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  • String manipulation appears to be inefficient

    - by user2964780
    I think my code is too inefficient. I'm guessing it has something to do with using strings, though I'm unsure. Here is the code: genome = FASTAdata[1] genomeLength = len(genome); # Hash table holding all the k-mers we will come across kmers = dict() # We go through all the possible k-mers by index for outer in range (0, genomeLength-1): for inner in range (outer+2, outer+22): substring = genome[outer:inner] if substring in kmers: # if we already have this substring on record, increase its value (count of num of appearances) by 1 kmers[substring] += 1 else: kmers[substring] = 1 # otherwise record that it's here once This is to search through all substrings of length at most 20. Now this code seems to take pretty forever and never terminate, so something has to be wrong here. Is using [:] on strings causing the huge overhead? And if so, what can I replace it with? And for clarity the file in question is nearly 200mb, so pretty big.

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  • Check exact match of a word in a list of words

    - by Flake
    I want to check if a word is in a list of words. word = "with" word_list = ["without", "bla", "foo", "bar"] I tried if word in set(list), but it is not yielding the wanted result due to the fact in is matching string rather than item. That is to say, "with" is a match in any of the words in the word_list but still if "with" in set(list) will say True. What is a simpler way for doing this check than manually iterate over the list?

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  • Manipulate data for scaling

    - by user1487000
    I have this data: Game 1: 7.0/10.0, Reviewed: 1000 times Game 2: 7.5/10.0, Reviewed: 3000 times Game 3: 8.9/10.0, Reviewed: 140,000 times Game 4: 10.0/10.0 Reviewed: 5 times . . . I want to manipulate this data in a way to make each rating reflective of how many times it has been reviewed. For example Game 3 should have a little heavier weight than than Game 4, since it has been reviewed way more. And Game 2's 7 should be weighted more than Game 1's 7. Is there a proper function to do this scaling? In such a way that ScaledGameRating = OldGameRating * (some exponential function?)

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  • Should I use `import os.path` or `import os`?

    - by Denilson Sá
    According to the official documentation, os.path is a module. Thus, what is the preferred way of importing it? # Should I always import it explicitly? import os.path Or... # Is importing os enough? import os Please DON'T answer "importing os works for me". I know, it works for me too right now. What I want to know is any official recommendation about this issue. So, if you answer this question, please post your references.

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  • How to use `wx.ProgressDialog` with my own method?

    - by user1401950
    How can I use the wx.ProgressDialog to time my method called imgSearch? The imgSearch method finds image files on the user's pc. How can I make the wx.ProgressDialog run while imgSearch is still running and display how long the imgSearch is taking? Here's my code: def onFind (self,event)# triggered by a button click max = 80 dlg = wx.ProgressDialog("Progress dialog example","An informative message",parent=self, style = wx.PD_CAN_ABORT| wx.PD_APP_MODAL| wx.PD_ELAPSED_TIME| wx.PD_REMAINING_TIME) keepGoing = True count = 0 imageExtentions = ['*.jpg', '*.jpeg', '*.png', '*.tif', '*.tiff'] selectedDir = 'C:\\' imgSearch.findImages(imageExtentions, selectedDir)# my method while keepGoing and count < max: count += 1 wx.MilliSleep(250) if count >= max / 2: (keepGoing, skip) = dlg.Update(count, "Half-time!") else: (keepGoing, skip) = dlg.Update(count) dlg.Destroy()

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  • app-engine-rest-server to raise KeyError("name %s already used" % model_name)

