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  • pylab.savefig() and pylab.show() image difference

    - by Jack1990
    I'm making an script to automatically create plots from .xvg files, but there's a problem when I'm trying to use pylab's savefig() method. Using pylab.show() and saving from there, everything's fine. Using pylab.show() Using pylab.savefig() def producePlot(timestep, energy_values,type_line = 'r', jump = 1,finish = 100): fc = sp.interp1d(timestep[::jump], energy_values[::jump],kind='cubic') xnew = numpy.linspace(0, finish, finish*2) pylab.plot(xnew, fc(xnew),type_line) pylab.xlabel('Time in ps ') pylab.ylabel('kJ/mol') pylab.xlim(xmin=0, xmax=finish) def produceSimplePlot(timestep, energy_values,type_line = 'r', jump = 1,finish = 100): pylab.plot(timestep, energy_values,type_line) pylab.xlabel('Time in ps ') pylab.ylabel('kJ/mol') pylab.xlim(xmin=0, xmax=finish) def linearRegression(timestep, energy_values, type_line = 'g'): #, jump = 1,finish = 100): from scipy import stats import numpy #print 'fuck' timestep = numpy.asarray(timestep) slope, intercept, r_value, p_value, std_err = stats.linregress(timestep,energy_values) line = slope*timestep+intercept pylab.plot(timestep, line, type_line) def plottingTime(Title,file_name, timestep, energy_values ,loc, jump , finish): pylab.title(Title) producePlot(timestep,energy_values, 'b',jump, finish) linearRegression(timestep,energy_values) import numpy Average = numpy.average(energy_values) #print Average pylab.legend(("Average = %.2f" %(Average),'Linear Reg'),loc) #pylab.show() pylab.savefig('%s.jpg' %file_name[:-4], bbox_inches= None, pad_inches=0) #if __name__ == '__main__': #plottingTime(Title,timestep1, energy_values, jump =10, finish = 4800) def specialCase(Title,file_name, timestep, energy_values,loc, jump, finish): #print 'Working here ...?' pylab.title(Title) producePlot(timestep,energy_values, 'b',jump, finish) import numpy from pylab import * Average = numpy.average(energy_values) #print Average pylab.legend(("Average = %.2g" %(Average), Title),loc) locs,labels = yticks() yticks(locs, map(lambda x: "%.3g" % x, locs)) #pylab.show() pylab.savefig('%s.jpg' %file_name[:-4] , bbox_inches= None, pad_inches=0) Thanks in advance, John

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  • Variable alpha blending in pylab

    - by Hooked
    How does one control the transparency over a 2D image in pylab? I'd like to give two sets of values (X,Y,Z,T) where X,Y are arrays of positions, Z is the color value, and T is the transparency to a function like imshow but it seems that the function only takes alpha as a scalar. As a concrete example, consider the code below that attempts to display two Gaussians. The closer the value is to zero, the more transparent I'd like the plot to be. from pylab import * side = linspace(-1,1,100) X,Y = meshgrid(side,side) extent = (-1,1,-1,1) Z1 = exp(-((X+.5)**2+Y**2)) Z2 = exp(-((X-.5)**2+(Y+.2)**2)) imshow(Z1, cmap=cm.hsv, alpha=.6, extent=extent) imshow(Z2, cmap=cm.hsv, alpha=.6, extent=extent) show() Note: I am not looking for a plot of Z1+Z2 (that would be trivial) but for a general way to specify the alpha blending across an image.

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  • How to update the filename of a Django's FileField instance ?

    - by pierre-guillaume-degans
    Hello, Here a simple django model: class SomeModel(models.Model): title = models.CharField(max_length=100) video = models.FileField(upload_to='video') I would like to save any instance so that the video's file name would be a valid file name of the title. For example, in the admin interface, I load a new instance with title "Lorem ipsum" and a video called "video.avi". The copy of the file on the server should be "Lorem Ipsum.avi" (or "Lorem_Ipsum.avi"). Thank you :)

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  • Convert a sequence of sequences to a dictionary and vice-versa

