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  • exceptions with python unicode encode/decode functions (why doesn't errors=ignore actually ignore th

    - by gatoatigrado
    Does anyone know why the string conversion functions throw exceptions when errors="ignore" is passed? How can I convert from regular Python string objects to unicode without errors being thrown? Thanks very much! python -c "import codecs; codecs.open('tmp', 'wb', encoding='utf8', errors='ignore').write('?????')" returns Traceback (most recent call last): File "", line 1, in File "/usr/lib/python2.6/codecs.py", line 686, in write return self.writer.write(data) File "/usr/lib/python2.6/codecs.py", line 351, in write data, consumed = self.encode(object, self.errors) UnicodeDecodeError: 'ascii' codec can't decode byte 0xd0 in position 0: ordinal not in range(128)

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  • hierarchical clustering with gene expression matrix in python

    - by user248237
    how can I do a hierarchical clustering (in this case for gene expression data) in Python in a way that shows the matrix of gene expression values along with the dendrogram? What I mean is like the example here: http://www.mathworks.cn/access/helpdesk/help/toolbox/bioinfo/ug/a1060813239b1.html shown after bullet point 6 (Figure 1), where the dendrogram is plotted to the left of the gene expression matrix, where the rows have been reordered to reflect the clustering. How can I do this in Python using numpy/scipy or other tools? Also, is it computationally practical to do this with a matrix of about 11,000 genes, using euclidean distance as a metric? thanks.

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  • Python hooks navigation logger windows

    - by user363054
    Hi, I´m trying to do a path logger (Navigation logger) in Python, the thing that I need is that the program can get the paths that de user is accesing in real time, for example: C:\Documents and Settings\ C:\Documents and Settings\Administrator\ C:\Documents and Settings\Administrator\Desktop\ C:\Documents and Settings\Administrator\Desktop\archivos\ C:\Documents and Settings\Administrator\Desktop\Freescale ZeD 1.1.0.lnk C:\Documents and Settings\Administrator\Desktop\Freescale BeeKit.lnk C:\Documents and Settings\All Users\Desktop\PowerISO.lnk Someone knows how I can do this? I read and used the library pyhook, because I think that I need hooks, specially the WH_GETMESSAGE but pyhook doesn't use it and doesn't give the path only things like the Message, the time, the name of the window, etc. Note: I´m using Windows XP 32bits and python 2.6 Thanks in advance!

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  • python: iif or (x ? a : b)

    - by Albert
    If Python would support the (x ? a : b) syntax from C/C++, I would write: print paid ? ("paid: " + str(paid) + " €") : "not paid" I really don't want to have an if-check and two independent prints here (because that is only an example above, in my code, it looks much more complicated and would really be stupid to have almost the same code twice). However, Python does not support this operator or any similar operator (afaik). What is the easiest/cleanest/most common way to do this? I have searched a bit and seen someone defining an iif(cond,iftrue,iffalse) function, inspired from Visual Basic. I wondered if I really have to add that code and if/why there is no such basic function in the standard library.

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  • Powershell 2.0 : issue import-Module in a background job

    - by Sobled
    I launch a script in backgroung using Start-Job command. In this script, I load a module using Import-Module. The job stay blocked in the running state at the Import-Module step. The same behaviour occurs when : - dotsourcing a module - loading the module via -InitializationScript Start-Job command. Thanks in advance for your help

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  • Python: Retrieve Image from MSSQL

    - by KoRkOnY
    Dear All, I'm working on a Python project that retrieves an image from MSSQL. My code is able to retrieve the images successfully but with a fixed size of 63KB. if the image is greater than that size, it just brings the first 63KB from the image! The following is my code: #!/usr/bin/python import _mssql mssql=_mssql.connect('<ServerIP>','<UserID>','<Password>') mssql.select_db('<Database>') x=1 while x==1: query="select TOP 1 * from table;" if mssql.query(query): rows=mssql.fetch_array() rowNumbers = rows[0][1] #print "Number of rows fetched: " + str(rowNumbers) for row in rows: for i in range(rowNumbers): FILE=open('/home/images/' + str(row[2][i][1]) + '-' + str(row[2][i][2]).strip() + ' (' + str(row[2][i][0]) + ').jpg','wb') FILE.write(row[2][i][4]) FILE.close() print 'Successfully downloaded image: ' + str(row[2][i][0]) + '\t' + str(row[2][i][2]).strip() + '\t' + str(row[2][i][1]) else: print mssql.errmsg() print mssql.stdmsg() mssql.close()

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  • Calling Python from Java through scripting engine (jython)?

