I am trying to visually depict my topics in python using pyldavis. However i am unable to view the graph. Is it that we have to view the graph in the browser or will it get popped upon execution. Below is my code
import pyLDAvis
import pyLDAvis.gensim as gensimvis
print('Pyldavis ....')
vis_data = gensimvis.prepare(ldamodel, doc_term_matrix, dictionary)
pyLDAvis.display(vis_data)
The program is continuously in execution mode on executing the above commands. Where should I view my graph? Or where it will be stored? Is it integrated only with the Ipython notebook?Kindly guide me through this.
P.S My python version is 3.5.
This not work:
pyLDAvis.display(vis_data)
This will work for you:
pyLDAvis.show(vis_data)
I'm facing the same problem now.
EDIT:
My script looks as follows:
first part:
import pyLDAvis
import pyLDAvis.sklearn
print('start script')
tf_vectorizer = CountVectorizer(strip_accents = 'unicode',stop_words = 'english',lowercase = True,token_pattern = r'\b[a-zA-Z]{3,}\b',max_df = 0.5,min_df = 10)
dtm_tf = tf_vectorizer.fit_transform(docs_raw)
lda_tf = LatentDirichletAllocation(n_topics=20, learning_method='online')
print('fit')
lda_tf.fit(dtm_tf)
second part:
print('prepare')
vis_data = pyLDAvis.sklearn.prepare(lda_tf, dtm_tf, tf_vectorizer)
print('display')
pyLDAvis.display(vis_data)
The problem is in the line "vis_data = (...)".if I run the script, it will print 'prepare' and keep on running after that without printing anything else (so it never reaches the line "print('display')).
Funny thing is, when I just run the whole script it gets stuck on that line, but when I run the first part, got to my console and execute purely the single line "vis_data = pyLDAvis.sklearn.prepare(lda_tf, dtm_tf, tf_vectorizer)" this is executed in a couple of seconds.
As for the graph, I saved it as html ("simple") and use the html file to view the graph.
I ran into the same problem (I use PyCharm as IDE) The problem is that pyLDAvize is developed for Ipython (see the docs, https://media.readthedocs.org/pdf/pyldavis/latest/pyldavis.pdf, page 3).
My fix/workaround:
make a dict of lda_tf, dtm_tf, tf_vectorizer (eg., pyLDAviz_dict)dump the dict to a file (eg mydata_pyLDAviz.pkl)
read the pkl file into notebook (I did get some depreciation info from pyLDAviz, but that had no effect on the end result)
play around with pyLDAviz in notebook
if you're happy with the view, dump it into html
The cause is (most likely) that pyLDAviz expects continuous user interaction (including user-initiated "exit"). However, I rather dump data from a smart IDE and read that into jupyter, than develop/code in jupyter notebook. That's pretty much like going back to before-emacs times.
From experience this approach works quite nicely for other plotting rountines
If you received the module error pyLDA.gensim, then try this one instead:
import pyLdAvis.gensim_models
You get the error because of a new version update.
Related
So I have this GUI that I made with tkinter and everything works well. What it does is connects to servers and sends commands for both Linux or Windows. I went ahead and used pyinstaller to create a windowed GUI without console and when I try to uses a specific function for sending Windows commands it will fail. If I create the GUI with a console that pops up before the GUI, it works like a charm. What I'm trying to figure out is how to get my GUI to work with the console being invisible to the user.
The part of my code that has the issue revolves around subprocess. To spare you all from the 400+ lines of code I wrote, I'm providing the specific code that has issues. Here is the snippet:
def rcmd_in(server):
import subprocess as sp
for i in command_list:
result = sp.run(['C:/"Path to executable"/rcmd.exe', '\\\\' + server, i],
universal_newlines=True, stdout=sp.PIPE, stderr=sp.STDOUT)
print(result.stdout)
The argument 'server' is passed from another function that calls to 'rcmd_in' and 'command_list' is a mutable list created in the root of the code, accessible for all functions.
Now, I have done my due diligence. I scoured multiple searches and came up with an edit to my code that makes an attempt to run my code with that console invisible, found using info from this link: recipe-subprocess. Here is what the edit looks like:
def rcmd_in(server):
import subprocess as sp
import os, os.path
si = sp.STARTUPINFO()
si.dwFlags |= sp.STARTF_USESHOWWINDOW
for i in command_list:
result = sp.run(['C:/"Path to executable"/rcmd.exe', '\\\\' + server, i],
universal_newlines=True, stdin=sp.PIPE, stdout=sp.PIPE,
stderr=sp.STDOUT, startupinfo=si, env=os.environ)
print(result.stdout)
The the problem I have now is when it runs an error of "Error:8 - Internal error -109" pops up. Let me add I tried using functions 'call()', 'Popen()', and others but only 'run()' seems to work.
I've reached a point where my brain hurts and I can use some help. Any suggestions? As always I am forever great full for anyone's help. Thanks in advance!
