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In response to referee's comment:
"However, (although it is probably not important for model developers), I was
still unable to load the model ‘Meinhardt 1976 with growth’ example from the
‘Models’ drop down menu, I got the ‘Fatal error’ message ‘stepwise underflow in
rkqs, with h=0.000000 and htry = 0.100000’. The model did work when I selected
the Meinhardt model in both the Models and the File -> Read leaf menus together,
it would be preferable if the models loaded from the Models menu worked
automatically. I am not sure that the update referred to in the author’s
response permits the loading of ‘My First Model in Virtual Leaf’ from the
‘Models’ drop down menu; I only got a cell that wiggled."
I made the following changes:
- meinhardt_plugin now reads "meinhardt_init.xml" by default
- changed the name of 'My First Model in Virtual Leaf’ to '0: Empty model template (does nothing)' to make it clear that the wiggle cell is the intended behavior for this model example.
- Added default parameter files for Tutorial1A-D and Tutorial2 to prevent variable behavior depending on the last parameter settings used.
--
user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'
added data/leaves/tutorial1_init.xml
added data/leaves/tutorial2_init.xml
changed data/leaves/auxin_growth.xml
changed data/leaves/meinhardt_init.xml
changed src/TutorialCode/Tutorial0/tutorial0.cpp
changed src/TutorialCode/Tutorial1A/tutorial1A.h
changed src/TutorialCode/Tutorial1B/tutorial1B.h
changed src/TutorialCode/Tutorial1C/tutorial1C.h
changed src/TutorialCode/Tutorial1D/tutorial1D.h
changed src/TutorialCode/Tutorial2/tutorial2.h
changed src/build_models/meinhardtplugin.h
"However, (although it is probably not important for model developers), I was
still unable to load the model ‘Meinhardt 1976 with growth’ example from the
‘Models’ drop down menu, I got the ‘Fatal error’ message ‘stepwise underflow in
rkqs, with h=0.000000 and htry = 0.100000’. The model did work when I selected
the Meinhardt model in both the Models and the File -> Read leaf menus together,
it would be preferable if the models loaded from the Models menu worked
automatically. I am not sure that the update referred to in the author’s
response permits the loading of ‘My First Model in Virtual Leaf’ from the
‘Models’ drop down menu; I only got a cell that wiggled."
I made the following changes:
- meinhardt_plugin now reads "meinhardt_init.xml" by default
- changed the name of 'My First Model in Virtual Leaf’ to '0: Empty model template (does nothing)' to make it clear that the wiggle cell is the intended behavior for this model example.
- Added default parameter files for Tutorial1A-D and Tutorial2 to prevent variable behavior depending on the last parameter settings used.
--
user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'
added data/leaves/tutorial1_init.xml
added data/leaves/tutorial2_init.xml
changed data/leaves/auxin_growth.xml
changed data/leaves/meinhardt_init.xml
changed src/TutorialCode/Tutorial0/tutorial0.cpp
changed src/TutorialCode/Tutorial1A/tutorial1A.h
changed src/TutorialCode/Tutorial1B/tutorial1B.h
changed src/TutorialCode/Tutorial1C/tutorial1C.h
changed src/TutorialCode/Tutorial1D/tutorial1D.h
changed src/TutorialCode/Tutorial2/tutorial2.h
changed src/build_models/meinhardtplugin.h
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 | /*
*
* This file is part of the Virtual Leaf.
*
* VirtualLeaf is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* VirtualLeaf is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with the Virtual Leaf. If not, see <http://www.gnu.org/licenses/>.
*
* Copyright 2010 Roeland Merks.
*
*/
#include <QDebug>
#include <string>
#include <stdio.h>
#include <stdlib.h>
#include <sys/timeb.h>
#include <iostream>
#include "random.h"
static const std::string _module_id("$Id$");
static int idum = -1;
using namespace std;
static int counter=0;
/*! \return A random double between 0 and 1
**/
double RANDOM(void)
/* Knuth's substrative method, see Numerical Recipes */
{
static int inext,inextp;
static long ma[56];
static int iff=0;
counter++;
long mj,mk;
int i,ii,k;
if (idum < 0 || iff == 0) {
iff=1;
mj=MSEED-(idum < 0 ? -idum : idum);
mj %= MBIG;
ma[55]=mj;
mk=1;
i=1;
do {
ii=(21*i) % 55;
ma[ii]=mk;
mk=mj-mk;
if (mk < MZ) mk += MBIG;
mj=ma[ii];
} while ( ++i <= 54 );
k=1;
do {
i=1;
do {
ma[i] -= ma[1+(i+30) % 55];
if (ma[i] < MZ) ma[i] += MBIG;
} while ( ++i <= 55 );
} while ( ++k <= 4 );
inext=0;
inextp=31;
idum=1;
}
if (++inext == 56) inext=1;
if (++inextp == 56) inextp=1;
mj=ma[inext]-ma[inextp];
if (mj < MZ) mj += MBIG;
ma[inext]=mj;
return mj*FAC;
}
/*! \param An integer random seed
\return the random seed
**/
int Seed(int seed)
{
if (seed < 0) {
int rseed=Randomize();
#ifdef QDEBUG
qDebug() << "Randomizing random generator, seed is " << rseed << endl;
#endif
return rseed;
} else {
int i;
idum = -seed;
for (i=0; i <100; i++)
RANDOM();
return seed;
}
}
/*! Returns a random integer value between 1 and 'max'
\param The maximum value (long)
\return A random integer (long)
**/
long RandomNumber(long max)
{
return((long)(RANDOM()*max+1));
}
/*! Interactively ask for the seed
\param void
\return void
**/
void AskSeed(void)
{
int seed;
printf("Please enter a random seed: ");
scanf("%d",&seed);
printf("\n");
Seed(seed);
}
int RandomCounter(void) {
return counter;
}
/*! Make a random seed based on the local time
\param void
\return void
**/
int Randomize(void) {
// Set the seed according to the local time
struct timeb t;
int seed;
ftime(&t);
seed=abs((int)((t.time*t.millitm)%655337));
Seed(seed);
#ifdef QDEBUG
qDebug() << "Random seed is " << seed << endl;
#endif
return seed;
}
/* finis */
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