    - by griffin
    I'm trying to call Jython from a Java 6 application using javax.script: import javax.script.ScriptEngine; import javax.script.ScriptEngineManager; import javax.script.ScriptException; public class jythonEx { public static void main (String args[]) throws ScriptException { ScriptEngineManager mgr = new ScriptEngineManager(); ScriptEngine pyEngine = mgr.getEngineByName("python"); try { pyEngine.eval("print \"Python - Hello, world!\""); } catch (Exception ex) { ex.printStackTrace(); } } } This is causing a NullPointerException: java.lang.NullPointerException at jythonEx.main(jythonEx.java:12) Does anyone have any idea what I'm doing wrong here? Edit: Thanks for the responses! I added jython.jar to the classpath and it runs properly: java -cp "./;jython.jar" jythonEx

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  • Problem simulating a key press on Python for Symbian platform on a Nokia 5th ed phone

    - by abhishekbhardwaj007
    I am developing an app for Nokia 5800 Music Express (S60 5th edition) using PyS60 (Python for S60) ,I want to simulate a KeyPress say if a message comes,I detect a message and Press a Key. There does exist a Keypress module for PyS60 for 2nd edition phones which allows this. However I have not been able to install it on my 5th ed phone. Is this module portable? If yes then how do I install it (I get certificate error) and If no then any alternatives for simulating a key press on a 5th edition touch phone?

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  • Mac OS X pygame input goes to Terminal instead of Python

    - by Parappa
    I'm having trouble running a pygame based app on Mac OS X via Terminal. Input events such as keystrokes go to the Terminal instead of my Python app, and are detected by pygame. For example, I have the following test script: import pygame pygame.init() screen = pygame.display.set_mode((640, 480)) done = False while not done: pygame.event.pump() keys = pygame.key.get_pressed() if keys[pygame.K_ESCAPE]: done = True if keys[pygame.K_SPACE]: print "got here" Neither K_ESCAPE nor K_SPACE will be handled by this script when I run it from a Mac OS X Terminal, but Terminal will echo back the spaces. I'm running the MacPorts port of pygame (py-game), which depends on Python 2.4, and I've also used python_select to make python24 the active version.

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  • GAE datastore eager loading in python api

    - by tomus
    I have two models in relation one-to-many: class Question(db.Model): questionText = db.StringProperty(multiline=False) class Answer(db.Model): answerText = db.StringProperty(multiline=False) question = db.ReferenceProperty(Question, collection_name='answers') I have front-end implemented in Flex and use pyamf to load data. When i try to load all answers with related questions all works as desired and I can access field answer.question however in case of loading questions (e.g. by Questions.all() ), 'question.answers' remains empty/null (though on server/python side I can revise question.answers without problem - probably after lazy-loading). So is it possible to load all questions along with answers ? (I know this is possible in JPA Java api but what about python ?) Shoud I use additional setting, GQL query or django framework to make it work ?

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  • Python os.path.join on Windows

    - by Jim
    I am trying to learn python and am making a program that will output a script. I want to use os.path.join, but am pretty confused. According to the docs if I say: os.path.join('c:', 'sourcedir') I get "C:sourcedir". According to the docs, this is normal, right? But when I use the copytree command, Python will output it the desired way, for example: import shutil src = os.path.join('c:', 'src') dst = os.path.join('c':', 'dst') shutil.copytree(src, dst) Here is the error code I get: WindowsError: [Error 3] The system cannot find the path specified: 'C:src/*.*' If I wrap the os.path.join with os.path.normpath I get the same error. If this os.path.join can't be used this way, then I am confused as to its purpose. According to the pages suggested by Stack Overflow, slashes should not be used in join—that is correct, I assume?

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  • python,running command line servers - they're not listening properly

    - by deepblue
    hello all Im attempting to start a server app (in erlang, opens ports and listens for http requests) via the command line using pexpect (or even directly using subprocess.Popen()). the app starts fine, logs (via pexpect) to the screen fine, I can interact with it as well via command line... the issue is that the servers wont listen for incoming requests. The app listens when I start it up manually, by typing commands in the command line. using subprocess/pexpect stops the app from listening somehow... when I start it manually "netstat -tlp" displays the app as listening, when I start it via python (subprocess/pexpect) netstat does not register the app... I have a feeling it has something to do with the environemnt, the way python forks things, etc. Any ideas? thank you

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  • Using a debugger and curses at the same time?