    - by fx
    I'm playing with the project appengine-rest-server to create the REST webservices for all the existing models. I got a strange error, the first time I query the browser: http://localhost:8080/rest/metadata/user, it gives me the result: <xs:schema> - <xs:element name="user"> - <xs:complexType> - <xs:sequence> <xs:element maxOccurs="1" minOccurs="0" name="key" type="xs:normalizedString"/> <xs:element maxOccurs="1" minOccurs="0" name="surname" type="xs:string"/> <xs:element maxOccurs="1" minOccurs="0" name="firstname" type="xs:string"/> <xs:element maxOccurs="1" minOccurs="0" name="ages" type="xs:long"/> <xs:element maxOccurs="1" minOccurs="0" name="sex" type="xs:boolean"/> <xs:element maxOccurs="1" minOccurs="0" name="updatedDate" type="xs:dateTime"/> <xs:element maxOccurs="1" minOccurs="0" name="createdDate" type="xs:dateTime"/> </xs:sequence> </xs:complexType> </xs:element> </xs:schema> But refreshing the page, gives me this error: Traceback (most recent call last): File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 3185, in _HandleRequest self._Dispatch(dispatcher, self.rfile, outfile, env_dict) File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 3128, in _Dispatch base_env_dict=env_dict) File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 515, in Dispatch base_env_dict=base_env_dict) File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 2387, in Dispatch self._module_dict) File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 2297, in ExecuteCGI reset_modules = exec_script(handler_path, cgi_path, hook) File "/Users/foo/Documents/AppEngine/GoogleAppEngineLauncher.app/Contents/Resources/GoogleAppEngine-default.bundle/Contents/Resources/google_appengine/google/appengine/tools/dev_appserver.py", line 2195, in ExecuteOrImportScript script_module.main() File "/Users/foo/Documents/AppEngine/helloworld/main.py", line 48, in main rest.Dispatcher.add_models({"user": UserModel}) File "/Users/foo/Documents/AppEngine/helloworld/rest/__init__.py", line 845, in add_models cls.add_model(model_name, model_type) File "/Users/foo/Documents/AppEngine/helloworld/rest/__init__.py", line 863, in add_model raise KeyError("name %s already used" % model_name) KeyError: 'name user already used' Can someone give me the explanation on why it happens? Restarting the server, run on the browser again I get the xml result, but refreshing causes the error. Is it a bug in the appengine-rest-server application or it is in my code? My helloworld application is available for download here.

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  • Is it me or is pygame.key.get_pressed() not working?

    - by user1321527
    okay, so I am making a basic space-ship game. I can't get rotation to work because it scrambles the bitmap, but that's for another question.Should I even use a gif? any other filetype suggestions? back to the actual point here, so: k = pygame.key.get_pressed() yeah, self explanatory. this doesn't work, as it returns each key as pressed. so, somewhere else: d = k[pygame.K_d] and another line: print d and another: if d: So, k returns as each key on the keyboard pressed. d returns 0 indefinitely, whether or not d is pressed. d is always 0. the statement about d therefore is never true. Why is this happening?

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  • trying to work through a list in sections

    - by user1714887
    I have a list of lists sorted by the second value of the list (the groups). I now need to iterate through this to work on each "group" at a time. the data is [name, group, data1, data2, data3, data4]. I wasn't sure if I need a while or some other sort of loop, or maybe groupby but I've never used that. any help would be appreciated. for i in range (int(max_group)): x1 = [] x2 = [] x3 = [] x4 = [] if data[i][1] == i+1: x1.append(data[2]) x2.append(data[3]) x3.append(data[4]) x4.append(data[5]) print x1 print 'next' # these are just to test where we're at

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  • Named pipe is using 100% CPU

    - by willwill
    I'm starting the script with ./file.py < pipe >> logfile and the script is: while True: try: I = raw_input().strip().split() except EOFError: continue doSomething() How could I better handle named pipe? This script always run at 100% CPU and it need to be real-time so I cannot use time.sleep.

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  • Mako "Missing parentheses in %def"

    - by michaelmior
    In trying to add a cached section to a Mako template, I get the error listed in the above question. Adding () to the end gets rid of the error, but I see no content on my page. Any help is appreciated! <%def name="test" cached="True" cache_timeout="60" cache_type="file"> Test /%def>

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  • How do you know where macports installs python packages to?

    - by xmaslist
    I am running macports to install scipy and such on OS X leopard with python 2.7. The install runs successfully, but running python and trying to import the packages I've installed, they're not found. What I'm running is: sudo python_select python27 sudo port install py27-wxpython py27-numpy py27-matplotlib sudo port install py27-scipy py27-ipython Opening up python in interactive mode (it is the correct version of python), I type 'import scipy' and get a module not found error. What gives? How can I find out where it is installing the packages to instead?

