  assert(test != NULL);
+  assert(strcmp(test, tabChar) == 0);
+  assert(queueGetNextE(new) == NULL);
+
+  queueRmFrstE(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueGetTabChar()
+{
+  Pqueue new = queueCreateEmpty();
+
+  const char tabChar[12] = "PetitNavire\0";
+  queueSetTabChar(new, 12, tabChar);
+  const char *test = queueGetTabChar(new);
+
+  assert(queueGetCharLen(new) == 12);
+  assert(test != NULL);
+  assert(strcmp(test, tabChar) == 0);
+  assert(queueGetNextE(new) == NULL);
+
+  queueRmFrstE(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueSetNextE()
+{
+  Pqueue new = queueCreateEmpty(), next = queueCreateEmpty();
+
+  queueSetNextE(new, next);
+
+  assert(queueGetNextE(new) == next);
+  assert(queueGetNextE(next) == NULL);
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueGetNextE()
+{
+  Pqueue new = queueCreateEmpty(), next = queueCreateEmpty();
+
+  queueSetNextE(new, next);
+
+  assert(queueGetNextE(new) == next);
+  assert(queueGetNextE(next) == NULL);
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueGetCharLen()
+{
+  Pqueue new = queueCreateEmpty();
+
+  assert(queueGetCharLen(new) == 0);
+
+  queueSetCharLen(new, 13);
+
+  assert(queueGetCharLen(new) == 13);
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueAddLastQ()
+{
+  Pqueue new = queueCreateEmpty(), next = NULL;
+  const char tabChar[12] = "PetitNavire\0";
+  queueAddLastQ(new, tabChar, 12);
+  next = queueGetNextE(new);
+
+  assert(next != NULL);
+  assert(queueGetCharLen(next) == 12);
+  assert(strcmp(queueGetTabChar(next), tabChar) == 0);
+  assert(queueGetNextE(next) == NULL);
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+bool test_queueRmLastE()
+{
+  Pqueue new = queueCreateEmpty();
+  const char tabChar[12] = "PetitNavire\0";
+  queueAddLastQ(new, tabChar, 12);
+  queueAddLastQ(new, tabChar, 12);
+
+  assert(queueGetNextE(new) != NULL && queueGetNextE(queueGetNextE(new)) != NULL && queueGetNextE(queueGetNextE(queueGetNextE(new))) == NULL);
+  queueRmLastE(new);
+  assert(queueGetNextE(new) != NULL && queueGetNextE(queueGetNextE(new)) == NULL);
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueRmFrstE()
+{
+  Pqueue new = queueCreateEmpty(), second;
+  const char tabChar[12] = "PetitNavire\0";
+  queueAddLastQ(new, tabChar, 12);
+  queueAddLastQ(new, tabChar, 12);
+  second = queueGetNextE(new);
+
+  assert(queueGetNextE(new) != NULL && queueGetNextE(queueGetNextE(new)) != NULL && queueGetNextE(queueGetNextE(queueGetNextE(new))) == NULL);
+  new = queueRmFrstE(new);
+  assert((new == second) && (queueGetNextE(new) != NULL) && (queueGetNextE(queueGetNextE(new)) == NULL));
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+bool test_queueNextDelFrst()
+{
+  Pqueue new = queueCreateEmpty(), second;
+  const char tabChar[12] = "PetitNavire\0";
+  queueAddLastQ(new, tabChar, 12);
+  queueAddLastQ(new, tabChar, 12);
+  second = queueGetNextE(new);
+
+  assert(queueGetNextE(new) != NULL && queueGetNextE(queueGetNextE(new)) != NULL && queueGetNextE(queueGetNextE(queueGetNextE(new))) == NULL);
+  new = queueNextDelFrst(new);
+  assert((new == second) && (queueGetNextE(new) != NULL) && (queueGetNextE(queueGetNextE(new)) == NULL));
+
+  queueDelAll(new);
+  return EXIT_SUCCESS;
+}
+
+/***************** Main test start *****************/
+
+void usage(int argc, char *argv[])
+{
+  fprintf(stderr, "Usage: %s <testname> [<...>]\n", argv[0]);
+  exit(EXIT_FAILURE);
+}
+
+int main(int argc, char *argv[])
+{
+  if (argc == 1)
+    usage(argc, argv);
+
+  // start test
+  fprintf(stderr, "=> Start test \"%s\"\n", argv[1]);
+  int ok = 1;
+  if (strcmp("queueCreateEmpty", argv[1]) == 0)
+  {
+    ok = test_queueCreateEmpty();
+  }
+  else if (strcmp("queueCreateE", argv[1]) == 0)
+  {
+    ok = test_queueCreateE();
+  }
+  else if (strcmp("queueSetCharLen", argv[1]) == 0)
+  {
+    ok = test_queueSetCharLen();
+  }
+  else if (strcmp("queueGetTabChar", argv[1]) == 0)
+  {
+    ok = test_queueGetTabChar();
+  }
+  else if (strcmp("queueSetNextE", argv[1]) == 0)
+  {
+    ok = test_queueSetNextE();
+  }
+  else if (strcmp("queueGetNextE", argv[1]) == 0)
+  {
+    ok = test_queueGetNextE();
+  }
+  else if (strcmp("queueGetCharLen", argv[1]) == 0)
+  {
+    ok = test_queueGetCharLen();
+  }
+  else if (strcmp("queueGetTabChar", argv[1]) == 0)
+  {
+    ok = test_queueGetTabChar();
+  }
+  else if (strcmp("queueSetTabChar", argv[1]) == 0)
+  {
+    ok = test_queueSetTabChar();
+  }
+  else if (strcmp("queueAddLastQ", argv[1]) == 0)
+  {
+    ok = test_queueAddLastQ();
+  }
+  else if (strcmp("queueRmLastE", argv[1]) == 0)
+  {
+    ok = test_queueRmLastE();
+  }
+  else if (strcmp("queueRmFrstE", argv[1]) == 0)
+  {
+    ok = test_queueRmFrstE();
+  }
+  else if (strcmp("queueNextDelFrst", argv[1]) == 0)
+  {
+    ok = test_queueNextDelFrst();
+    // }else if(strcmp("default_solution",argv[1]) == 0){
+    //   ok = test_game_default_solution();
+    // }else if(strcmp("default_solution",argv[1]) == 0){
+    //   ok = test_game_default_solution();
+  }
+  else
+  {
+    fprintf(stderr, "Error: test \"%s\" not found!\n", argv[1]);
+    exit(EXIT_FAILURE);
+  }
+
+  // print test result
+  if (ok == 0)
+  {
+    fprintf(stderr, "Test \"%s\" finished: SUCCESS\n", argv[1]);
+    return EXIT_SUCCESS;
+  }
+  else
+  {
+    fprintf(stderr, "Test \"%s\" finished: FAILURE\n", argv[1]);
+    return EXIT_FAILURE;
+  }
+}

