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  • failure on creating a Scikits.TimeSeries object

    - by user311906
    Hi All I am trying to create a scikit.timeseries object starting from 2 datetime objects. If I understood correctly it should be possible to create a scikits.timeseries starting from datetime objects. I try the following code but it says that Insufficient parameters. The 2 datetime differs for few microseconds. In this case what should be the value for freq parameter? Is what I am trying allowed? In theory, since timeseries can be based on datetime objects it should be possible to hanlde up to microsecond , is this correct? I think that this is not really clear to me. Regards Eo import datetime import sckilits.timeseries as ts tm1 = datetime.datetime( 2010,1,1, 10,10,2, 123456 ) tm2 = datetime.datetime( 2010,1,1, 10,10,2, 345678 ) d = [ tm1, tm2 ] tseries = ts.time_series( dates=d ) tseries = ts.time_series( d )

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  • Parse large XML file w/ script or use BioPython API ?

    - by jeremy04
    Hey guys this is my first question on here. I'm trying to make a local copy of the UniprotKB in SQL. The UniprotKB is 2.1GB, and it comes in XML and a special text format used by SwissProt Here are my options: 1) Use a SAX parser (XML) - I chose Ruby, and Nokogiri. I started writing the parser, but my initial reaction: how would I map the XML schema to the SAX parser? 2) BioPython - I already have BioSQL/Biopython installed, which literally created my SQL schema for me, and I was able to successfully insert one SwissProt/Uniprot txt file into the database. I'm running it right now (crosses fingers) on the entire 2.1gb. Here is the code I'm running: from Bio import SeqIO from BioSQL import BioSeqDatabase from Bio import SwissProt server = BioSeqDatabase.open_database(driver = "MySQLdb", user = "root", passwd = "", host="localhost", db = "bioseqdb") db = server["uniprot"] iterator = SeqIO.parse(open("/path/to/uniprot_sprot.dat", "r"), "swiss") db.load(iterator) server.commit() Edit: it's now crashing because the transactions are getting locked (since the tables are Innodb) Error Number: 1205 Lock wait timeout exceeded; try restarting transaction. I'm using MySQL version: 5.1.43 Should I switch my database to Postgrelsql ?

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  • Getting child elements that are related to a parent in same table

    - by Madawar
    I have the following database schema class posts(Base): __tablename__ = 'xposts' id = Column(Integer, primary_key=True) class Comments(Base): __tablename__ = 'comments' id = Column(Integer, primary_key=True) comment_parent_id=Column(Integer,unique=True) #comment_id fetches comment of a comment ie the comment_parent_id comment_id=Column(Integer,default=None) comment_text=Column(String(200)) Values in database are 1 12 NULL Hello First comment 2 NULL 12 First Sub comment I want to fetch all Comments and sub comments of a post using sqlalchemy and have this so far qry=session.query(Comments).filter(Comments.comment_parent_id!=None) print qry.count() Is there a way i can fetch the all the subcomments of a comment in a query i have tried outerjoin on the same table(comments) and it seemed stupid and it failed.

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  • Mixing Matplotlib patches with polar plot?

    - by Roger
    I'm trying to plot some data in polar coordinates, but I don't want the standard ticks, labels, axes, etc. that you get with the Matplotlib polar() function. All I want is the raw plot and nothing else, as I'm handling everything with manually drawn patches and lines. Here are the options I've considered: 1) Drawing the data with polar(), hiding the superfluous stuff (with ax.axes.get_xaxis().set_visible(False), etc.) and then drawing my own axes (with Line2D, Circle, etc.). The problem is when I call polar() and subsequently add a Circle patch, it's drawn in polar coordinates and ends up looking like an infinity symbol. Also zooming doesn't seem to work with the polar() function. 2) Skip the polar() function and somehow make my own polar plot manually using Line2D. The problem is I don't know how to make Line2D draw in polar coordinates and haven't figured out how to use a transform to do that. Any idea how I should proceed?

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  • Add string to another string

    - by daemonfire300
    Hi there, I currently encountered a problem: I want to handle adding strings to other strings very efficiently, so I looked up many methods and techniques, and I figured the "fastest" method. But I quite can not understand how it actually works: def method6(): return ''.join([`num` for num in xrange(loop_count)]) From source (Method 6) Especially the ([numfor num in xrange(loop_count)]) confused me totally.