    - by louis
    One way to manually persist a dictionary to a database is to flatten it into a sequence of sequences and pass the sequence as an argument to cursor.executemany(). The opposite is also useful, i.e. reading rows from a database and turning them into dictionaries for later use. What's the best way to go from myseq to mydict and from mydict to myseq? >>> myseq = ((0,1,2,3), (4,5,6,7), (8,9,10,11)) >>> mydict = {0: (1, 2, 3), 8: (9, 10, 11), 4: (5, 6, 7)}

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  • Django Testing: Faking User Creation

    - by Ygam
    I want to better write this test: def test_profile_created(self): self.client.post(reverse('registration_register'), data={ 'username':'ygam', 'email':'[email protected]', 'password1':'ygam', 'password2':'ygam' }) """ Test if a profile is created on save """ user = User.objects.get(username='ygam') self.assertTrue(UserProfile.objects.filter(user=user).exists()) and I just came upon this code on django-registration tests that does not actually "create" the user: def test_registration_signal(self): def receiver(sender, **kwargs): self.failUnless('user' in kwargs) self.assertEqual(kwargs['user'].username, 'bob') self.failUnless('request' in kwargs) self.failUnless(isinstance(kwargs['request'], WSGIRequest)) received_signals.append(kwargs.get('signal')) received_signals = [] signals.user_registered.connect(receiver, sender=self.backend.__class__) self.backend.register(_mock_request(), username='bob', email='[email protected]', password1='secret') self.assertEqual(len(received_signals), 1) self.assertEqual(received_signals, [signals.user_registered]) However he used a custom function for this "_mock_request": class _MockRequestClient(Client): def request(self, **request): environ = { 'HTTP_COOKIE': self.cookies, 'PATH_INFO': '/', 'QUERY_STRING': '', 'REMOTE_ADDR': '127.0.0.1', 'REQUEST_METHOD': 'GET', 'SCRIPT_NAME': '', 'SERVER_NAME': 'testserver', 'SERVER_PORT': '80', 'SERVER_PROTOCOL': 'HTTP/1.1', 'wsgi.version': (1,0), 'wsgi.url_scheme': 'http', 'wsgi.errors': self.errors, 'wsgi.multiprocess':True, 'wsgi.multithread': False, 'wsgi.run_once': False, 'wsgi.input': None, } environ.update(self.defaults) environ.update(request) request = WSGIRequest(environ) # We have to manually add a session since we'll be bypassing # the middleware chain. session_middleware = SessionMiddleware() session_middleware.process_request(request) return request def _mock_request(): return _MockRequestClient().request() However, it may be too long of a function for my needs. I want to be able to somehow "fake" the account creation. I have not much experience on mocks and stubs so any help would do. Thanks!

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  • how to import a 'zip' file to my .py ..

    - by zjm1126
    when i use http://github.com/joshthecoder/tweepy-examples , i find : import tweepy in the appengine\oauth_example\handlers.py but i can't find a tweepy file or tweepy's 'py' file, except a tweepy.zip file, i don't think this is right,cauz i never import a zip file, i find this in app.py: import sys sys.path.insert(0, 'tweepy.zip') why ? how to import a zip file.. thanks

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  • Sort by an object's type

    - by Richard Levasseur
    Hi all, I have code that statically registers (type, handler_function) pairs at module load time, resulting in a dict like this: HANDLERS = { str: HandleStr, int: HandleInt, ParentClass: HandleCustomParent, ChildClass: HandleCustomChild } def HandleObject(obj): for data_type in sorted(HANDLERS.keys(), ???): if isinstance(obj, data_type): HANDLERS[data_type](obj) Where ChildClass inherits from ParentClass. The problem is that, since its a dict, the order isn't defined - but how do I introspect type objects to figure out a sort key? The resulting order should be child classes follow by super classes (most specific types first). E.g. str comes before basestring, and ChildClass comes before ParentClass. If types are unrelated, it doesn't matter where they go relative to each other.

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  • How to add a separator in a PyGTK combobox?

    - by mkotechno
    I'm using gtk.combo_box_new_text() to make combobox list, this uses a gtk.ListStore to store only strings, so there are some way to add a separator between items without use a complex gtk.TreeModel? If this is not possible, what is the simplest way to use a gtk.TreeModel to able secuential widget addition?