Code-C/fileGestion.c

@@ -1,24 +1,29 @@
-#include "fileGestion.h"
-
+#include "include/fileGestion.h"
 
 /**
  * @brief function that delete nRow lign in the beginning of the file rawData.csv . This function is necessary to not deal with the same ligns over and over
  *
  * @param nRow number of lign in the beginning of the file rawData.csv that has to be delete
  */
-void clearRawData(int nRow){
+void clearRawData(int nRow)
+{
     char buffer[256];
-    FILE *f = fopen("newFile.csv","w+");
-    FILE *g = fopen("rawData.csv","r");
-    for(int i  = 0; i < nRow; i++){ //first the program read the first nRow ligns of the csv file but do nothing
-        fgets(buffer , sizeof buffer , g); 
+    FILE *f = fopen("newFile.csv", "w+");
+    FILE *g = fopen("rawData.csv", "r");
+    for (int i = 0; i < nRow; i++)
+    { // first the program read the first nRow ligns of the csv file but do nothing
+        fgets(buffer, sizeof buffer, g);
     }
-    while(1){ //then, till the end of the csv file it copy the lign to a new csv : newFile.csv
-        if(!fgets(buffer,sizeof buffer , g)) break;
-        fprintf(f,"%s",buffer);
+    while (1)
+    { // then, till the end of the csv file it copy the lign to a new csv : newFile.csv
+        if (!fgets(buffer, sizeof buffer, g))
+            break;
+        fprintf(f, "%s", buffer);
     }
-    remove("rawData.csv"); rename("newFile.csv", "rawData.csv"); //finally we remove the original file and rename the new one to replace rawData.csv
-    fclose(f); fclose(g);
+    remove("rawData.csv");
+    rename("newFile.csv", "rawData.csv"); // finally we remove the original file and rename the new one to replace rawData.csv
+    fclose(f);
+    fclose(g);
 }
 /**
  * @brief use to write one lign in the file "fileName"
@@ -26,15 +31,19 @@ void clearRawData(int nRow){
  * @param array array that contaign all the values to write in the file
  * @param nCol size of the array (correspond to the number of captor used)
  */
-void writeDataInFile(char* fileName , double array[], int nCol){
-    FILE *f = fopen(fileName,"a+");
-    for(int i = 0 ; i < nCol ; i++){
-        if( i < nCol-1){
+void appendDataInFile(char *fileName, double array[], int nCol)
+{
+    FILE *f = fopen(fileName, "a+");
+    for (int i = 0; i < nCol; i++)
+    {
+        if (i < nCol - 1)
+        {
             fprintf(f, "%f , ", array[i]);
-        } else {
+        }
+        else
+        {
             fprintf(f, "%f\n", array[i]);
         }
     }
     fclose(f);
 }
-

Code-C/getArray.c

@@ -1,48 +1,165 @@
-#include "getArray.h"
-#include "fileGestion.h"
+#include "include/getArray.h"
+#include "include/fileGestion.h"
+#include "include/initialParameters.h"
 //#include <string.h>
 
-long **get(int N, int M) /* Allocate the array */
+long **getlongArray(int N, int M) /* Allocate the array */
 {
     /* Check if allocation succeeded. (check for NULL pointer) */
     int i;
     long **array;
-    array = (long **) malloc(N*sizeof(long *));
-    for(i = 0 ; i < N ; i++)
-        array[i] = (long *) malloc( M*sizeof(long) );
+    array = (long **)malloc(N * sizeof(long *));
+    for (i = 0; i < N; i++)
+        array[i] = (long *)malloc(M * sizeof(long));
     return array;
 }
 
-void fillArrayWithRawData(char *rawDataFileName,long** p, int N, int M) {
-    int i, j;
+double **getDoubleArray(int N, int M) /* Allocate the array */
+{
+    /* Check if allocation succeeded. (check for NULL pointer) */
+    int i;
+    double **array;
+    array = (double **)malloc(N * sizeof(double *));
+    for (i = 0; i < N; i++)
+        array[i] = (double *)malloc(M * sizeof(double));
+    return array;
+}
+
+void fillArrayWithRawData(char *rawDataFileName, long **p, int N, int M)
+{
+    int i = 0, j;
     char *buffer;
     size_t bufsize = 200;
     buffer = (char *)malloc(bufsize * sizeof(char));
-    char* token;
+    char *token;
 
-    FILE *f = fopen(rawDataFileName,"r");
+    FILE *f = fopen(rawDataFileName, "r");
 