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  • Trying to output a list using class

    - by captain morgan
    Am trying to get the moving average of a price..but i keep getting an attribute error in my Moving_Average class. ('Moving_Average' object has no attribute 'days'). Here is what I have: class Moving_Average: def calculation(self, alist:list,days:int): m = self.days prices = alist[1::2] average = [0]* len(prices) signal = ['']* len(prices) for m in range(0,len(prices)-days+1): average[m+2] = sum(prices[m:m+days])/days if prices[m+2] < average[m+2]: signal[m+2]='SELL' elif prices[m+2] > average[m+2] and prices[m+1] < average[m+1]: signal[m+2]='BUY' else: signal[m+2] ='' return average,signal def print_report(symbol:str,strategy:str): print('SYMBOL: ', symbol) print('STRATEGY: ', strategy) print('Date Closing Strategy Signal') def user(): strategy = ''' Which of the following strategy would you like to use? * Simple Moving Average [S] * Directional Indicator[D] Please enter your choice: ''' if signal_strategy in 'Ss': days = input('Please enter the number of days for the average') days = int(days) strategy = 'Simple Moving Average {}-days'.format(str(days)) m = Moving_Average() ma = m.calculation(gg, days) print(ma) gg is an list that contains date and prices. [2013-10-01,60,2013-10-02,60] The output is supposed to look like: Date Price Average Signal 2013-10-01 60.0 2013-10-02 60.0 60.00 BUY

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  • Access to field in extended flatpage in django

    - by Stanislav Feldman
    How to access field in extended flatpage in django? I wrote this: class ExtendedFlatPage(FlatPage): teaser = CharField(max_length=150) class ExtendedFlatPageForm(FlatpageForm): teaser = CharField(max_length=150) class Meta: model = ExtendedFlatPage class ExtendedFlatPageAdmin(FlatPageAdmin): form = ExtendedFlatPageForm fieldsets = ( (None, {'fields': ('url', 'title', 'teaser', 'content', 'sites',)}), ) admin.site.unregister(FlatPage) admin.site.register(ExtendedFlatPage, ExtendedFlatPageAdmin) And creation in admin is ok. But then in flatpages/default.html I tried this: <html> <body> <h1>{{ flatpage.title }}</h1> <strong>{{ flatpage.teaser }}</strong> <p>{{ flatpage.content }}</p> </body> </html> And there was no flatpage.teaser! What is wrong?

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  • pandas read rotated csv files

    - by EricCoding
    Is there any function in pandas that can directly read a rotated csv file? To be specific, the header information in the first col instead of the first row. For example: A 1 2 B 3 5 C 6 7 and I would like the final DataFrame this way A B C 1 3 5 2 5 7 Of corse we can get around this problem using some data wangling techniques like transpose and slicing. I am wondering there should be a quick way in API but I could not find it.

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  • Test assertions for tuples with floats

    - by Space_C0wb0y
    I have a function that returns a tuple that, among others, contains a float value. Usually I use assertAlmostEquals to compare those, but this does not work with tuples. Also, the tuple contains other data-types as well. Currently I am asserting every element of the tuple individually, but that gets too much for a list of such tuples. Is there any good way to write assertions for such cases?

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  • Increasing figure size in Matplotlib

    - by Anirudh
    I am trying to plot a graph from a distance matrix. The code words fine and gives me a image in 800 * 600 pixels. The image being too small, All the nodes are packed together. I want increase the size of the image. so I added the following line to my code - figure(num=None, figsize=(10, 10), dpi=80, facecolor='w', edgecolor='k') After this all I get is a blank 1000 * 1000 image file. My overall code - import networkx as nx import pickle import matplotlib.pyplot as plt print "Reading from pickle." p_file = open('pickles/names') Names = pickle.load(p_file) p_file.close() p_file = open('pickles/distance') Dist = pickle.load(p_file) p_file.close() G = nx.Graph() print "Inserting Nodes." for n in Names: G.add_node(n) print "Inserting Edges." for i in range(601): for j in range(601): G.add_edge(Names[i],Names[j],weight=Dist[i][j]) print "Drawing Graph." nx.draw(G) print "Saving Figure." #plt.figure(num=None, figsize=(10, 10)) plt.savefig('new.png') print "Success!"

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  • combine lines from 2 prints to single line and insert into mysql database

    - by bleomycin
    Hello everyone i currently have this: import feedparser d = feedparser.parse('http://store.steampowered.com/feeds/news.xml') for i in range(10): print d.entries[i].title print d.entries[i].date How would i go about making it so that the title and date are on the same line? Also it doesn't need to print i just have that in there for testing, i would like to dump this output into a mysql db with the title and date, any help is greatly appreciated!

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  • How can I load an MP3 or similar music file for display and analysis in wxWidgets?

