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  • Python structure mistake

    - by jaddy123
    I'm writing a program in which I can Reverse the sequence and Replace all As with Ts, all Cs with Gs, all Gs with Cs, and all Ts with As. the program is to read a sequence of bases and output the reverse complement sequence. I am having trouble to do it so can anyone please help me with this by having a look on my code: word = raw_input("Enter sequence: ") a = word.replace('A', 'T') b = word.replace('C', 'G') c = word.replace('G', 'C') d = word.replace('T', 'A') if a == word and b == word and c == word and d == word: print "Reverse complement sequence: ", word And I want this sort of output: Enter sequence: CGGTGATGCAAGG Reverse complement sequence: CCTTGCATCACCG Regards

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  • Sorting and alligning the contents of a text file in Python

    - by Emily Price
    Hello In my program I have a text file that I read from and write to. However, I would like to display the contents of the text file in an alligned and sorted manner. The contents currently read- name, score name, score Would I have to convert this information into lists in order to be able to do this? If so, how do I go about doing this? Thankyou

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  • printing the instance in Python

    - by kame
    Hello! With this code: class Complex: def __init__(self, realpart, imagpart): self.real = realpart self.imag = imagpart print self.real, self.imag class Circle: def __init__(self, radius): print "A circle wiht the radius", radius, "has the properties:" print "circumference =", 3.14*radius print "area =", 3.14*radius**2 I get this output: >>> Complex(3,2) 3 2 <__main__.Complex instance at 0x01412210> But why does he print the last line?

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  • In python, what does len(list) do?

    - by nsharish
    My doubt is that if the len(list) calculates the length of the list everytime it is called or it returns the value of the builtin counter.I have a context where i need to check the length of list everytime in a loop, likelistData = [] for value in ioread(): if len(listData)=25: processlistdata() clearlistdata() listData.append(value) Should I check len(listData) every iteration, or can I have a counter for the length of the list.

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  • python and overflowing byte?

    - by Meloun
    Hi all, I need to make a variable with similar behaviour like in C lanquage. I need byte or unsigned char with range 0-255. This variable should overflow, that means... myVar = 255 myVar += 1 print myVar #!!myVar = 0!!

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  • Python. Strange class attributes behavior

    - by Eugene
    >>> class Abcd: ... a = '' ... menu = ['a', 'b', 'c'] ... >>> a = Abcd() >>> b = Abcd() >>> a.a = 'a' >>> b.a = 'b' >>> a.a 'a' >>> b.a 'b' It's all correct and each object has own 'a', but... >>> a.menu.pop() 'c' >>> a.menu ['a', 'b'] >>> b.menu ['a', 'b'] How could this happen? And how to use list as class attribute?

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  • Database Compression in Python

    - by user551832
    I have hourly logs like user1:joined user2:log out user1:added pic user1:added comment user3:joined I want to compress all the flat files down to one file. There are around 30 million users in the logs and I just want the latest user log for all the logs. My end result is I want to have a log look like user1:added comment user2:log out user3:joined Now my first attempt on a small scale was to just do a dict like log['user1'] = "added comment" Will doing a dict of 30 million key/val pairs have a giant memory footprint.. Or should I use something like sqllite to store them.. then just put the contents of the sqllite table back into a file?

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  • python input for itertools.product

    - by user364249
    Looking for a way to simulate nested loops (or a cartesian product) i came across the itertools.product function. i need a function or piece of code that receive a list of integers as input and returns a specific generator. example: input = [3,2,4] - gen = product(xrange(3),xrange(2),xrange(4)) or input = [2,4,5,6] - gen = product(xrange(2),xrange(4),xrange(5),xrange(6)) as the size of the lists varies i am very confused in how to do that without the need of a lot of precoding based on a crazy amount of ifs and the size of the list. also is there a difference in calling product(range(3)) or product(xrange(3))?

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  • Python - alternative to list.remove(x)?

    - by Seafoid
    Hi, I wish to compare two lists. Generally this is not a problem as I usually use a nested for loop and append the intersection to a new list. In this case, I need to delete the intersection of A and B from A. A = [['ab', 'cd', 'ef', '0', '567'], ['ghy5'], ['pop', 'eye']] B = [['ab'], ['hi'], ['op'], ['ej']] My objective is to compare A and B and delete A intersection B from A, i.e., delete A[0][0] in this case. I tried: def match(): for i in A: for j in i: for k in B: for v in k: if j == v: A.remove(j) list.remove(x) throws a ValueError.

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  • Thread-safe equivalent to python's time.strptime() ?

    - by Wells
    Something I wrote throws a lot of AttributeErrors when using time.strptime() inside a thread. This only seems to happen on Windows (not on Linux), but whatever…. Upon a'Googling, it seems that time.strptime() isn't considered thread-safe. Is there a better way to create a datetime object from a string? Current code looks like: val = DateFromTicks(mktime(strptime(val, '%B %d, %Y'))) But, that yields the AttributeErrors as its run inside a thread. Thanks!