-    for(i = 0 ; i < N ; i++){
-        if (!getline(&buffer, &bufsize, f)) break; // condition d'arret de la boucle si fichier fini
-        j = 0;
-        while((token = strsep(&buffer,",")) != NULL){     // séparation valeur par virgule initiale : csv
-            p[i][j] = atoi(token);
-            j++;
+    long t, c1, c2, c3, c4, c5, c6, c7, c8;
+    switch (M)
+    {
+    case 2:
+        while (fscanf(f, "%ld,%ld[^\n] ", &t, &c1) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            i++;
         }
+        break;
+    case 3:
+        while (fscanf(f, "%ld,%ld,%ld[^\n] ", &t, &c1, &c2) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            i++;
         }
+        break;
+    case 4:
+        while (fscanf(f, "%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            i++;
+        }
+        break;
+    case 5:
+        while (fscanf(f, "%ld,%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3, &c4) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            p[i][4] = c4;
+            i++;
+        }
+        break;
+    case 6:
+        while (fscanf(f, "%ld,%ld,%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3, &c4, &c5) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            p[i][4] = c4;
+            p[i][5] = c5;
+            i++;
+        }
+        break;
+    case 7:
+        while (fscanf(f, "%ld,%ld,%ld,%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3, &c4, &c5, &c6) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            p[i][4] = c4;
+            p[i][5] = c5;
+            p[i][6] = c6;
+            i++;
+        }
+        break;
+    case 8:
+        while (fscanf(f, "%ld,%ld,%ld,%ld,%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3, &c4, &c5, &c6, &c7) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            p[i][4] = c4;
+            p[i][5] = c5;
+            p[i][6] = c6;
+            p[i][7] = c7;
+            i++;
+        }
+        break;
+    case 9:
+        while (fscanf(f, "%ld,%ld,%ld,%ld,%ld,%ld,%ld,%ld,%ld[^\n] ", &t, &c1, &c2, &c3, &c4, &c5, &c6, &c7, &c8) != EOF)
+        {
+            p[i][0] = t;
+            p[i][1] = c1;
+            p[i][2] = c2;
+            p[i][3] = c3;
+            p[i][4] = c4;
+            p[i][5] = c5;
+            p[i][6] = c6;
+            p[i][7] = c7;
+            p[i][8] = c8;
+            i++;
+        }
+        break;
+    default:
+        printf("bad column size -> time + nbr captor\n");
+    }
+
+    /************** Debug part **************/
+    // for (int ii = 0; ii < nRowRawData; ii++)
+    // {
+    //     for (int y = 0; y < nCol; y++)
+    //     {
+    //         printf("%ld,", p[ii][y]);
+    //         if (y == nCol - 1)
+    //             printf("lol\n");
+    //     }
+    // }
     fclose(f);
-
 }
+
 /**
  * @brief print all the element of a bidimensionnal array p of shape : N x M
  */
-void printArrayData(long** p, int N, int M) {
-    int i, j;
-    for(i = 0 ; i < N ; i++){
-        printf("line n°%d : " , i);
-        for(int j = 0 ; j < M ; j++){
-            printf("%d , " , p[i][j]);
-            if(j==(M-1)) printf("\n");
+void printArrayData(long **p, int N, int M)
+{
+    for (int i = 0; i < N; i++)
+    {
+        printf("line n°%d : ", i);
+        for (int j = 0; j < M; j++)
+        {
+            printf("%ld , ", p[i][j]);
+            if (j == (M - 1))
+                printf("\n");
         }
     }
 }
@@ -55,9 +172,14 @@ void printArrayData(long** p, int N, int M) {
  * @return true if the array contaign no NULL element
  * @return false if at least one element is null
  */
-bool checkArrayFullyFill(long **p, int N , int M){
-    for(int i  = 0 ; i < N ; i++){
-            if(p[i][0] == '\0'){ return false; }
+bool checkArrayFullyFill(long **p, int N)
+{
+    for (int i = 0; i < N; i++)
+    {
+        if (p[i][0] == '\0')
+        {
+            return false;
+        }
     }
     return true;
 }
@@ -68,8 +190,10 @@ bool checkArrayFullyFill(long **p, int N , int M){
  * @param p array to free memory
  * @param N number of rows in array
  */
-void freeArray(long **p, int N) {
-    for(int i = 0 ; i < N ; i++){
+void freeArray(long **p, int N)
+{
+    for (int i = 0; i < N; i++)
+    {
         free(p[i]);
     }
     free(p);
@@ -83,12 +207,13 @@ void freeArray(long **p, int N) {
  * @param M numbers of columns to have i the array
  * @return long** the array fill with raw data
  */
-long **getRawDataArray(char* rawDataFileName , int N , int M){
+long **getRawDataArray(char *rawDataFileName)
+{
     long **p;
-    p = get(nRow, nCol);
-    fillArrayWithRawData(rawDataFileName,p ,nRow, nCol);
-    //if(checkArrayFullyFill(p,nRow)){
-        //clearRawData(N);
+    p = getlongArray(nRowRawData, nCol);
+    fillArrayWithRawData(rawDataFileName, p, nRowRawData, nCol);
+    // if(checkArrayFullyFill(p,nRow)){
+    // clearRawData(N);
     return p;
     /*}
     else{

Code-C/growthRate.c

@@ -0,0 +1,36 @@
+#include "include/initialParameters.h"
+#include "include/fileGestion.h"
+#include "include/getArray.h"
+#include "include/growthRate.h"
+/**
+ * @brief calculate de growth rate between to point next to each other
+ * 
+ * @param dataArray array with data of points next to each other for each captor (dim : 2 * nCols)
+ * @param gRateArray array that contaigns results of the growth ratecalculation
+ */
+void growthRateCalculation(double **dataArray , double *gRateArray){
+    for(int i = 0 ; i < nCol-1 ; i++){
+        gRateArray[i] = (dataArray[0][i] - dataArray[1][i]) / period;
+    }
+}
+/**
+ * @brief calcul then print differentiate in csv
+ * 
+ * @param dataLign 
+ */
+void growthRateFunction(double **dataLign , char* fileName){
+    double gRateArray[nCol-1];
+    growthRateCalculation(dataLign , gRateArray);
+    appendDataInFile(fileName,gRateArray , nCol-1);
+}
+
+void sumColArray(long **p, double res[] , int N , int M){
+    for(int i = 1; i < M; i++){
+        int j = 0;
+        res[i] = 0;
+        while(j < N){
+            res[i] += p[i][j];
+            j++;
+        }
+    }
+}

Code-C/include/average.h

@@ -0,0 +1,4 @@
+#include <math.h>
+#include <stdbool.h>
+
+void averageFunction(char* rawDataFileName , double **aver);

Code-C/include/b2hd.h

@@ -2,23 +2,19 @@
 #include <string.h>
 #include <stdint.h>
 #include <stdlib.h>
-#include <time.h>
+//#include <linuxstruct_timespec.h>
+#define __USE_ISOC11 1
+#include <linux/time.h>
 #include <math.h>
 
 /**
  * @brief struct used to stock binary 32 bits data from the captor
  *
  */
-typedef struct {
+typedef struct
+{
   uint8_t octet1;
   uint8_t octet2;
   uint8_t octet3;
   uint8_t octet4;
 } quartet;
-
-int64_t millis()
-{
-    struct timespec now;
-    timespec_get(&now, TIME_UTC);
-    return ((int64_t) now.tv_sec) * 1000 + ((int64_t) now.tv_nsec) / 1000000;
-}

Code-C/include/fileGestion.h

@@ -5,4 +5,4 @@
 
 
 void clearRawData(int N);
-void writeDataInFile(char* fileName , double a[], int N);
+void appendDataInFile(char* fileName , double a[], int N);

Code-C/include/getArray.h

@@ -0,0 +1,12 @@
+#include <stdio.h>
+#include <string.h>
+#include <stdint.h>
+#include <stdlib.h>
+#include <stdbool.h>
+#include <inttypes.h>
+
+long **getRawDataArray(char *rawDataFileName);
+void printArrayData(long **p , int N , int M);
+void freeArray(long **p, int N);
+bool checkArrayFullyFill(long **p, int N);
+double **getDoubleArray(int N, int M);

Code-C/include/growthRate.h

@@ -0,0 +1,4 @@
+#include <math.h>
+#include <stdbool.h>
+
+void growthRateFunction(double **dataLign , char* fileName);

Code-C/include/initialParameters.h

@@ -2,16 +2,18 @@
 #include "queue.h"
 
 extern bool rawDataWriteFlag;
-extern int nRow;
+extern int nRowRawData;
+extern int nRowGR;
 extern int nCol;
 extern double freqEch;
+extern int nbRowBinFile;
+extern int nbRowIgnore;
 
 extern int cptFile;
-
+extern int cptValue;
 extern double period;
 extern double invTimeBandWidth;
 
-extern int selectionCaptors[];
-extern int sizeSelectionArray;
+extern bool selectionCaptors[];
 
 extern Pqueue firstRawDataQueue;

Code-C/include/power.h

@@ -0,0 +1,4 @@
+#include <math.h>
+#include <stdbool.h>
+
+void powerFunction(char* rawDataFileName, double *pw[]);