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  • How do you efficiently bulk index lookups?

    - by Liron Shapira
    I have these entity kinds: Molecule Atom MoleculeAtom Given a list(molecule_ids) whose lengths is in the hundreds, I need to get a dict of the form {molecule_id: list(atom_ids)}. Likewise, given a list(atom_ids) whose length is in the hunreds, I need to get a dict of the form {atom_id: list(molecule_ids)}. Both of these bulk lookups need to happen really fast. Right now I'm doing something like: atom_ids_by_molecule_id = {} for molecule_id in molecule_ids: moleculeatoms = MoleculeAtom.all().filter('molecule =', db.Key.from_path('molecule', molecule_id)).fetch(1000) atom_ids_by_molecule_id[molecule_id] = [ MoleculeAtom.atom.get_value_for_datastore(ma).id() for ma in moleculeatoms ] Like I said, len(molecule_ids) is in the hundreds. I need to do this kind of bulk index lookup on almost every single request, and I need it to be FAST, and right now it's too slow. Ideas: Will using a Molecule.atoms ListProperty do what I need? Consider that I am storing additional data on the MoleculeAtom node, and remember it's equally important for me to do the lookup in the molecule-atom and atom-molecule directions. Caching? I tried memcaching lists of atom IDs keyed by molecule ID, but I have tons of atoms and molecules, and the cache can't fit it. How about denormalizing the data by creating a new entity kind whose key name is a molecule ID and whose value is a list of atom IDs? The idea is, calling db.get on 500 keys is probably faster than looping through 500 fetches with filters, right?

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  • How to convert tag-and-username-like text into proper links in a twitter message?

    - by Satoru.Logic
    Hi, all. I'm writing a twitter-like note-taking web app. In a page the latest 20 notes of the user will be listed, and when the user scroll to the bottom of the browser window more items will be loaded and rendered. The initial 20 notes are part of the generated html of my django template, but the other dynamically loaded items are in json format. I want to know how do I do the tag-and-username converting consistently. Thanks in advance.

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  • app-engine-patch and "object_detail" view didn't work

    - by Hugh
    Hi(Sorry for my ugly english) When I calling the flowing: http://192.168.62.90:8000/blog/entry/?agphdXR1bW4xOTEychALEgpibG9nX2VudHJ5GCYM will use this: urlpatterns = patterns('', (r'^media/(?P<path>.*)$', 'django.views.static.serve', {'document_root': settings.MEDIA_ROOT, 'show_indexes': True}), (r'^$', list_detail.object_list, entry_info), (r'^entry/(?P<object_id>.*)$', list_detail.object_detail, {'queryset': Entry.all(), 'template_name': 'sample_test_page.html'}), ) and the error is: Generic view must be called with either an object_id or a slug/slug_field. I want to know why this didn't work for me.

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  • Django queries Especial Caracters

    - by Jorge Machado
    Hi, I Working on location from google maps and using django to. My question is: I have a String in request.GET['descricao'] lets say it contains "Via rapida". In my database i have store = "Via Rápida" i'm doing : local = Local.objects.filter(name__icontains=request.GET['descricao']) with that i can get everthing fine like "Via Rapida" but the result that have "Via rápida" never get match in the query (ASCI caracter may be ?) what must i do given a string "Via rapida" match "via rápida" and "via rapida" ? Regular Expressions ? how ? Thanks

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  • Terminate subprocess in Windows, access denied

    - by Jesse Aldridge
    - import time import subprocess from os.path import expanduser chrome_path = expanduser('~\Local Settings\Application Data\Google\Chrome\Application\chrome.exe') proc = subprocess.Popen(chrome_path) time.sleep(4) proc.terminate() Output: WindowsError: [Error 5] Access is denied How can I kill the Chrome process?