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  • Deleting files by type in Python on Windows

    - by choszen
    I know how to delete single files, however I am lost in my implementation of how to delete all files in a directory of one type. Say the directory is \myfolder I want to delete all files that are .config files, but nothing to the other ones. How would I do this? Thanks Kindly

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  • Python Continue Loop

    - by Rob B.
    I am using the following code from this tutorial (http://jeriwieringa.com/blog/2012/11/04/beautiful-soup-tutorial-part-1/). from bs4 import BeautifulSoup soup = BeautifulSoup (open("43rd-congress.html")) final_link = soup.p.a final_link.decompose() trs = soup.find_all('tr') for tr in trs: for link in tr.find_all('a'): fulllink = link.get ('href') print fulllink #print in terminal to verify results tds = tr.find_all("td") try: #we are using "try" because the table is not well formatted. This allows the program to continue after encountering an error. names = str(tds[0].get_text()) # This structure isolate the item by its column in the table and converts it into a string. years = str(tds[1].get_text()) positions = str(tds[2].get_text()) parties = str(tds[3].get_text()) states = str(tds[4].get_text()) congress = tds[5].get_text() except: print "bad tr string" continue #This tells the computer to move on to the next item after it encounters an error print names, years, positions, parties, states, congress However, I get an error saying that 'continue' is not properly in the loop on line 27. I am using notepad++ and windows powershell. How do I make this code work?

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  • Python indentation in "empty lines"

    - by niscy
    Which is preferred ("." indicating whitespace)? A) def foo(): x = 1 y = 2 .... if True: bar() B) def foo(): x = 1 y = 2 if True: bar() My intuition would be B (that's also what vim does for me), but I see people using A) all the time. Is it just because most of the editors out there are broken?

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  • Python ctypes in_dll string assignment

    - by ackdesha
    I could use some help assigning to a global C variable in DLL using ctypes. The following is an example of what I'm trying: test.c contains the following #include <stdio.h> char name[60]; void test(void) { printf("Name is %s\n", name); } On windows (cygwin) I build a DLL (Test.dll) as follows: gcc -g -c -Wall test.c gcc -Wall -mrtd -mno-cygwin -shared -W1,--add-stdcall-alias -o Test.dll test.o When trying to modify the name variable and then calling the C test function using the ctypes interface I get the following... >>> from ctypes import * >>> dll = windll.Test >>> dll <WinDLL 'Test', handle ... at ...> >>> f = c_char_p.in_dll(dll, 'name') >>> f c_char_p(None) >>> f.value = 'foo' >>> f c_char_p('foo') >>> dll.test() Name is Name is 48+? 13 Why does the test function print garbage in this case?

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  • Python: for statement behavior

    - by BandGap
    Hi all. My question concerns the output of this statement: for x in range(4), y in range(4): print x print y Results in: [0, 1, 2, 3] 2 True 2 It seems there is a comparison involved, I just can't figure out why the output is structured like this.

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  • Calling from a parent file in python

    - by Teifion
    I have a file called main.py and a file called classes.py main.py contains the application and what's happening while class.py contains some classes. main.py has the following code main.py import classes def addItem(text): print text myClass = classes.ExampleClass() And then we have classes.py classes.py class ExampleClass (object): def __init__(self): addItem('bob') Surprisingly enough that's not the actual code I am using because I've stripped out anything that'd get in the way of you seeing what I want to do. I want to be able to call a method that's defined in main.py from a class within classes.py. How do I do this? Thanks in advance

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  • handling matrix data in python

    - by Ovisek
    I was trying to progressively subtract values of a 3D matrix. The matrix looks like: ATOM 1223 ZX SOD A 11 2.11 -1.33 12.33 ATOM 1224 ZY SOD A 11 -2.99 -2.92 20.22 ATOM 1225 XH HEL A 12 -3.67 9.55 21.54 ATOM 1226 SS ARG A 13 -6.55 -3.09 42.11 ... here the last three columns are representing values for axes x,y,z respectively. now I what I wanted to do is, take the values of x,y,z for 1st line and subtract with 2nd,3rd,4th line in a iterative way and print the values for each axes. I was using: for line in map(str.split,inp): x = line[-3] y = line[-2] z = line[-1] for separating the values, but how to do in iterative way. should I do it by using Counter.