Code-C/include/queue.h

@@ -0,0 +1,127 @@
+typedef struct queue *Pqueue;
+
+/**
+ * @brief Create Element of queue
+ *
+ * @param lenChar size of char array that will be created
+ * @return Pqueue new element created
+ */
+Pqueue queueCreateE(int lenChar, const char *_tabChar);
+
+/**
+ * @brief create an empty element of queue
+ *
+ * @return Pqueue
+ */
+Pqueue queueCreateEmpty();
+
+/************** Getters **************/
+
+/**
+ * @brief switch to the next element
+ *
+ * @param elem current element
+ * @return Pqueue next element
+ */
+Pqueue queueGetNextE(Pqueue elem);
+
+/**
+ * @brief get the size char array
+ *
+ * @param elem targeted element
+ * @return int
+ */
+int queueGetCharLen(Pqueue elem);
+
+/**
+ * @brief get the pointer of char array
+ *
+ * @param elem targeted elemnt
+ * @return char*
+ */
+char *queueGetTabChar(Pqueue elem);
+
+/************** Setters **************/
+
+/**
+ * @brief set char size array
+ *
+ * @param elem targeted element
+ * @param _charLen size of char array
+ */
+void queueSetCharLen(Pqueue elem, int _charLen);
+
+/**
+ * @brief set the char array in the element
+ *
+ * @param elem targeted element
+ * @param _charLen char array size
+ * @param _tabChar pointer to static char array
+ */
+void queueSetTabChar(Pqueue elem, int _charLen, const char *_tabChar);
+
+/**
+ * @brief set next pqueue element
+ *
+ * @param elem target element
+ * @param next next element
+ */
+void queueSetNextE(Pqueue elem, Pqueue next);
+
+/**
+ * @brief add in the end of queue element with string parameter
+ *
+ * @param elem Pqueue will be added at the end of queue
+ * @param str the string will be bind at the element
+ * @param len the lenght of char array
+ */
+void queueAddLastQ(Pqueue elem, const char *str, int len);
+
+/************** Removers **************/
+
+/**
+ * @brief remove and free the last element of queue
+ *
+ * @param elem current element
+ * @return Pqueue current element
+ */
+Pqueue queueRmLastE(Pqueue elem);
+
+/**
+ * @brief remove and free the first element of queue
+ *
+ * @param elem target to remove (the element need to be the first)
+ * @return the next element of elem
+ */
+Pqueue queueRmFrstE(Pqueue elem); // same of queueNextDelFrst()
+
+/**
+ * @brief delete the first value and return the next value
+ *
+ * @param elem
+ * @return Pqueue
+ */
+Pqueue queueNextDelFrst(Pqueue elem); // same of queueRmFrstE()
+
+/************** print function **************/
+
+/**
+ * @brief Print targeted element
+ *
+ * @param elem targeted element
+ */
+void queuePrintE(Pqueue elem);
+
+/**
+ * @brief Print all the element starting from @param firstE till the end of the linked list
+ *
+ * @param firstE
+ */
+void queuePrintWholeQ(Pqueue firstE);
+
+/**
+ * @brief free all queue list
+ *
+ * @param elem the first element of comdemned queue
+ */
+void queueDelAll(Pqueue elem);

Code-C/include/simulateFlux.h

@@ -4,6 +4,7 @@
 #include <stdlib.h>
 #include <unistd.h>
 #include <stdbool.h>
+#define __USE_ISOC11 1
 #include <time.h>
 
 typedef struct {

Code-C/main.c

@@ -1,68 +1,156 @@
 #include <pthread.h>
 #include <stdbool.h>
-#include "simulateFlux.h"
-#include "power.h"
-#include "initialParameters.h"
-#include "queue.h"
-#include "average.h"
+
+#include "include/simulateFlux.h"
+#include "include/power.h"
+#include "include/initialParameters.h"
+#include "include/queue.h"
+#include "include/average.h"
+#include "include/growthRate.h"
+#include "include/getArray.h"
 
 bool rawDataWriteFlag;
-int nRow = 500;
-int nCol = 9;
+int nRowRawData = 5000;
+int nRowGR = 150;
+int nCol = 1;
 double freqEch = 250;
 
-Pqueue firstRawDataQueue;
+int nbRowBinFile = 900011;
+int nbRowIgnore = 19;
 
-int selectionCaptors[] =  {1,2,3,4,5,6,7,8};
-int sizeSelectionArray = 8;
+Pqueue firstRawDataQueue;
+// Captor                    1     2      3     4      5      6      7     8
+bool selectionCaptors[] = {true, false, true, false, false, false, true, false};
 
 int cptData = 0;
 int cptFile = 1;
+int cptValue = 0;
 
 double period = 0;
 double invTimeBandWidth = 0;
 
-void *threadCalculPower(void *vargp){
+void *threadCalculPower(void *vargp)
+{
     Pqueue rawDataQueue = firstRawDataQueue;
-    char* fileName;
-    while(rawDataWriteFlag){
-        while(queueGetNextE(rawDataQueue) != NULL){
+    char *fileName;
+    while (rawDataWriteFlag)
+    {
+        while (queueGetNextE(rawDataQueue) != NULL)
+        {
             rawDataQueue = queueGetNextE(rawDataQueue);
             fileName = queueGetTabChar(rawDataQueue);
-            power(fileName,nRow,nCol,period,invTimeBandWidth);
+            powerFunction(fileName, NULL);
             remove(fileName);
         }
     }
+    return NULL;
 }
 
-void *threadCalculAverage(void *vargp){
+void *threadCalculAverage(void *vargp)
+{
     Pqueue rawDataQueue = firstRawDataQueue;
-    char* fileName;
-    while(rawDataWriteFlag){
-        while(queueGetNextE(rawDataQueue) != NULL){
+    char *fileName;
+
+    while (rawDataWriteFlag)
+    {
+        while (queueGetNextE(rawDataQueue) != NULL)
+        {
             rawDataQueue = queueGetNextE(rawDataQueue);
             fileName = queueGetTabChar(rawDataQueue);
-            average(fileName,nRow,nCol);
+            printf("%s\n", fileName);
+            averageFunction(fileName, NULL);
             remove(fileName);
         }
     }
+    return NULL;
 }
 
-void *threadCalculBoth(void *vargp){
+void *threadCalculBoth(void *vargp)
+{
     Pqueue rawDataQueue = firstRawDataQueue;
-    char* fileName;
-    while(rawDataWriteFlag){
-        while(queueGetNextE(rawDataQueue) != NULL){
+    char *fileName;
+    while (rawDataWriteFlag)
+    {
+        while (queueGetNextE(rawDataQueue) != NULL)
+        {
             rawDataQueue = queueGetNextE(rawDataQueue);
             fileName = queueGetTabChar(rawDataQueue);
+<<<<<<< HEAD
             power(fileName,nRow,nCol,period,invTimeBandWidth);
             average(fileName,nRow,nCol);
             //remove(fileName);
+=======
+            powerFunction(fileName, NULL);
+            averageFunction(fileName, NULL);
+            remove(fileName);
+>>>>>>> Data
         }
     }
+    return NULL;
 }
 