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  • Subprocess fails to catch the standard output

    - by user343934
    I am trying to generate tree with fasta file input and Alignment with MuscleCommandline import sys,os, subprocess from Bio import AlignIO from Bio.Align.Applications import MuscleCommandline cline = MuscleCommandline(input="c:\Python26\opuntia.fasta") child= subprocess.Popen(str(cline), stdout = subprocess.PIPE, stderr=subprocess.PIPE, shell=(sys.platform!="win32")) align=AlignIO.read(child.stdout,"fasta") outfile=open('c:\Python26\opuntia.phy','w') AlignIO.write([align],outfile,'phylip') outfile.close() I always encounter with these problems Traceback (most recent call last): File "<string>", line 244, in run_nodebug File "C:\Python26\muscleIO.py", line 11, in <module> align=AlignIO.read(child.stdout,"fasta") File "C:\Python26\Lib\site-packages\Bio\AlignIO\__init__.py", line 423, in read raise ValueError("No records found in handle") ValueError: No records found in handle

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  • Pygame program that can get keyboard input with caps

    - by None
    I have a Pygame program that needs text input. The way it does this is to get keyboard input and when a key is pressed it renders that key so it is added to the screen. Essentially it acts like a text field. The problem is, when you hold shift it doesn't do anything. I relize this is because the program ignores shift input and instead writes the text if it's number is under 128. I have thought of setting a variable when shift is pressed then capitalizing if it was true, but string capitalization only woks on letters, not things like numbers or semicolons. Is there maybe a number I can add to the ascii number typed to modify it if shift is pressed, or something else?

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  • Trying to set up nested while loops using a boolean switch

    - by thorn100
    First time posting. I'm trying to set up a while loop that will ask the user for the employee name, hours worked and hourly wage until the user enters 'DONE'. Eventually I'll modify the code to calculate the weekly pay and write it to a list, but one thing at a time. The problem is once the main while loop executes once, it just stops. Doesn't error out but just stops. I have to kill the program to get it to stop. I want it to ask the three questions again and again until the user is finished. Thoughts? Please note that this is just an exercise and not meant for any real world application. def getName(): """Asks for the employee's full name""" firstName=raw_input("\nWhat is your first name? ") lastName=raw_input("\nWhat is your last name? ") fullName=firstName.title() + " " + lastName.title() return fullName def getHours(): """Asks for the number of hours the employee worked""" hoursWorked=0 while int(hoursWorked)<1 or int(hoursWorked) > 60: hoursWorked=raw_input("\nHow many hours did the employee work: ") if int(hoursWorked)<1 or int(hoursWorked) > 60: print "Please enter an integer between 1 and 60." else: return hoursWorked def getWage(): """Asks for the employee's hourly wage""" wage=0 while float(wage)<6.00 or float(wage)>20.00: wage=raw_input("\nWhat is the employee's hourly wage: ") if float(wage)<6.00 or float(wage)>20.00: print ("Please enter an hourly wage between $6.00 and $20.00") else: return wage ##sentry variables employeeName="" employeeHours=0 employeeWage=0 booleanDone=False #Enter employee info print "Please enter payroll information for an employee or enter 'DONE' to quit." while booleanDone==False: while employeeName=="": employeeName=getName() if employeeName.lower()=="done": booleanDone=True break print "The employee's name is", employeeName while employeeHours==0: employeeHours=getHours() if employeeHours.lower()=="done": booleanDone=True break print employeeName, "worked", employeeHours, "this week." while employeeWage==0: employeeWage=getWage() if employeeWage.lower()=="done": booleanDone=True break print employeeName + "'s hourly wage is $" + employeeWage

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  • Making File Dialog only accept directories

    - by matt
    I want to have a file dialog only allow directories, here's what I've been trying: fileDialog = QtGui.QFileDialog() fileDialog.setFileMode(QtGui.QFileDialog.ShowDirsOnly) filename = fileDialog.getOpenFileName(self, 'Select USB Drive Location')) Thank You

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  • Explicit disable MySQL query cache in some parts of program

    - by jack
    In a Django project, some cronjob programs are mainly used for administrative or analysis purposes, e.g. generating site usage stats, rotating user activities log, etc. We probably do not hope MySQL to cache queries in those programs to save memory usage and improve query cache efficiency. Is it possible to turn off MySQL query cache explicitly in those programs while keep it enabled for other parts including all views.py?