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  • Why is Python 3.1.3 in the header listed as a syntax error?

    - by squashua
    Hi, I'm a newbie programmer so I'll do my best to clearly ask my question. I'm running Python scripts in Mac 10.6.5 and now trying to write and save to a text file (following instructions in HeadsUp Python book). Whenever I hit function+F5 (as instructed) I get the same "invalid syntax" error and Idle highlights the "1" in "Python 3.1.3" of the header. Here's the header to which I'm referring: Python 3.1.3 (r313:86882M, Nov 30 2010, 09:55:56) [GCC 4.0.1 (Apple Inc. build 5494)] on darwin Type "copyright", "credits" or "license()" for more information. Extremely frustrating. I've checked and rechecked the code but this doesn't seem to be code related because the "syntax error" is in regards to the header text that posts in every Idle/Python session. Help anyone? Thanks, Squash

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  • Is there any reason to use C++ instead of C, Perl, Python, etc.?

    - by Ehsan
    As a Linux (server side) developer, I don't know where and why should I use C++. When I'm going to performance, the first and last choice is C. When "performance" isn't the main issue, programming languages like Perl and Python would be good choices. Almost all of open source applications I know in this area has been written in C, Perl and Python, Bash script, AWK and even PHP, but no one goes to use C++. I'm not discussing about some other areas like GUI or web application, I'm just talking about Linux and about CLI and daemons. Is there any satisfiable reason to use C++?

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  • Sortie de la quatrième beta de PySide 1.0.0, le binding Python de Qt : corrections de bogues et exécutable Windows au menu

    Sortie de PySide 1.0.0 beta 3 Elle corrige 35 bogues qualifiés de haute priorité du binding Python pour le framework Qt Par Jiyuu et dourouc05 le 07/01/2010 Nokia vient d'annoncer la sortie de la troisième beta de son binding Python du framework Qt. Cette nouvelle beta est principalement considérée comme une version de maintenance, corrigeant trente-cinq bogues de la deuxième beta, ces bogues étant qualifiés de haute priorité. Des versions corrigées de apiextractor, shiboken et libpyside, partie de la chaîne d'outils servant à la génération du binding, sont aussi disponibles. Actuellement, seule les sources de cette version sont disponibles ; des versions binaires devraient être d...

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  • Amazon Web Services : mise à jour de l'environnement Linux, avec les dernières versions de MySQL, Python, Ruby et le Kernel 3.2

    Amazon Web Services : mise à jour de l'environnement Linux avec les dernières versions de MySQL, Python, Ruby et le Kernel Linux 3.2 Amazon Web Services (AWS) vient de procéder à une mise à jour majeure d'Amazon Linux AMI. L'image du système d'exploitation Linux qui s'exécute sur la plateforme intègre désormais les versions les plus récentes de TomCat, MySQL, Python, GCC, Ruby, etc. Cette version a été construite avec pour objectif principal de permettre aux entreprises de migrer ou de rester sur les anciennes versions des outils. Ainsi, les organismes peuvent exécuter différentes versions majeures des applications et langages de programmation. Ceci permet au code qui s'appuie su...

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  • PySide 1.0.0 beta 3 corrige 35 bogues qualifiés de haute priorité du binding Python pour Qt

    Sortie de PySide 1.0.0 beta 3 Elle corrige 35 bogues qualifiés de haute priorité du binding Python pour le framework Qt Par Jiyuu et dourouc05 le 07/01/2010 Nokia vient d'annoncer la sortie de la troisième beta de son binding Python du framework Qt. Cette nouvelle beta est principalement considérée comme une version de maintenance, corrigeant trente-cinq bogues de la deuxième beta, ces bogues étant qualifiés de haute priorité. Des versions corrigées de apiextractor, shiboken et libpyside, partie de la chaîne d'outils servant à la génération du binding, sont aussi disponibles. Actuellement, seule les sources de cette version sont disponibles ; des versions binaires devraient être d...

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  • Do you think that GAE alone is enough to justify learning Python over Ruby?

