From 5deacf9a89796af5b0e17c94d85be68dfa07968a Mon Sep 17 00:00:00 2001
From: Vladimir Privalov <vovaprivalov@gmail.com>
Date: Sat, 19 Oct 2019 17:27:14 +0200
Subject: [PATCH 1/2] Add build_barchart and calc_sparseness utils

---
 build_barchart/README.md           | 31 +++++++++++++++
 build_barchart/build_barchart.py   | 62 ++++++++++++++++++++++++++++++
 calc_sparseness/README.md          | 10 +++++
 calc_sparseness/calc_sparseness.py | 36 +++++++++++++++++
 4 files changed, 139 insertions(+)
 create mode 100644 build_barchart/README.md
 create mode 100644 build_barchart/build_barchart.py
 create mode 100644 calc_sparseness/README.md
 create mode 100644 calc_sparseness/calc_sparseness.py

diff --git a/build_barchart/README.md b/build_barchart/README.md
new file mode 100644
index 0000000..4c9222b
--- /dev/null
+++ b/build_barchart/README.md
@@ -0,0 +1,31 @@
+## build_barchart
+Utility for building bar chart from data stored in file. This utility can be useful in scientific work for experimental data analysis.
+
+### Prerequisities
+The script requires matplotlib installed. To install it use pip:
+
+```
+pip install matplotlib
+```
+
+### Usage
+Create a file with data in the following format
+```
+1: 0
+2: 1
+3: 0
+4: 2
+...
+```
+First number specifies the values along the x axis i.e. bins in the histogram. Second number if the value for each bin i.e. the height of the bin.
+
+Using: python build_histogram.py -f \<file> -m \<y_max> -x \<x_label> -y \<y_label>
+
+where y_max - maximum value for y axis.
+
+The script outputs
+```
+Barchart was saved in file  <file>.png
+```
+Sctipt creates a barchart in the file <file>.png.
+
diff --git a/build_barchart/build_barchart.py b/build_barchart/build_barchart.py
new file mode 100644
index 0000000..827110d
--- /dev/null
+++ b/build_barchart/build_barchart.py
@@ -0,0 +1,62 @@
+
+#!/usr/bin/python
+# Filename: build_barchart.py
+
+import os
+import sys, getopt
+import numpy as np
+import matplotlib.pyplot as plt
+
+y_lim = 20 # the number of data items
+x_label = ""
+y_label = ""
+
+def read_file(file_name):
+    global y_lim
+    global x_label
+    global y_label
+    values = []
+    for line in open(file_name, 'r'):
+        if line != '':
+            value_strs = line.split(':')
+            value = int(value_strs[1])
+            values.append(value)
+
+    N = len(values)
+    x = range(N)
+    width = 1
+    
+    plt.bar(x, values, width, color="blue")
+    plt.xlabel(x_label)
+    plt.ylabel(y_label)
+    plt.ylim(0,y_lim)
+    barchart_file = file_name+'.png'
+    plt.savefig(barchart_file)
+    print('Barchart was saved in file ',barchart_file)
+
+def main(argv):
+    file_name = ""
+    global y_lim, x_label, y_label
+    try:
+        opts, args = getopt.getopt(argv,"h:f:m:x:y:")
+    except getopt.GetoptError:
+        print('Unknown arguments!\nUsing: python build_histogram.py -f <file> -m <y_max> -x <x_label> -y <y_label>')
+        sys.exit(2)
+    for opt, arg in opts:
+        if opt == '-h':
+            print('Using: python build_histogram.py -f <file> -m <y_max> -x <x_label> -y <y_label>')
+            sys.exit()
+        elif opt == '-f':
+            file_name = arg
+        elif opt == '-m':
+            y_lim = int(arg)
+        elif opt == '-x':
+            x_label = arg
+        elif opt == '-y':
+            y_label = arg
+
+    read_file(file_name)
+
+
+if __name__ == '__main__':
+    main(sys.argv[1:])
diff --git a/calc_sparseness/README.md b/calc_sparseness/README.md
new file mode 100644
index 0000000..f8c0189
--- /dev/null
+++ b/calc_sparseness/README.md
@@ -0,0 +1,10 @@
+## calc_sparseness
+Utility for calculating sparseness of a vector of data
+
+Usage: python calc_sparseness.py -f \<data_file>
+
+Data in file:
+
+```
+0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0.11 6163 0 0 0 0 0.109525 0 0 0
+```
diff --git a/calc_sparseness/calc_sparseness.py b/calc_sparseness/calc_sparseness.py
new file mode 100644
index 0000000..57186d3
--- /dev/null
+++ b/calc_sparseness/calc_sparseness.py
@@ -0,0 +1,36 @@
+#!/usr/bin/python
+# Filename: calc_sparseness.py
+
+import sys, getopt
+
+def read_data(file):
+    data_len = 0
+    zeros = 0
+
+    infile = open(file, 'r')
+    line = infile.readline()
+    #print line,'\n'
+    values = [float(v) for v in line.split(' ') if len(v)]
+    data_len = len(values)
+
+    zero_vals = [v for v in values if v == 0]
+    zeros = len(zero_vals)
+
+    print('zeros ',zeros,' in total ',data_len,'\n')
+
+def main(argv):
+    data_file = ''
+    try:
+        opts, args = getopt.getopt(argv,"f:")
+    except getopt.GetoptError:
+        print('python calc_sparseness.py -f <data_file>')
+        sys.exit(2)
+    for opt, arg in opts:
+        if opt == '-f':
+            data_file = arg
+    
+    print('data file:', data_file,'\n')
+    read_data(data_file)
+
+if __name__ == "__main__":
+    main(sys.argv[1:])

From e6c9a973edb3307c385de9d23e3aff76aa50fd6f Mon Sep 17 00:00:00 2001
From: Vladimir Privalov <vovaprivalov@gmail.com>
Date: Sat, 19 Oct 2019 17:53:16 +0200
Subject: [PATCH 2/2] Remove first blank line in build_barchart.py

---
 build_barchart/build_barchart.py | 1 -
 1 file changed, 1 deletion(-)

diff --git a/build_barchart/build_barchart.py b/build_barchart/build_barchart.py
index 827110d..da987ab 100644
--- a/build_barchart/build_barchart.py
+++ b/build_barchart/build_barchart.py
@@ -1,4 +1,3 @@
-
 #!/usr/bin/python
 # Filename: build_barchart.py