-int main(int argc , char** argv){
+void *threadCalculGrowthRate(void *vargp)
+{
+    Pqueue rawDataQueue = firstRawDataQueue;
+    char *fileName;
+    // double pw[nCol-1];
+    double **dataLignPw = getDoubleArray(2, nCol);
+    double **dataLignAv = getDoubleArray(2, nCol);
+
+    int i = 0;
+    while (rawDataWriteFlag)
+    {
+        while (queueGetNextE(rawDataQueue) != NULL)
+        {
+            rawDataQueue = queueGetNextE(rawDataQueue);
+            fileName = queueGetTabChar(rawDataQueue);
+            printf("%s\n", fileName);
+            if (i < 2)
+            {
+                if (i == 1)
+                {
+                    powerFunction(fileName, dataLignPw);
+                    averageFunction(fileName, dataLignAv);
+                    growthRateFunction(dataLignPw, "growthRatePw.csv");
+                    growthRateFunction(dataLignAv, "growthRateAv.csv");
+                }
+
+                else
+                {
+                    averageFunction(fileName, dataLignAv);
+                    powerFunction(fileName, dataLignPw);
+                }
+                i++;
+            }
+            else
+            {
+                for (int y = 0; y < (nCol - 1); y++)
+                {
+                    dataLignPw[0][y] = dataLignPw[1][y];
+                    dataLignAv[0][y] = dataLignAv[1][y];
+                }
+                powerFunction(fileName, dataLignPw);
+                averageFunction(fileName, dataLignAv);
+                growthRateFunction(dataLignPw, "growthRatePw.csv");
+                growthRateFunction(dataLignPw, "growthRateAv.csv");
+            }
+            remove(fileName);
+        }
+    }
+    return NULL;
+}
+
+int main(int argc, char **argv)
+{
+
+    for (int i = 0; i < 8; i++)
+    {
+        if (selectionCaptors[i])
+        {
+            nCol++;
+        }
+    }
+    printf("%d", nCol);
 
     for(int i = 0 ; i < 8 ; i++){
         if(selectionCaptors[i]){
@@ -73,14 +161,29 @@ int main(int argc , char** argv){
     rawDataWriteFlag = true;
 
     period = 1 / freqEch;
-    invTimeBandWidth = 1 /(nRow * period);
+    invTimeBandWidth = 1 / (nRowRawData * period);
     firstRawDataQueue = queueCreateEmpty(); // change this for create empty
 
     pthread_t rawData;
-    pthread_create(&rawData , NULL, threadSimulateFlux, (void *)&rawData);
+    if (pthread_create(&rawData, NULL, threadSimulateFlux, "threadSimulflux") != 0)
+    {
+        perror("threadSimulflux() error");
+        exit(1);
+    }
 
-    pthread_t calcul;
-    pthread_create(&calcul , NULL, threadCalculBoth, (void *)&calcul);
+    pthread_t calculAverage;
+    if (pthread_create(&calculAverage, NULL, threadCalculAverage, "threadCalculAverage"))
+    {
+        perror("threadCalculAverage() error");
+        exit(1);
+    }
+
+    // pthread_t calculGrowthRate;
+    // if (pthread_create(&calculGrowthRate, NULL, threadCalculGrowthRate, "threadCalculGrowthRate"))
+    // {
+    //     perror("threadcalculGrowthRate() error");
+    //     exit(1);
+    // }
 
     pthread_exit(NULL);
 }

Code-C/power.c

@@ -1,29 +1,30 @@
-#include "power.h"
-#include "getArray.h"
-#include "fileGestion.h"
-#include "initialParameters.h"
-#include "queue.h"
+#include <math.h>
+
+#include "include/power.h"
+#include "include/getArray.h"
+#include "include/fileGestion.h"
+#include "include/initialParameters.h"
+#include "include/queue.h"
 
 /**
- * @brief realize the power calcul
+ * @brief realize the powerThreadFunction calcul
  *
  * @param p array with all the values that will be used for the calcul
  * @param powerArray array where results are stocked
- * @param N number of rows in p
- * @param M number of columns in p
  */
-void powerCalculation(long **p, double powerArray[] , int N, int M , double period , double invTimeBandwidth){
-    for(int i = 0; i < M-1; i++){
+void powerCalculation(long **p, double powerArray[])
+{
+    for (int i = 0; i < nCol; i++)
+    {
         int j = 0;
         powerArray[i] = 0;
-        while(j < N-1){
-            double aire  = ( pow(p[j][i+1],2) + pow(p[j+1][i+1],2) ) / 2 * period;
-            //printf("aire [%d,%d] : %f\n",j,i,aire);
-            powerArray[i] += aire;
+
+        while (j < nRowRawData)
+        {
+            powerArray[i] += pow(p[j][i + 1], 2);
             j++;
         }
-        powerArray[i] *= invTimeBandwidth;
-        //printf("%f\n", powerArray[i]);
+        powerArray[i] /= nRowRawData;
     }
 }
 
@@ -34,16 +35,23 @@ void powerCalculation(long **p, double powerArray[] , int N, int M , double peri
  * @param N number of rows in the file
  * @param M number of columns in the file
  */
-bool power(char* rawDataFileName,int N , int M, double periode , double invTimeBandwidth){
-    long **p = getRawDataArray(rawDataFileName,N, M);
-    double pw[8];
-    if(p !=NULL){
-        powerCalculation(p,pw,N,M,periode,invTimeBandwidth);
-        writeDataInFile("powerData.csv",pw,8);
-        freeArray(p,N);
-        return true;
+void powerFunction(char *rawDataFileName, double **pw)
+{
+    long **p = getRawDataArray(rawDataFileName);
+    // printArrayData(p, nRowRawData, nCol);
+    double pww[nCol - 1];
+    if (p != NULL)
+    {
+        if (pw == NULL)
+        {
+            powerCalculation(p, pww);
+            appendDataInFile("powerData.csv", pww, nCol - 1);
         }
-    else{
-        return false;
+        else
+        {
+            powerCalculation(p, pw[1]);
+            appendDataInFile("powerData.csv", pw[1], nCol - 1);
+        }
+        freeArray(p, nRowRawData);
     }
 }

Code-C/power.h

@@ -1,4 +0,0 @@
-#include <math.h>
-#include <stdbool.h>
-
-bool power(char* rawDataFileName,int N , int M, double periode , double invTimeBandwidth);

Code-C/queue.c

@@ -2,7 +2,9 @@
 #include <stdio.h>
 #include <stdlib.h>
 #include <string.h>
-#include "queue.h"
+#include <stdbool.h>
+
+#include "include/queue.h"
 
 /**
  * @brief struct queue struct used for queueing string name
@@ -11,9 +13,10 @@
  * @param tabChar char array pointer
  * @param pNextE point next element
  */
-struct queue {
+struct queue
+{
     int charLen;
-    char* tabChar;
+    char *tabChar;
     Pqueue pNextE;
 };
 