    - by Jon Cage
    I'm developing a GUI in wxPython which allows a user to generate sequences of colours for some toys I'm building. Part of the program needs to load an MP3 (and potentially other formats further down the line) and display it to the user. That should be sufficient to get started but later I'd like to add features like identifying beats and some crude frequency analysis. Is there any simple way of loading / understanding an MP3's contents to display a plot of its amplitudes to the screen using wxWidgets? I later intend to port to C++/wxWidgets for speed and to avoid having to distribute wxPython.

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  • Problem opening Solr *.jsp pages with urllib2.urlopen.

    - by nestling
    I'm trying to open a page at http://localhost:8983/solr/admin/stats.jsp but urllib2.urlopen returns a blank string. It works fine for solr/ and solr/admin, but for all the pages above /solr/admin/ I get nothing but a blank string. 76]: t = urllib2.urlopen('http://localhost:8983/solr/admin/stats.jsp') 77]: s = t.read() 78]: s 78]: 79]: type(s) 79]: <type 'str'> 80]: urllib2.urlopen('http://localhost:8983/solr/admin/registry.jsp').read() 80]: In [84]: urllib2.urlopen('http://localhost:8983/solr/admin/schema.jsp').read() Out[84]: I know this isn't a problem with urllib2, but beyond that I am at a loss. I wish solr (or jetty) had an easy to get to log file, so that perhaps it could tell me its side of the story.

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  • PyQt - QLabel inheriting

    - by Ockonal
    Hello, i wanna inherit QLabel to add there click event processing. I'm trying this code: class NewLabel(QtGui.QLabel): def __init__(self, parent): QtGui.QLabel.__init__(self, parent) def clickEvent(self, event): print 'Label clicked!' But after clicking I have no line 'Label clicked!' EDIT: Okay, now I'm using not 'clickEvent' but 'mousePressEvent'. And I still have a question. How can i know what exactly label was clicked? For example, i have 2 edit box and 2 labels. Labels content are pixmaps. So there aren't any text in labels, so i can't discern difference between labels. How can i do that? EDIT2: I made this code: class NewLabel(QtGui.QLabel): def __init__(self, firstLabel): QtGui.QLabel.__init__(self, firstLabel) def mousePressEvent(self, event): print 'Clicked' #myLabel = self.sender() # None =) self.emit(QtCore.SIGNAL('clicked()'), "Label pressed") In another class: self.FirstLang = NewLabel(Form) QtCore.QObject.connect(self.FirstLang, QtCore.SIGNAL('clicked()'), self.labelPressed) Slot in the same class: def labelPressed(self): print 'in labelPressed' print self.sender() But there isn't sender object in self. What i did wrong?

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  • pyramid traversal resource url no attribute __name__

    - by Santana
    So I have: resources.py: def _add(obj, name, parent): obj.__name__ = name obj.__parent__ = parent return obj class Root(object): __parent__ = __name__ = None def __init__(self, request): super(Root, self).__init__() self.request = request self.collection = request.db.post def __getitem__(self, key): if u'profile' in key: return Profile(self.request) class Profile(dict): def __init__(self, request): super(Profile, self).__init__() self.__name__ = u'profile' self.__parent__ = Root self.collection = request.db.posts def __getitem__(self, name): post = Dummy(self.collection.find_one(dict(username=name))) return _add(post, name, self) and I'm using MongoDB and pyramid_mongodb views.py: @view_config(context = Profile, renderer = 'templates/mytemplate.pt') def test_view(request): return {} and in mytemplate.pt: <p tal:repeat='item request.context'> ${item} </p> I can echo what's in the database (I'm using mongodb), but when I provided a URL for each item using resource_url() <p tal:repeat='item request.context'> <a href='${request.resource_url(item)}'>${item}</a> </p> I got an error: 'dict' object has no attribute '__name__', can someone help me?

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  • App-Engine Parse a UrlFetch UTF-8 encoded stream

    - by Davidrd91
    I am trying to parse an XML from a URL using the xml.sax parser. I know there are other libraries to use but coming from Java this is the one I am most familiar with and seems the least complicated to me. The code I'm using to parse is as follows: parser = xml.sax.make_parser() handler = MangaHandler() parser.setContentHandler(handler) url = urlfetch.Fetch('http://www.mangapanda.com/alphabetical', allow_truncated = False, follow_redirects = False, deadline = False) xml.sax.parseString(url.content, handler) This returns a SaxException (invalid token) once the parser reaches the first & sign: SAXParseException: <unknown>:582:34: not well-formed (invalid token) Because urlfetch returns a string and not a stream I cannot use the parse() (which only works with streams) and am left to use parseString() instead. To see if parsing as a stream would fix this I tried: parser.parse(io.StringIO(url.content).encode('utf-8')) but this returns: TypeError: initial_value must be unicode or None, not str I have also tried to use the urllib2 libraries which do return a stream instead of urlfetch but the file is too large and is automatically truncated, leaving me with missing data. Any Sort of work-around for this would be greatly appreciated as I've spent days getting around one obstacle just to be stopped by another.