    - by Matt Joiner
    I'm calling python -m pdb myapp.py, when an exception fires, and I'd normally be thrown back to the pdb interpreter to investigate the problem. However this exception is being thrown after I've called through curses.wrapper() and entered curses mode, rendering the pdb interpreter useless. How can I work around this?

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  • How to print non-ASCII characters in Python

    - by Roman
    I have a problem when I'm printing (or writing to a file) the non-ASCII characters in Python. I've resolved it by overriding the str method in my own objects, and making "x.encode('utf-8')" inside it, where x is a property inside the object. But, if I receive a third-party object, and I make "str(object)", and this object has a non-ASCII character inside, it will fail. So the question is: is there any way to tell the str method that the object has an UTF-8 codification, generically? I'm working with Python 2.5.4.

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  • Cannot easy_install readline for Python 2.7.3 on Mac Os Lion

    - by user11170
    I am trying to install readline for python 2.7.3 installed via homebrew. If I type easy_install readline I get Downloading http://pypi.python.org/packages/source/r/readline/readline-6.2.2.tar.gz#md5=ad9d4a5a3af37d31daf36ea917b08c77 Processing readline-6.2.2.tar.gz Writing /var/folders/44/dhrdb5sx53s243j4w03063vh0000gn/T/easy_install-64FbG8/readline-6.2.2/setup.cfg Running readline-6.2.2/setup.py -q bdist_egg --dist-dir /var/folders/44/dhrdb5sx53s243j4w03063vh0000gn/T/easy_install-64FbG8/readline-6.2.2/egg-dist-tmp-NOmStB clang: error: no such file or directory: 'readline/libreadline.a' clang: error: no such file or directory: 'readline/libhistory.a' error: Setup script exited with error: command '/usr/bin/clang' failed with exit status 1 Any ideas about how I could fix this ? Thanks

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  • Installing a Python program on Linux

    - by Honza Pokorny
    I wrote a Python program. I would like to add to it an installation script that will set up everything necessary - like desktop icon, entry in the menu, home directory file, etc. I'm working on Linux (ubuntu). When a Python program is installed, what needs to happen in general? I know that it probably depends on the nature of the program. Can you give me some general ideas? Or, point me in the right direction? I have no idea how to look for this on Google. Thanks

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  • writing a fast parser in python

    - by panzi
    I've written a hands-on recursive pure python parser for a some file format (ARFF) we use in one lecture. Now running my exercise submission is awfully slow. Turns out by far the most time is spent in my parser. It's consuming a lot of CPU time, the HD is not the bottleneck. I wonder what performant ways are there to write a parser in python? I'd rather not rewrite it in C. I tried to use jython, but that decreased performance a lot! The files I parse are partially huge ( 150 MB) with very long lines. My current parser only needs a look-ahead of one character. I'd post the source here but I don't know if that's such a good idea. After all the submission deadline has not jet ended. But then, the focus in this exercise is not the parser. You can choose whatever language you want to use and there already is a parser for Java.

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  • Python: Indexing list for element in nested list

    - by aquateenfan
    I know what I'm looking for. I want python to tell me which list it's in. Here's some pseudocode: item = "a" nested_list = [["a", "b"], ["c", "d"]] list.index(item) #obviously this doesn't work here I would want python to return 0 (because "a" is an element in the first sub-list in the bigger list). I don't care which sub-element it is. I don't care if there are duplicates, e.g., ["a", "b", "a"] should return the same thing as the above example. Sorry if this is a dumb question. I'm new to programming.

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  • python foursquare - SSL3 certificate verify failed

    - by user1814277
    I'm trying to make a userless request to the Foursquare API using Mike Lewis' Python wrapper - https://github.com/mLewisLogic/foursquare: client = foursquare.Foursquare(client_id=Client_ID, client_secret=Client_Secret) categs = client.venues.categories() Intermittently, I get a "Error connecting to Foursquare API" msg. Running a logger to catch a more detailed message produces: "SSL routines:SSL3_GET_SERVER_CERTIFICATE:certificate verify failed" This didn't use to happen and occurs both on my local Windows development machine and on a server running ubuntu. Am I missing something basic here about security certificates? The problem is intermittent and sometimes just leaving it a minute and retrying fixes the problem temporarily. I've downloaded the latest 20120716 version of the wrapper although in the code for init.py it still says API_VERSION = '20120608'. I'm using Python 2.73 and have also signed up for the Foursquare API key, using the id and secret in the above code. I listed the urls, using my local IP:8000 and tried using separate keys for the local and dev machines but this seems to make no difference. Help much appreciated. Thanks.

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