Giovanni De Toni geektoni

## libroadrunner.sh
mkdir roadrunner && cd roadrunner/

#sudo apt-get update
#sudo apt-get install git g++-5 cmake make wget
#sudo apt-get install llvm-3.5 llvm-3.5-dev
#sudo apt-get install libbz2-1.0 libbz2-dev zlibc libxml2-dev libz-dev
#sudo apt-get install libncurses5-dev
#export CC=gcc-5
#export CXX=g++-5

## strace-out-correct
execve("/home/travis/.bdm/third_party/paraview/bin/pvpython", ["pvpython", "../include/core/visualization/ge"..., "output/N3bdm52CatalystAdaptorTes"...], [/* 152 vars */]) = 0
brk(NULL)                               = 0x89a000
access("/etc/ld.so.nohwcap", F_OK)      = -1 ENOENT (No such file or directory)
mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f927fc90000
access("/etc/ld.so.preload", R_OK)      = -1 ENOENT (No such file or directory)
open("/home/travis/.bdm/third_party/qt/lib/tls/x86_64/libc.so.6", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)
stat("/home/travis/.bdm/third_party/qt/lib/tls/x86_64", 0x7ffe42c76390) = -1 ENOENT (No such file or directory)
open("/home/travis/.bdm/third_party/qt/lib/tls/libc.so.6", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)
stat("/home/travis/.bdm/third_party/qt/lib/tls", 0x7ffe42c76390) = -1 ENOENT (No such file or directory)
open("/home/travis/.bdm/third_party/qt/lib/x86_64/libc.so.6", O_RDONLY|O_CLOEXEC) = -

## strace-out-wrong
execve("/home/travis/build/BioDynaMo/biodynamo/build/install/third_party/paraview/bin/pvpython", ["pvpython", "../src/core/visualization/genera"..., "output/N3bdm52CatalystAdaptorTes"...], [/* 152 vars */]) = 0
brk(NULL)                               = 0xbb8000
access("/etc/ld.so.nohwcap", F_OK)      = -1 ENOENT (No such file or directory)
mmap(NULL, 4096, PROT_READ|PROT_WRITE, MAP_PRIVATE|MAP_ANONYMOUS, -1, 0) = 0x7f8d974f4000
access("/etc/ld.so.preload", R_OK)      = -1 ENOENT (No such file or directory)
open("/home/travis/build/BioDynaMo/biodynamo/build/install/third_party/qt/lib/tls/x86_64/libc.so.6", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)
stat("/home/travis/build/BioDynaMo/biodynamo/build/install/third_party/qt/lib/tls/x86_64", 0x7ffe6b614520) = -1 ENOENT (No such file or directory)
open("/home/travis/build/BioDynaMo/biodynamo/build/install/third_party/qt/lib/tls/libc.so.6", O_RDONLY|O_CLOEXEC) = -1 ENOENT (No such file or directory)
stat("/home/travis/build/BioDynaMo/biodynamo/build

## gist:487fa1c3eac5fbd31c70c9dc54d67fb1
#include <shogun/base/init.h>
#include <shogun/base/some.h>
#include <shogun/distance/Distance.h>
#include <shogun/features/Features.h>
#include <shogun/io/File.h>
#include <shogun/io/SerializableAsciiFile.h>
#include <shogun/lib/DynamicObjectArray.h>
#include <shogun/lib/SGMatrix.h>
#include <shogun/lib/SGVector.h>
#include <shogun/lib/observers/ParameterObserver.h>

## results_glm.txt
# Beta0 e Beta predetti
0.057167247685
[ 0. -0. -0.  0.  0. -0. -0.  0. -0.  0.]

# Beta0 e Beta reali usati dal generatore
[ 0.04515583]
[-0.012569  0.058881  0.138457 -0.021287 -0.021285  0.143565  0.069767
 -0.042679  0.049324 -0.042129]

## averaged_perceptron_example.py
from matplotlib import pyplot as plt
from matplotlib import animation
from shogun import csv_file, features, labels, machine, parameter_observer

f_feats_train = csv_file("classifier_binary_2d_linear_features_train.dat")
f_feats_test = csv_file("classifier_binary_2d_linear_features_test.dat")
f_labels_train = csv_file("classifier_binary_2d_linear_labels_train.dat")
f_labels_test = csv_file("classifier_binary_2d_linear_labels_test.dat")

features_train = features(f_feats_train)

## register_observable_params.cpp
/******/
/* How observable parameters can be registered*/
/******/
MyFabulousMachine::init()
{
	// Register standard parameters
	SG_ADD(&m_w, "weights", "Model weigths", ParameterProperties::MODEL);

	// Version A: Register observable parameters. The user could then get a list
  	// (vector) of the parameters he can observe inside this model. Only the parameters

## lars_example.cpp
#include <shogun/features/DenseFeatures.h>
#include <shogun/lib/SGMatrix.h>
#include <shogun/regression/LeastAngleRegression.h>
#include <shogun/labels/RegressionLabels.h>
#include <shogun/mathematics/linalg/LinalgNamespace.h>
#include <shogun/preprocessor/PruneVarSubMean.h>
#include <shogun/preprocessor/NormOne.h>
#include <shogun/lib/parameter_observers/ParameterObserverLogger.h>
#include <shogun/base/init.h>
#include <shogun/lib/common.h>

## changepassword.sh
#!/bin/bash
USER=$1
PASS=$2
usermod --password $(echo $PASS | openssl passwd -1 -stdin) $USER

## Perceptron_Observer_benchmark
-------------------------------------------------------------------------------------------------
Benchmark                                                          Time           CPU Iterations
-------------------------------------------------------------------------------------------------
# Baseline
DataFixture/perceptron_baseline/8/256                             16 ms         16 ms         43
DataFixture/perceptron_baseline/64/256                            18 ms         18 ms         34
DataFixture/perceptron_baseline/256/256                           47 ms         47 ms         15
DataFixture/perceptron_baseline/8/512                             31 ms         31 ms         22
DataFixture/perceptron_baseline/64/512                            51 ms         51 ms         13
DataFixture/perceptron_baseline/256/512                          108 ms        108 ms          6