I figured it out and it only took me 5 days! :D
Looks like the reason the function would fail falls on how Windows handles stdin. I found a post that helped me edit my code to work with pyinstaller -w (--noconsole). Here is the updated code:
def rcmd_in(server):
import subprocess as sp
si = sp.STARTUPINFO()
si.dwFlags |= sp.STARTF_USESHOWWINDOW
for i in command_list:
result = sp.Popen(['C:/"Path to executable"/rcmd.exe', '\\\\' + server, i],
universal_newlines=True, stdin=sp.PIPE, stdout=sp.PIPE,
stderr=sp.PIPE, startupinfo=si)
print(result.stdout.read())
Note the change of functions 'run()' to 'Popen()'. The 'run()' function will not work with the print statement at the end. Also, for those of you who are curious the 'si' variable I created is preventing 'subprocess' from opening a console when being ran while using a GUI. I hope this will become useful to someone struggling with this. Cheers
I've a quick question about "pandas_profiling" .So basically i'm trying to use the pandas 'profiling' but instead of showing the output it says something like this:
<pandas_profiling.ProfileReport at 0x23c02ed77b8>
Where i'm making the mistake?? or Does it have anything to do with Ipython?? Because i'm using Ipython in Anaconda.
try this
pfr = pandas_profiling.ProfileReport(df)
pfr.to_notebook_iframe()
pandas_profiling creates an object that then needs to be displayed or output. One standard way of doing so is to save it as an HTML:
profile.to_file(outputfile="sample_file_name.html")
("profile" being the variable you used to save the profile itself)
It doesn't have to do with ipython specifically - the difference is that because you're going line by line (instead of running a full block of code, including the reporting step) it's showing you the object itself. The code above should allow you to see the report once you open it up.
I was simply trying to generate a summary that would show the run_metadata as follows:
run_options = tf.RunOptions(trace_level=tf.RunOptions.FULL_TRACE)
run_metadata = tf.RunMetadata()
summary = sess.run([x, y], options=run_options, run_metadata=run_metadata)
train_writer.add_run_metadata(paths.logs, 'step%d' % step)
train_writer.add_summary(paths.logs, step)
I made sure the path to the logs folder exists, this is confirmed by the fact the the summary file is generated but no metadata is presetn. Now I am not sure a file is actually generated to be honest (for the metadata), but when I open tensorboard, the graph looks fine and the session runs dropdown menu is populated. Now when I select any of the runs it shows a progress bar "Parsing metadata.pbtxt" that stops and hangs right half way through.
This prevents me from gathering any more additional info about my graph. Am I missing something ? A similar issue happened when trying to run this tutorial locally (MNIST summary tutorial). I feel like I am missing something simple. Does anyone have an idea about what could cause this issue ? Why would my tensorboard hang when trying to load a session run data ?
I can't believe I made it work right after posting the question but here it goes. I noticed that this line:
run_options = tf.RunOptions(trace_level=tf.RunOptions.FULL_TRACE)
was giving me an error so I removed the params and turned it into
run_options = tf.RunOptions()
without realizing that this is what caused the metadata not to be parsed. Once I researched the error message:
Couldn't open CUDA library cupti64_90.dll
I looked into this Github Thread and moved the file into the bin folder. After that I ran again my code with the trace_level param, had no errors and the metadata was successfully parsed.
I would like to be able to play a sound file in a ipython notebook.
My aim is to be able to listen to the results of different treatments applied to a sound directly from within the notebook.
Is this possible? If yes, what is the best solution to do so?
The previous answer is pretty old. You can use IPython.display.Audio now. Like this:
import IPython
IPython.display.Audio("my_audio_file.mp3")
Note that you can also process any type of audio content, and pass it to this function as a numpy array.
If you want to display multiple audio files, use the following:
IPython.display.display(IPython.display.Audio("my_audio_file.mp3"))
IPython.display.display(IPython.display.Audio("my_audio_file.mp3"))
A small example that might be relevant : http://nbviewer.ipython.org/5507501/the%20sound%20of%20hydrogen.ipynb
it should be possible to avoid gooing through external files by base64 encoding as for PNG/jpg...
The code:
import IPython
IPython.display.Audio("my_audio_file.mp3")
may give an error of "Invalid Source" in IE11, try in other browsers it should work fine.
The other available answers added an HTML element which I disliked, so I created the ringbell, which gets you both play a custom sound as such:
from ringbell import RingBell
RingBell(
sample = "path/to/sample.wav",
minimum_execution_time = 0,
verbose = True
)
and it also gets you a one-lines to play a bell when a cell execution takes more than 1 minute (or a custom amount of time for that matter) or is fails with an exception:
import ringbell.auto
You can install this package from PyPI:
pip install ringbell
If the sound you are looking for could be also a "Text-to-Speech", I would like to mention that every time a start some long process in the background, I queue the execution of a cell like this too:
from IPython.display import clear_output, display, HTML, Javascript
display(Javascript("""
var msg = new SpeechSynthesisUtterance();
msg.text = "Process completed!";
window.speechSynthesis.speak(msg);
"""))
You can change the text you want to hear with msg.text.
I have python 3.3 installed.
i use the example they use on their site:
import urllib.request
response = urllib.request.urlopen('http://python.org/')
html = response.read()
the only thing that happens when I run it is I get this :
======RESTART=========
I know I am a rookie but I figured the example from python's own website should be able to work.
It doesn't. What am I doing wrong?Eventually I want to run this script from the website below. But I think urllib is not going to work as it is on that site. Can someone tell me if the code will work with python3.3???
http://flowingdata.com/2007/07/09/grabbing-weather-underground-data-with-beautifulsoup/
I think I see what's probably going on. You're likely using IDLE, and when it starts a new run of a program, it prints the
======RESTART=========
line to tell you that a fresh program is starting. That means that all the variables currently defined are reset and/or deleted, as appropriate.
Since your program didn't print any output, you didn't see anything.
The two lines I suggested adding were just tests to figure out what was going on, they're not needed in general. [Unless the window itself is automatically closing, which it shouldn't.] But as a rule, if you want to see output, you'll have to print what you're interested in.
Your example works for me. However, I suggest using requests instead of urllib2.
To simplify the example you linked to, it would look like:
from bs4 import BeautifulSoup
import requests
resp = requests.get("http://www.wunderground.com/history/airport/KBUF/2007/12/16/DailyHistory.html")
soup = BeautifulSoup(resp.text)