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  • Combining entries, filtering of Python dictionaries

    - by matt
    I have two large lists that are filled with dictionaries. I need to combine the entries if a value from dict2==dict1 and place the newly combined matches somewhere else. I'm having trouble explaining it. List one contains: {'keyword':value, 'keyword2':value2} List two: {'keyword2':value2, 'keyword3':value3} I want a new list with dictionaries including keyword1, keyword2, and keyword3 if both lists share the same 'keyword2' value. What's the best way to do this? When I try, I only come up with tons of nested for loops. Thanks

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  • Python script not working when run from browser directly

    - by splatterdash
    I'm trying to run this script: import re, os def build_pool(cwd): global xtn_pool, file_pool xtn, xtn_pool = re.compile('\\.[0-9a-zA-Z]{1,4}$'), [] file_pool = [files for files in os.listdir(cwd) if os.path.isfile(files) and xtn.search(files)] # Lists all the file extension in the folder for file in file_pool: if not xtn_pool.__contains__(xtn.search(file).group()): xtn_pool.append(xtn.search(file).group()) return xtn_pool.sort(), file_pool if __name__ == '__main__': import sys #if path is given, change working directory to path if len(sys.argv) >= 2: os.chdir(sys.argv[1]) build_pool(os.getcwd()) #if no path is given when running, do renaming in current folder else: build_pool(os.getcwd()) print('The folder contains the following extensions: ') for i in range(0, len(xtn_pool)): print(repr(i+1) + '. ' + xtn_pool[i][1:]) opt = int(input('Which one would you like to replace? ')) xtn_pick = xtn_pool[opt-1] # Lists all the file with the chosen extension xtn_file_pool = [file for file in file_pool if file.endswith(xtn_pick)] print('There are {0} files with the {1} extension.'.format(len(xtn_file_pool), xtn_pick)) xtn_new = input('Input replacement extension: ') # The actual renaming process for file in xtn_file_pool: os.rename(file, file[:-len(xtn_pick)+1] + xtn_new) directly from my file browser (Nautilus), but for some reason it's not working. When I run it from terminal (python3 scriptname.py) it works fine as intended. But when I just click the script file in Nautilus, choose 'Run in Terminal', it always stops after asking 'Input replacement extension: '. How can I make this script run without using the terminal?

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  • Using varible in re.match in python

    - by screwuphead
    I am trying to create an array of things to match in a description line. So I cant ignore them later on in my script. Below is a sample script that I have been working on, on the side. Basically I am trying to take a bunch of strings and match it against a bunch of other strings. AKA: asdf or asfs or wrtw in string = true continue with script if not print this. import re ignorelist = ['^test', '(.*)set'] def guess(a): for ignore in ignorelist: if re.match(ignore, a): return('LOSE!') else: return('WIN!') a = raw_input('Take a guess: ') print guess(a) Thanks

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  • [Python] Tips for making a fraction calculator code more optimized (faster and using less memory)

    - by Logic Named Joe
    Hello Everyone, Basicly, what I need for the program to do is to act a as simple fraction calculator (for addition, subtraction, multiplication and division) for the a single line of input, for example: -input: 1/7 + 3/5 -output: 26/35 My initial code: import sys def euclid(numA, numB): while numB != 0: numRem = numA % numB numA = numB numB = numRem return numA for wejscie in sys.stdin: wyjscie = wejscie.split(' ') a, b = [int(x) for x in wyjscie[0].split("/")] c, d = [int(x) for x in wyjscie[2].split("/")] if wyjscie[1] == '+': licz = a * d + b * c mian= b * d nwd = euclid(licz, mian) konA = licz/nwd konB = mian/nwd wynik = str(konA) + '/' + str(konB) print(wynik) elif wyjscie[1] == '-': licz= a * d - b * c mian= b * d nwd = euclid(licz, mian) konA = licz/nwd konB = mian/nwd wynik = str(konA) + '/' + str(konB) print(wynik) elif wyjscie[1] == '*': licz= a * c mian= b * d nwd = euclid(licz, mian) konA = licz/nwd konB = mian/nwd wynik = str(konA) + '/' + str(konB) print(wynik) else: licz= a * d mian= b * c nwd = euclid(licz, mian) konA = licz/nwd konB = mian/nwd wynik = str(konA) + '/' + str(konB) print(wynik) Which I reduced to: import sys def euclid(numA, numB): while numB != 0: numRem = numA % numB numA = numB numB = numRem return numA for wejscie in sys.stdin: wyjscie = wejscie.split(' ') a, b = [int(x) for x in wyjscie[0].split("/")] c, d = [int(x) for x in wyjscie[2].split("/")] if wyjscie[1] == '+': print("/".join([str((a * d + b * c)/euclid(a * d + b * c, b * d)),str((b * d)/euclid(a * d + b * c, b * d))])) elif wyjscie[1] == '-': print("/".join([str((a * d - b * c)/euclid(a * d - b * c, b * d)),str((b * d)/euclid(a * d - b * c, b * d))])) elif wyjscie[1] == '*': print("/".join([str((a * c)/euclid(a * c, b * d)),str((b * d)/euclid(a * c, b * d))])) else: print("/".join([str((a * d)/euclid(a * d, b * c)),str((b * c)/euclid(a * d, b * c))])) Any advice on how to improve this futher is welcome. Edit: one more thing that I forgot to mention - the code can not make use of any libraries apart from sys.

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