@@ -24,8 +27,9 @@ typedef struct queue *Pqueue;
  *
  * @return Pqueue
  */
-Pqueue queueCreateEmpty(){
-    Pqueue new = (Pqueue) malloc(sizeof(struct queue));
+Pqueue queueCreateEmpty()
+{
+    Pqueue new = (Pqueue)malloc(sizeof(struct queue));
     assert(new);
     new->charLen = 0;
     new->tabChar = NULL;
@@ -33,7 +37,7 @@ Pqueue queueCreateEmpty(){
     return new;
 }
 
-                                    /************ SETTER ************/
+/************ SETTER ************/
 
 /**
  * @brief set char size array
@@ -41,7 +45,8 @@ Pqueue queueCreateEmpty(){
  * @param elem targeted element
  * @param _charLen size of char array
  */
-void queueSetCharLen(Pqueue elem, int _charLen){
+void queueSetCharLen(Pqueue elem, int _charLen)
+{
     assert(elem);
     elem->charLen = _charLen;
 }
@@ -53,12 +58,14 @@ void queueSetCharLen(Pqueue elem, int _charLen){
  * @param _charLen char array size
  * @param _tabChar pointer to static char array
  */
-void queueSetTabChar(Pqueue elem, int _charLen, const char *_tabChar){
+void queueSetTabChar(Pqueue elem, int _charLen, const char *_tabChar)
+{
     assert(elem);
     assert(_tabChar);
     elem->charLen = _charLen;
-    elem->tabChar = calloc(_charLen , sizeof(char));
-    for(int i = 0; i < _charLen; i++){
+    elem->tabChar = calloc(_charLen, sizeof(char));
+    for (int i = 0; i < _charLen; i++)
+    {
         elem->tabChar[i] = _tabChar[i];
     }
 }
@@ -68,13 +75,14 @@ void queueSetTabChar(Pqueue elem, int _charLen, const char *_tabChar){
  * @param elem target element
  * @param next next element
  */
-void queueSetNextE(Pqueue elem , Pqueue next){
+void queueSetNextE(Pqueue elem, Pqueue next)
+{
     assert(elem);
     assert(next);
-    elem -> pNextE = next;
+    elem->pNextE = next;
 }
 
-                                    /************ GETTER ************/
+/************ GETTER ************/
 
 /**
  * @brief switch to the next element
@@ -82,7 +90,8 @@ void queueSetNextE(Pqueue elem , Pqueue next){
  * @param elem current element
  * @return Pqueue next element
  */
-Pqueue queueGetNextE(Pqueue elem){
+Pqueue queueGetNextE(Pqueue elem)
+{
     assert(elem);
     return elem->pNextE;
 }
@@ -93,7 +102,8 @@ Pqueue queueGetNextE(Pqueue elem){
  * @param elem targeted element
  * @return int
  */
-int queueGetCharLen(Pqueue elem){
+int queueGetCharLen(Pqueue elem)
+{
     assert(elem);
     return elem->charLen;
 }
@@ -104,12 +114,13 @@ int queueGetCharLen(Pqueue elem){
  * @param elem targeted elemnt
  * @return char*
  */
-char * queueGetTabChar(Pqueue elem){
+char *queueGetTabChar(Pqueue elem)
+{
     assert(elem);
     return elem->tabChar;
 }
 
-                                    /************       ************/
+/************       ************/
 
 /**
  * @brief Create Element of queue
@@ -117,8 +128,9 @@ char * queueGetTabChar(Pqueue elem){
  * @param lenChar size of char array that will be created
  * @return Pqueue new element created
  */
-Pqueue queueCreateE(int lenChar, const char* _tabChar){
-    Pqueue new = (Pqueue) malloc(sizeof(struct queue));
+Pqueue queueCreateE(int lenChar, const char *_tabChar)
+{
+    Pqueue new = (Pqueue)malloc(sizeof(struct queue));
     assert(new);
     queueSetTabChar(new, lenChar, _tabChar);
     new->pNextE = NULL;
@@ -131,16 +143,18 @@ Pqueue queueCreateE(int lenChar, const char* _tabChar){
  * @param elem current element
  * @return Pqueue current element
  */
-Pqueue queueRmLastE(Pqueue elem){
+Pqueue queueRmLastE(Pqueue elem)
+{
     assert(elem);
-    Pqueue tmp = elem, previous = NULL;
-    while(elem->pNextE != NULL){
-        previous = tmp;
+    Pqueue tmp = elem, current = NULL;
+    while (tmp->pNextE != NULL)
+    {
+        current = tmp;
         tmp = queueGetNextE(tmp);
     }
     free(tmp->tabChar);
     free(tmp);
-    previous->pNextE = NULL;
+    current->pNextE = NULL;
     return elem;
 }
 
@@ -148,11 +162,18 @@ Pqueue queueRmLastE(Pqueue elem){
  * @brief remove and free the first element of queue
  *
  * @param elem target to remove (the element need to be the first)
+ * @return next element of the queue
  */
-void queueRmFrstE(Pqueue elem){
+Pqueue queueRmFrstE(Pqueue elem)
+{
     assert(elem);
+    Pqueue next = queueGetNextE(elem);
+    if (elem->tabChar != NULL)
+    {
         free(elem->tabChar);
+    }
     free(elem);
+    return next;
 }
 
 /**
@@ -161,7 +182,8 @@ void queueRmFrstE(Pqueue elem){
  * @param elem
  * @return Pqueue
  */
-Pqueue queueNextDelFrst(Pqueue elem){
+Pqueue queueNextDelFrst(Pqueue elem)
+{
     assert(elem);
     Pqueue tmp = elem->pNextE;
     queueRmFrstE(elem);
@@ -175,17 +197,34 @@ Pqueue queueNextDelFrst(Pqueue elem){
  * @param str the string will be bind at the element
  * @param len the lenght of char array
  */
-void queueAddLastQ(Pqueue elem, const char* str, int len){
+void queueAddLastQ(Pqueue elem, const char *str, int len)
+{
     assert(elem);
-    assert(str);
-    Pqueue next = elem, previous = NULL;
-    while(next->pNextE != NULL){
-        previous = next;
-        next = queueGetNextE(next);
+    bool str1 = true;
+    if (len == 0)
+    {
+        str = false;
     }
-    previous = next;
-    next = queueCreateE(len,str);
-    queueSetNextE(previous,next);
+    else
+    {
+        assert(str);
+    }
+
+    Pqueue current = elem, next = NULL;
+    while (current->pNextE != NULL)
+    {
+        current = queueGetNextE(current);
+    }
+
+    if (str1 == true)
+    {
+        next = queueCreateE(len, str);
+    }
+    else
+    {
+        next = queueCreateEmpty();
+    }
+    queueSetNextE(current, next);
 }
 
