def _get_payload(self, diccionario):
diccionario["SDK"] = "Python"
diccionario["SDKVERSION"] = ver
try:
diccionario["LENGUAGEVERSION"] = sys.version
except Exception, err:
try:
diccionario["LENGUAGEVERSION"] = sys.version()
except Exception, err2:
diccionario["LENGUAGEVERSION"] = "version unknown"
def _get_payload(self,diccionario): diccionario["SDK"]="Python" diccionario["SDKVERSION"]=ver try: diccionario["LENGUAGEVERSION"]=sys.version except Exception, err: try: diccionario["LENGUAGEVERSION"]=sys.version() except Exception, err2: diccionario["LENGUAGEVERSION"]="version unknown"
def _get_payload(self, diccionario):
diccionario["SDK"] = "Python"
diccionario["SDKVERSION"] = ver
try:
diccionario["LENGUAGEVERSION"] = sys.version
except Exception as err:
try:
diccionario["LENGUAGEVERSION"] = sys.version()
except Exception as err2:
diccionario["LENGUAGEVERSION"] = "version unknown"
xmlpayload = "<Request>"
for key in diccionario:
xmlpayload += "<" + key + ">" + diccionario[key] + "</" + key + ">"
xmlpayload += "</Request>"
return xmlpayload
def _new_figure_manager(num, *args, **kwargs):
if pymol._ext_gui is None:
return new_figure_manager(num, *args, **kwargs)
backend_tkagg.show._needmain = False
if sys.version().major >= 3:
import tkinter as Tk
else:
import Tkinter as Tk
from matplotlib.figure import Figure
from matplotlib.backends.backend_tkagg import FigureCanvasTkAgg, FigureManagerTkAgg
FigureClass = kwargs.pop('FigureClass', Figure)
figure = FigureClass(*args, **kwargs)
window = Tk.Toplevel(master=pymol._ext_gui.root)
canvas = FigureCanvasTkAgg(figure, master=window)
figManager = FigureManagerTkAgg(canvas, num, window)
if matplotlib.is_interactive():
figManager.show()
return figManager
def _get_payload(self, diccionario):
diccionario["SDK"] = "Python"
diccionario["SDKVERSION"] = ver
try:
diccionario["LENGUAGEVERSION"] = sys.version
except Exception as err:
try:
diccionario["LENGUAGEVERSION"] = sys.version()
except Exception as err2:
diccionario["LENGUAGEVERSION"] = "version unknown"
# NOTE: added in order to avoid <ApplicationIdentification/> not mapped to message part error
diccionario["LENGUAGEVERSION"] = diccionario[
"LENGUAGEVERSION"].replace('\n', '')
xmlpayload = "<Request>"
for key in diccionario:
xmlpayload += "<" + key + ">" + diccionario[key] + "</" + key + ">"
xmlpayload += "</Request>"
return xmlpayload
#Name
#Description:
#This is a generic python template that has functions from utils.py imported and can be used on CFCE1
#================================================================================
#=============================DEPENDENCIES=======================================
#================================================================================
import sys
print "Using python version %s" % sys.version()
#importing utils package
sys.path.append('/home/cl512/src/pipeline/')
import utils
#================================================================================
#============================GLOBAL PARAMETERS===================================
#================================================================================
#add locations of files and global parameters in this section
#pythonTemplate.py <- change to title of your script
#130801 <- date
#Name
#Description:
#This is a generic python template that has functions from utils.py imported and can be used on CFCE1
#================================================================================
#=============================DEPENDENCIES=======================================
#================================================================================
import sys
print "Using python version %s" % sys.version()
#importing utils package
sys.path.append('/home/cl512/src/pipeline/')
import utils
#================================================================================
#============================GLOBAL PARAMETERS===================================
#================================================================================
#add locations of files and global parameters in this section
dataFile = '/location/file.txt'
genome = 'hg18'
#================================================================================
def mult(int):
num = int * 10;
return num
a = map( mult, [1,2,3] )
for i in a:
#print i
pass
# regex
rex = re.compile('(?:A\d\d)+(A)')
a = "A42Abc"
result = rex.search(a)
#print result.group(1)
# replace/regex
regex = re.compile('hi')
replace = regex.sub('bye', "hi, I'm leaving")
print replace
# os module
cwd = os.getcwd()
#print cwd
ver = sys.version()
print ver
# !/usr/bin/python
'''
Programmer: Matthew Griffin
Description: A script that deletes all files in a user-inputted dir
'''
try:
import os
import shutil
import sys
except:
print("Python " + str(sys.version()) + "Is not installed correctly. Try re-installing.")