    - by Cue
    Considering the fact that you don't have to get involved in setting up/buying a server or even buying a domain, do you think that fact alone is enough to choose one over the other? I don't necessarily want to work on Google App Engine, I just find it convenient when it comes to hosting/environment/etc. and wondering if that's a good enough reason to learn python. In any case, I'm not looking for a debate between python and ruby but more on Google App Engine and whether its value is enough to dictate the language you should learn.

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  • Solving Diophantine Equations Using Python

    - by HARSHITH
    In mathematics, a Diophantine equation (named for Diophantus of Alexandria, a third century Greek mathematician) is a polynomial equation where the variables can only take on integer values. Although you may not realize it, you have seen Diophantine equations before: one of the most famous Diophantine equations is: We are not certain that McDonald's knows about Diophantine equations (actually we doubt that they do), but they use them! McDonald's sells Chicken McNuggets in packages of 6, 9 or 20 McNuggets. Thus, it is possible, for example, to buy exactly 15 McNuggets (with one package of 6 and a second package of 9), but it is not possible to buy exactly 16 nuggets, since no non- negative integer combination of 6's, 9's and 20's adds up to 16. To determine if it is possible to buy exactly n McNuggets, one has to solve a Diophantine equation: find non-negative integer values of a, b, and c, such that 6a + 9b + 20c = n. Write an iterative program that finds the largest number of McNuggets that cannot be bought in exact quantity. Your program should print the answer in the following format (where the correct number is provided in place of n): "Largest number of McNuggets that cannot be bought in exact quantity: n"

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  • Numerology with Python And Django

    - by Asinox
    Hi guys, i have a function that give me the result that im expecting in console mode, but if i try to use the function with Django, the page never load and just have a loop calculating and never end. Any idea ? *sorry with my english Console function (WORK GREAT): def sum_digitos(n): sum = 0; while n != 0: sum += n % 10 n /= 10 if sum > 9: x = str(sum) y =list(x) sum = int(y[0]) + int(y[1]) return sum print sum_digitos(2461978) Django views: def Calcular(request): if request.method == 'POST': form = NumerologiaForm(request.POST) if form.is_valid(): sum = 0; ano = str(request.POST['fecha_year']) mes = str(request.POST['fecha_month']) dia = str(request.POST['fecha_day']) data = dia + mes + ano fecha = int(data) while fecha != 0: f = fecha sum += f % 10 f /= 10 if sum > 9: x = str(sum) y =list(x) sum = int(y[0]) + int(y[1]) resultado = get_object_or_404(Numero,numero = sum) return HttpResponseRedirect(resultado.get_absolute_url()) else: form = NumerologiaForm() return render_to_response('numerologiaForm.html',{'form':form})

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  • Running Django Python on IIS 6

    - by nickcartwright
    Hiya, I'm having trouble running Django on IIS 6 and was hoping someone could help! I've followed this guide exactly a number of times: http://code.djangoproject.com/wiki/DjangoOnWindowsWithIISAndSQLServer However, when I try and view my site I always get the same message: "The specified module could not be found." Has anyone else had this problem? Does any one know the steps to fix? Thanks!

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  • Writing an Iron Python debugger

    - by Kragen
    As a learning exercise I'm writing myself a simple extension / plugin / macro framework using IronPython - I've gotten the basics working but I'd like to add some basic debugging support to make my script editor easier to work with. I've been hunting around on the internet a bit and I've found a couple of good resources on writing managed debuggers (including Mike Stall's excellent .Net Debugging blog and the MSDN documentaiton on the CLR Debugging API) - I understand that IronPython is essentially IL however apart from that I'm a tad lost on how to get started, in particular: Are there any significant differences between debugging a dynamic language (such as IronPython) to a static one (such as C#)? Do I need to execute my script in a special way to get IronPython to output suitable debugging information? Is debugging a script running inside the current process going to cause deadlocks, or does IronPython execute my script in a child process? Am I better off looking into how to produce a simple C# debugger first to get the general idea? (I'm not interested in the GUI aspect of making a debugger for now - I've already got a pretty good idea of how this might work)

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