 /**
@@ -193,13 +232,16 @@ void queueAddLastQ(Pqueue elem, const char* str, int len){
  *
  * @param elem targeted element
  */
-void queuePrintE(Pqueue elem){
+void queuePrintE(Pqueue elem)
+{
     Pqueue next = queueGetNextE(elem);
-    printf("\nFile Name : %s \n(size of the file name : %d)\n",elem -> tabChar , elem -> charLen );
-    if(next != NULL){
-        printf("Next File : %s\n", next ->tabChar);
+    printf("\nFile Name : %s \n(size of the file name : %d)\n", elem->tabChar, elem->charLen);
+    if (next != NULL)
+    {
+        printf("Next File : %s\n", next->tabChar);
     }
-    else{
+    else
+    {
         printf("No nextFile existing (null)\n");
     }
 }
@@ -209,12 +251,25 @@ void queuePrintE(Pqueue elem){
  *
  * @param firstE
  */
-void queuePrintWholeQ(Pqueue firstE){
+void queuePrintWholeQ(Pqueue firstE)
+{
     queuePrintE(firstE);
     Pqueue elem = firstE;
-    while(queueGetNextE(elem) != NULL){
+    while (queueGetNextE(elem) != NULL)
+    {
         elem = queueGetNextE(elem);
         queuePrintE(elem);
     }
 }
 
+void queueDelAll(Pqueue elem)
+{
+    assert(elem);
+    Pqueue condemned = elem, tmp;
+    while (condemned != NULL)
+    {
+        tmp = queueGetNextE(condemned);
+        queueRmFrstE(condemned);
+        condemned = tmp;
+    }
+}

Code-C/queue.h

@@ -1,27 +0,0 @@
-typedef struct queue *Pqueue;
-
-//Constructors
-Pqueue queueCreateE(int lenChar, const char* _tabChar);
-Pqueue queueCreateEmpty(); 
-
-
-//Getters
-Pqueue queueGetNextE(Pqueue elem);
-int queueGetCharLen(Pqueue elem);
-char* queueGetTabChar(Pqueue elem);
-
-//Setters
-void queueSetCharLen(Pqueue elem, int _charLen);
-void queueSetTabChar(Pqueue elem, int _charLen, const char *_tabChar);
-void queueSetNextE(Pqueue elem , Pqueue next);
-
-void queueAddLastQ(Pqueue elem, const char* str, int len);
-
-//Removers
-Pqueue queueRmLastE(Pqueue elem);
-void queueRmFrstE(Pqueue elem);
-Pqueue queueNextDelFrst(Pqueue elem);
-
-//print function
-void queuePrintE(Pqueue elem);
-void queuePrintWholeQ(Pqueue firstE);

Code-C/rmRawData.sh

@@ -1,6 +0,0 @@
-#!/bin/bash
-cd ../RawDataFiles
-for i in *
-do 
-    rm $i
-done

Code-C/simulateFlux.c

@@ -1,6 +1,9 @@
-#include "simulateFlux.h"
-#include "initialParameters.h"
-#include "queue.h"
+#include "include/simulateFlux.h"
+#include "include/initialParameters.h"
+#include "include/queue.h"
+
+#include <time.h>
+#include <errno.h>
 
 /**
  * @brief convert an interger N into a char*
@@ -8,29 +11,32 @@
  * @param N
  * @return char*
  */
-char* convertIntegerToChar(int N)
+char *convertIntegerToChar(int N)
 {
     // Count digits in number N
     int m = N;
     int digit = 0;
-    while (m) {
+    while (m)
+    {
         digit++;
         m /= 10;
     }
-    char* arr;
+    char *arr;
     char arr1[digit];
-    arr = (char*)malloc(digit);
+    arr = (char *)malloc(digit * sizeof(char));
     int index = 0;
-    while (N) {
+    while (N)
+    {
         arr1[++index] = N % 10 + '0';
         N /= 10;
     }
     int i;
-    for (i = 0; i < index; i++) {
+    for (i = 0; i < index; i++)
+    {
         arr[i] = arr1[index - i];
     }
     arr[i] = '\0';
-    return (char*)arr;
+    return (char *)arr;
 }
 
 /**
@@ -38,33 +44,43 @@ char* convertIntegerToChar(int N)
  *
  * @return char*
  */
-char *createNewRawDataFileName(){
-    char *fileName  = "../RawDataFiles/RawData";
+char *createNewRawDataFileName()
+{
+    char *fileName = "RawDataFiles/RawData";
     char *extension = ".csv\0";
     char *fileNumber = convertIntegerToChar(cptFile);
+    // char *fileNumber;
+    // sprintf(fileNumber, "%d", cptFile);
+    // printf("%s\n" , fileNumber);
 
-    char fileNameNumber[strlen(fileName)+strlen(fileNumber)];
-    char *fullFileName = malloc((strlen(fileNameNumber)+strlen(extension)) * sizeof(char*));
+    char fileNameNumber[strlen(fileName) + strlen(fileNumber)];
+    char *fullFileName = malloc((strlen(fileNameNumber) + strlen(extension)) * sizeof(char *));
 
-    strcpy( fileNameNumber, fileName );
-    strcat( fileNameNumber, fileNumber );
+    strcpy(fileNameNumber, fileName);
+    strcat(fileNameNumber, fileNumber);
 
-    strcpy( fullFileName, fileNameNumber );
-    strcat( fullFileName, extension );
+    strcpy(fullFileName, fileNameNumber);
+    strcat(fullFileName, extension);
 
     return fullFileName;
 }
 
-int intInArray(int number , int *array , int N){
-    for(int i  = 0 ; i < N ; i++){
-        if(array[i] == number) return 0; 
+int intInArray(int number, int *array, int N)
+{
+    for (int i = 0; i < N; i++)
+    {
+        if (array[i] == number)
+            return 0;
     }
     return -1;
 }
-int maxInArray(int *array , int N){
+int maxInArray(int *array, int N)
+{
     int max = 0;
-    for(int i = 0 ; i < N ; i++){
-        if(array[i]>max) max  = array[i];
+    for (int i = 0; i < N; i++)
+    {
+        if (array[i] > max)
+            max = array[i];
     }
     return max;
 }
@@ -73,11 +89,25 @@ int maxInArray(int *array , int N){
  *
  * @return int64_t
  */
+
 int64_t millis()
 {
     struct timespec now;
     timespec_get(&now, TIME_UTC);
-    return ((int64_t) now.tv_sec) * 1000 + ((int64_t) now.tv_nsec) / 1000000;
+    return ((int64_t)((int64_t)now.tv_sec) * 1000 + ((int64_t)now.tv_nsec) / 1000000);
+}
+
+int lastIndexCaptor()
+{
+    int lastIndex = 0;
+    for (int i = 1; i < 8; i++)
+    {
+        if (selectionCaptors[i])
+        {
+            lastIndex = i;
+        }
+    }
+    return lastIndex;
 }
 
 
@@ -97,69 +127,104 @@ int lastIndexCaptor(){
  * @return true if the lign is correctly write , else :
  * @return false
  */
-bool writeOneRawData(FILE *rawDataFile){
+bool writeOneRawData(FILE *rawDataFile)
+{
     char buff[26];
     char buff2[18];
     int32_t values[8];
     uint32_t valbin[8];
-    quartet value;
 