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  • Django dictionary in templates: Grab key from another objects attribute

    - by Jordan Messina
    I have a dictionary called number_devices I'm passing to a template, the dictionary keys are the ids of a list of objects I'm also passing to the template (called implementations). I'm iterating over the list of objects and then trying to use the object.id to get a value out of the dict like so: {% for implementation in implementations %} {{ number_devices.implementation.id }} {% endfor %} Unfortunately number_devices.implementation is evaluated first, then the result.id is evaluated obviously returning and displaying nothing. I can't use parentheses like: {{ number_devices.(implementation.id) }} because I get a parse error. How do I get around this annoyance in Django templates? Thanks for any help!

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  • Django complex queries

    - by Josh K
    I need to craft a filter for an object that checks date ranges. Right now I'm performing a very inefficient loop which checks all the objects. I would like to simplify this to a database call. The logic is you have a start and an end date objects. I need to check if the start OR the end is within the range of an appointment. if (start >= appointment.start && start < appointment.end) || (end > appointment.start && end <= appointment.end) I could do this in SQL, but I'm not as familiar with the Django model structure for more complex queries.

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  • Simplifying for-if messes with better structure?

    - by HH
    # Description: you are given a bitwise pattern and a string # you need to find the number of times the pattern matches in the string # any one liner or simple pythonic solution? import random def matchIt(yourString, yourPattern): """find the number of times yourPattern occurs in yourString""" count = 0 matchTimes = 0 # How can you simplify the for-if structures? for coin in yourString: #return to base if count == len(pattern): matchTimes = matchTimes + 1 count = 0 #special case to return to 2, there could be more this type of conditions #so this type of if-conditionals are screaming for a havoc if count == 2 and pattern[count] == 1: count = count - 1 #the work horse #it could be simpler by breaking the intial string of lenght 'l' #to blocks of pattern-length, the number of them is 'l - len(pattern)-1' if coin == pattern[count]: count=count+1 average = len(yourString)/matchTimes return [average, matchTimes] # Generates the list myString =[] for x in range(10000): myString= myString + [int(random.random()*2)] pattern = [1,0,0] result = matchIt(myString, pattern) print("The sample had "+str(result[1])+" matches and its size was "+str(len(myString))+".\n" + "So it took "+str(result[0])+" steps in average.\n" + "RESULT: "+str([a for a in "FAILURE" if result[0] != 8])) # Sample Output # # The sample had 1656 matches and its size was 10000. # So it took 6 steps in average. # RESULT: ['F', 'A', 'I', 'L', 'U', 'R', 'E']

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  • django join-like expansion of queryset

    - by jimbob
    I have a list of Persons each which have multiple fields that I usually filter what's upon, using the object_list generic view. Each person can have multiple Comments attached to them, each with a datetime and a text string. What I ultimately want to do is have the option to filter comments based on dates. class Person(models.Model): name = models.CharField("Name", max_length=30) ## has ~30 other fields, usually filtered on as well class Comment(models.Model): date = models.DateTimeField() person = models.ForeignKey(Person) comment = models.TextField("Comment Text", max_length=1023) What I want to do is get a queryset like Person.objects.filter(comment__date__gt=date(2011,1,1)).order_by('comment__date') send that queryset to object_list and be able to only see the comments ordered by date with only so many objects on a page. E.g., if "Person A" has comments 12/3/11, 1/2/11, 1/5/11, "Person B" has no comments, and person C has a comment on 1/3, I would see: "Person A", 1/2 - comment "Person C", 1/3 - comment "Person A", 1/5 - comment I would strongly prefer not to have to switch to filtering based on Comments.objects.filter(), as that would make me have to largely repeat large sections of code in the both the view and template. Right now if I tried executing the following command, I will get a queryset returning (PersonA, PersonC, PersonA), but if I try rendering that in a template each persons comment_set will contain all their comments even if they aren't in the date range. Ideally they're would be some sort of functionality where I could expand out a Person queryset's comment_set into a larger queryset that can be sorted and ordered based on the comment and put into a object_list generic view. This normally is fairly simple to do in SQL with a JOIN, but I don't want to abandon the ORM, which I use everywhere else.

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