class Delete:
def __init__(self):
direct = input("Enter a dir: ")
# Making a seperation barrier
for x in range(0,20):
print("-", end = "")
# Trying to find the dir the user inputted
try:
print("\n")
# Checking if there are any files in the dir
if not(os.listdir(direct) == []):
for filename in os.listdir(direct):
print("FOUND FILE: " + str(filename))
counter +=1
file.close()
return counter
#ex6
file = open('/home/stefano/Università/PB/sequences.seq', 'r')
bases = ['A', 'T', 'G', 'C']
def other_letter(file):
found = 0
tot = 0
for sequence in file:
sequence = sequence.rstrip()
for base in sequence:
if not(base in bases6):
found = 1
if found == 1:
tot += 1
found = 0
return tot
# print(line_count('/home/stefano/Università/PB/sequences.seq'))
# print(pattern_count('/home/stefano/Università/PB/sequences.seq', 'CTATA'))
# print(gc_comp('/home/stefano/Università/PB/sequences.seq', 0.5))
# print(length_limit('/home/stefano/Università/PB/sequences.seq', 1000))
print(other_letter(file))
file.close()
import sys
print(sys.version())
#"save" behavior
if 'save' in func:
plt.savefig("{0}.png".format(path.split('.graphml')[0]))
#"show" behavior
if 'show' in func:
plt.show()
if __name__ == "__main__":
"""
Script to visualize a graphml file (path as parameter)
Works ONLY with python 2.7
Arg 1: path of the graphml to visualize
Arg 2: The id of the usegraph (to visualize)
"""
version = sys.version()
if not '2.7' in version:
print("Please to install & run this script with Python2.7")
sys.exit()
#Get path of the graphml file
path = sys.argv[1]
#Get id of the usegraph to draw
usegraph_id = sys.argv[2]
func = ""
#Ask the user if he wants to show or save the usegraph
while (not 'show' in func) and (not 'save' in func):
IDEAS:
- Add more file formats
- Add function to see/alert user if old dir is empty
- Add file that holds things like new/old dir, last name
- Name formatting(in case of bad user input)
'''
# Importing stuff
try:
import os
import shutil
import sys
except ImportError:
print("Python " + str(sys.version()) +
"is not installed correctly. Try re-installing.")
DEBUG = False
class Rename:
def __init__(self):
# Making some basic variables, olddir, newdir, and lastName
olddir = "old"
newdir = "new"
lastName = input(
"What is your last name [i.e. 'Harris']?: ") # Getting last name
# If lastName has any other characters than letters
if (lastName.isalpha() == False):
def validate_base_sequence(base_sequence, RNAflag=False):
"""Return True if the string in base_sequence contains only T (or U if RNAflag), C, A, and G char; otherwise false"""
seq = base_sequence.upper()
return len(seq) == (seq.count('U' if RNAflag else 'T') +
seq.count('C') +
seq.count('A') +
seq.count('G'))
def gc_content(base_seq):
assert validate_base_sequence(base_seq), \
'argument has invalid chars'
seq = base_seq.upper()
return (base_seq.count('G') + base_seq.count('C') / len(base_seq))
if __name__ == '__main__':
my_seq = 'ATGCGTGTGCAAGTGCTG'
res = gc_content(my_seq)
print res
import sys
sys.version()
import sys print(sys.version) # In[3]: import sys print(sys) # In[4]: import sys print sys.version() # In[5]: import sys print(sys.version) # In[6]: #introduction to variables x=10 y=5
import sys
v = sys.version()
if "2.7" in v:
from Tkinter import *
import tkFileDialog
elif "3.3" in v or "3.4" in v:
from tkinter import *
import tkinter.tkFileDialog
root = Tk("Text Editor")
text = Text(root)
text.grid()
def saveas():
global text
t = text.get("1.0", "end-1c")
savelocation = tkFileDialog.asksaveasfilename()
file1 = open(savelocation, "w+")
file1.write(t)
file1.close()
button = Button(root, text="Save", command=saveas)
button.grid()
def version_check():
return sys.version()
def testMultiPatch(self, mock1, mock2, mock3):
mock1.return_value = "fake os.path"
mock2.return_value = "fake sys.version"
print("mock1 (os.path): {}".format(os.path()))
print("mock2 (sys.version): {}".format(sys.version()))
print("mock3 (sys.modules): {}".format(sys.modules()))
def testPatchB1(self):
with mock.patch("sys.version",
return_value="a fack version info B") as mockEgB:
r = sys.version()
print(r)
def testPatchA(self, mockEgA):
r1 = sys.version()
print(r1)
self.assertTrue(mockEgA.called)