+    if (fread(&buff, 26, 1, stdin))
+    {
+        // printf("%d\n",cptValue);
+        if (cptValue < nbRowBinFile - nbRowIgnore)
+        {
+            FILE *timeFile = fopen("timeFile.csv", "a+");
+            fprintf(timeFile, "%ld\n", millis());
+            fclose(timeFile);
+            fprintf(rawDataFile, "%ld,", millis());
 
-    if(fread(&buff, 26, 1, stdin)) {
-        fprintf(rawDataFile , "%d,", millis());
-        if (strncmp(buff, "#################\n", (size_t)18) == 0) {
-            if (!(fread(&buff2, 18, 1, stdin))) {
+            if (strncmp(buff, "#################\n", (size_t)18) == 0)
+            {
+                if (!(fread(&buff2, 18, 1, stdin)))
+                {
                     fprintf(stderr, "Erreur lecture après ###...#");
-                return 2;
-            } else {
+                }
+                else
+                {
                     strncpy(buff, &buff[18], 8);
                     strncpy(&buff[8], buff2, 18);
                 }
             }
+
             int lastIndex = lastIndexCaptor();
-        for (int i = 1; i < 9; i++){
-            if(intInArray(i,selectionCaptors,sizeSelectionArray)==0){
-                value.octet1 = buff[3*i+1];
-                value.octet2 = buff[3*i+2];
-                value.octet3 = buff[3*i+3];
+            for (int i = 1; i < 9; i++)
+            {
+                if (selectionCaptors[i - 1])
+                {
+                    quartet value;
+                    value.octet1 = buff[3 * i + 1];
+                    value.octet2 = buff[3 * i + 2];
+                    value.octet3 = buff[3 * i + 3];
                     value.octet4 = 0;
 
-                valbin[i] = buff[3*i+1]*256*256*256 + buff[3*i+2]*256*256 + buff[3*i+3]*256;
+                    valbin[i] = buff[3 * i + 1] * 256 * 256 * 256 + buff[3 * i + 2] * 256 * 256 + buff[3 * i + 3] * 256;
                     memcpy(&values[i], &valbin[i], sizeof(uint32_t));
-
-                if(i==lastIndex){
-                    fprintf(rawDataFile, "%d\n", values[i]/256);
+                    FILE *allRawDataFile = fopen("AllRawData.csv", "a+");
+                    if (i - 1 == lastIndex)
+                    {
+                        fprintf(rawDataFile, "%d\n", values[i] / 256);
+                        fprintf(allRawDataFile, "%d\n", values[i] / 256);
                     }
-                else{
-                    fprintf(rawDataFile, "%d,", values[i]/256);
+                    else
+                    {
+                        fprintf(rawDataFile, "%d,", values[i] / 256);
+                        fprintf(allRawDataFile, "%d,", values[i] / 256);
                     }
+                    fclose(allRawDataFile);
                 }
             }
             cptData++;
-    //sleep(0.004); //simul freq here
+
+            /************** simul freq here **************/
+            // struct timespec ts;
+            // ts.tv_sec = 0;
+            // ts.tv_nsec = 4 * 1000000;
+            // nanosleep(&ts, &ts);
+
+            cptValue++;
             return true;
         }
-    else {
+        else
+        {
             return false;
         }
+    }
+    return false;
 }
 
-void *threadSimulateFlux(void *vargp){
+void *threadSimulateFlux(void *vargp)
+{
 
     char *fileName = createNewRawDataFileName();
-    FILE *rawDataFile = fopen(fileName,"w+");
+    FILE *rawDataFile = fopen(fileName, "w+");
 
-    while(writeOneRawData(rawDataFile)){
-        if(cptData == nRow){
+    while (writeOneRawData(rawDataFile))
+    {
+
+        if (cptData == nRowRawData)
+        {
             fclose(rawDataFile);
             cptData = 0;
             cptFile++;
-            //create struct here
-            queueAddLastQ(firstRawDataQueue , fileName , strlen(fileName));
-            //prepare next file now
+            // create struct here
+            queueAddLastQ(firstRawDataQueue, fileName, strlen(fileName));
+            // prepare next file now
             fileName = createNewRawDataFileName();
-            FILE *rawDataFile = fopen(fileName,"w+");
+            rawDataFile = fopen(fileName, "w+");
+    //add test to get p then print it here // p is gotten from  fileName file
         }
     }
     rawDataWriteFlag = false;
+    return NULL;
 }

Py-Script/courbe.py

@@ -86,3 +86,26 @@ def final():
     #printFig()
 
 final()
+def function():
+          
+    for i in range(1, 10):
+        rawdata = 'Code-C/RawDataFiles/RawData' + str(i) + '.csv' #Définit le fichier à ouvrir
+        
+        with open(rawdata, newline='') as csvfile:
+            reader = csv.reader(csvfile, quoting=csv.QUOTE_NONNUMERIC)
+            x = [row for row in reader]
+            int_x = np.array(x, int)
+
+        for j in range(1,len(int_x[0])):
+            aver = average(int_x[:,j])
+            print("I = " , i ," J = " ,j ," aver = " , aver , '\0')
+
+            
+def average(x):
+    res = 0
+    for i in range(len(x)):
+        res += x[i]
+    return res / len(x)
+
+
+function()

README.md

@@ -0,0 +1,28 @@
+# [Robot Go West](https://projets.cohabit.fr/redmine/projects/communication-racinaire/wiki/Robot_Go-West)
+
+### Introduction 
+This projet is a part of larger projet [_Communication Racinaire_](https://projets.cohabit.fr/redmine/projects/communication-racinaire/wiki/Wiki#section-8) which aims to drive plante into the direction of the sun.
+
+When a plant received the solar radiation, a **difference of potential** will be created inside the plant. This physical reaction interest us to **measure** it and **interpret** the signal to drive the robot. 
+
+![Diagram](https://git.cohabit.fr/pgp/Traitement-signal-plantes/src/branch/Data/Image_Diagram/chaien.PNG)
+
+On the diagram we can see a "**Pi**" symbole which represents the micro-controller who calculate and drive the robot, who will make the **C sources** work. After many hours of working or test phase the microcontroller create and store data interpretable by the **Python script**.
+
+## Embedded C sources
+![Graphical representation](https://git.cohabit.fr/pgp/Traitement-signal-plantes/src/branch/Data/Image_Diagram/ResumeWorkingDiagram.PNG)
+
+The scheme represents well the program operation on the raspberry, the diagram is read from left to right.
+
+**The first** represent the stream from vegetalsignal's captor through the USB port. This part block us because we don't have stream for now with the captor then we have create a thread to similate it. The stream send Raw data correspond to the electrique tension generated by the plant.
+
+**The second** part with the thread storeRawData catch the raw data and store it in the memory in several files.(Usable data for python script)
+
+
+**The third** part is used to gather data files and calculate to have pertinante data (Power or GrowthRate) and store it in file.
+
+
+**The fourth** is not yet done, the thread drive will recovers the power and/or the gorwthRate data recognize events in the data and drive the robot.
+## Graphic visualization Python script
+
+The Python script is used to print the tension data on a graph.