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  • min() and max() give error: TypeError: 'float' object is not iterable

    - by PythonUser3.3
    markList=[] Lmark=0 Hmark=0 while True: mark=float(input("Enter your marks here(Click -1 to exit)")) if mark == -1: break markList.append(mark) markList.sort() mid = len(markList)//2 if len(markList)%2==0: median=(markList[mid]+ markList[mid-1])/2 print("Median:", median) else: print("Median:" , markList[mid]) Lmark==(min(mark)) print("The lowest mark is", Lmark) Hmark==(max(mark)) print("The highest mark is", Hmark) My program is a basic grade calculator using lists. My program asks the user to input their grades into a list in which it then calculates your average and finds your lowest and highest mark. I have found the average but I can't seem to figure out how to find the lowest and highest grade. Can you please show me pr tell me what to do?

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  • Remove padding in wxPython's wxWizard

    - by mridang
    Hi Guys, I'm using wxPython to create a wizard using the wxWizard control. I'm trying to a draw a colored rectangle but when I run the app, there seems to be a about a 10px padding on each side of the rectangle. This goes for all other controls too. I have to offset them a bit so that they appear exactly where I want them to. Is there any way I could remove this padding? Here's the source of my base Wizard page. class SimplePage(wx.wizard.PyWizardPage): """ Simple wizard page with unlimited rows of text. """ def __init__(self, parent, title): wx.wizard.PyWizardPage.__init__(self, parent) self.next = self.prev = None #self.sizer = wx.BoxSizer(wx.VERTICAL) title = wx.StaticText(self, -1, title) title.SetFont(wx.Font(18, wx.SWISS, wx.NORMAL, wx.BOLD)) #self.sizer.AddWindow(title, 0, wx.ALIGN_LEFT|wx.ALL, padding) #self.sizer.AddWindow(wx.StaticLine(self, -1), 0, wx.EXPAND|wx.ALL, padding) # self.SetSizer(self.sizer) self.Bind(wx.EVT_PAINT, self.OnPaint) def OnPaint(self, evt): """set up the device context (DC) for painting""" self.dc = wx.PaintDC(self) self.dc.BeginDrawing() self.dc.SetPen(wx.Pen("grey",style=wx.TRANSPARENT)) self.dc.SetBrush(wx.Brush("grey", wx.SOLID)) # set x, y, w, h for rectangle self.dc.DrawRectangle(0,0,500, 500) self.dc.EndDrawing() del self.dc def SetNext(self, next): self.next = next def SetPrev(self, prev): self.prev = prev def GetNext(self): return self.next def GetPrev(self): return self.prev def Activated(self, evt): """ Executed when page is being activated. """ return def Blocked(self, evt): """ Executed when page is about to be switched. Switching can be blocked by returning True. """ return False def Cancel(self, evt): """ Executed when wizard is about to be canceled. Canceling can be blocked by returning False. """ return True Thanks guys.

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  • how to profile my code??

    - by kaki
    i want to how to profile my code... i have gone through the docs , but as there were no example codes given i could not get anything from it. i have a large code and it is taking so much time hence want to profile and increase its speed. i havent written my code in method , there are few in between but not completely. i dont have any main in my code..i want to know how to use profiling.. looking for some example or sample code of about how to profile.. i tried psyco i.e just addded two line at the top of my code import psyco psyco.full() is this write,it did not show any improvement. and other way of speeding up ,please suggest. thanks in advance..

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  • django sync db question

    - by Hulk
    In django models say this model exist in details/models.py class OccDetails(models.Model): title = models.CharField(max_length = 255) occ = models.ForeignKey(Occ) So when sync db is made the following fields get created and later to this of two more fields are added and sync db is made the new fields doesnt get created.How is this to be solved,Also what is auto_now=true in the below these are the new fields created_date = models.DateTimeField(auto_now_add=True) modified_date = models.DateTimeField(auto_now_add=True, auto_now=True)

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  • Tokenize a command string

    - by pocoa
    I have string like this: command "http://www.mysite.com" some_param="string param" some_param2=50 I want to tokenize this string into: command "http://www.mysite.com" some_param="string param" some_param2=50 I know it's possible to split with spaces but these parameters can also be seperated by commas, like: command "http://www.mysite.com", some_param="string param", some_param2=50 I tried to do it like this: \w+\=?\"?.+\"? but it didn't work.

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