I recently downloaded Anaconda on my Windows and am trying to use the Jupyter notebook. However, when I open Jupyter, the it seems to be full of odd files.
Odd Files
I have tried to change the Jupyter home directory by changing the "Start in" in the Jupyter file but the home directory remained unchanged.
Start in
There are two problems here. The first being that there are a large number of files and running the jupyter notebook makes my computer run slow. Second that when I try to add folders, I get the error that I do not have ownership to do so.
Simple fix. I was previously running jupyter from the command prompt but running it through the anaconda navigator fixed it.
Related
No problem in other directories. Is there an environmental variable or something else I need to erase?
Deleted cache file...
OK, I think I need be much clearer here.
First software:
MacOS Catalina 10.15.6
jupyter notebook 6.0.3
Python 3.8.3
IPython 7.16.1
jupyter notebook is installed and runs fine.
jupyter notebook runs just fine in any user directory on the computer except exactly one.
There is nothing obvious in this directory that shouldn't be there. An 'ls -al' shows nothing but some .py files.
I can create a jupyter notebook in this directory, but the kernel crashes and won't restart. I can rename the directory, rename the jupyter notebook, but the behavior persists beyond everything I have been able to reset including a cold computer restart. It is reproducible and happens every time.
This behavior is not seen in any other directory.
My question: are there environmental variables or caches stored not visibly in the directory (obviously) that are responsible for this incredibly annoying behavior and how can I reset them?
Problem solved: jupyter notebooks apparently uses some reserved names for local directory .py files when starting up the notebook. So far I've found that "string.py" and "decorator.py" cannot be in the startup directory unless they contain the expected data (looks like it needs to be related to some template info)
To start-up a kernel
You first activate your virtual environment:
For instance: conda activate vision
Second, you type jupyter notebook
as stated here
Installed WSL on Windows 10.
Installed Anaconda according to the Anaconda documentation with the following commands:
bash Anaconda3-2020.02-Linux-x86_64.sh
source ~/.bashrc
You can see the '(base)' in the beginning of each command input line, indicating the conda is activated.
Then I run jupyter notebook by typing:
jupyter notebook
Then I see the following changes as shown in the screen record.
Briefly, the WSL terminal window showed some information very quickly, but is changed to the windows powershell window before you could even tell the information that showed up. I know those information should contain a file and url for opening the jupyter notebook in the web browser. But they flashed out so quickly. Does anyone know why this happens?
Here is a dynamic graph of the Screen record of this issue:
Solved:
1. Wait for a bit more time on the windows cmd and the jupyter notebook running information will show up, where includes the url to open jupyter notebook in the web browser.
OR
Open up another wsl terminal, activate the same environment and type jupyter notebook list, which will show the current running jupyter notebook server. The url is also can be found there.
I was working in a jupyter notebook until it froze. It wouldn't save or shut down so I restarted my computer. I launched jupyter notebook from an anaconda prompt, my folder directory opens per usual. When i tried to open the notebook from before, I get an error loading screen that says permission denied: (name of notebook).ipynb. I hit close and the notebook shuts down.
I checked the folder permissions, I have full control. I can create a new ipynb without any issues. I can open other notebooks without any problem in the same folder. I tried to run a trust notebook through the anaconda prompt and it says the notebook is missing.
I need to recover this particular notebook as it has all my work. Help! Any ideas? Thanks in advance.
I work in the anaconda prompt in an environment other than the root, so this answer using sudo chmod doesn't work for me.
I had possibly the same problem. In my case the problem was that jupyter notebook must have crashed or had some problem whilst autosaving.
As a result, in the folder where the notebook is saved there's a temporary file called ".~nameofnotebook.ipynb".
This file didn't show up in jupyter notebook, but only in the explorer. I deleted the notebook file and renamed the temporary file to delete the ".~" prefix. Make sure to save a copy of the notebook file before deleting anything in case your problem is different.
The renamed temporary file opens fine and none of my data was lost.
Change the name of the file and you are good to go bro..
I'm trying to open a jupyter notebook and it takes a long time and I see at the bottom it's trying to load various [MathJax] extension, e.g. at the bottom left of the chrome browser it says:
Loading [MathJax]/extensions/safe.js
Eventually, the notebook loads, but it's frozen and then at the bottom left it keeps showing that it's trying to load other [MathJax] .js files.
Meanwhile, the "pages unresponsive do you want to kill them" pop up keeps popping up.
I have no equations or plots in my notebook so I can't understand what is going on. My notebook never did this before.
I googled this and some people said to delete the ipython checkpoints. Where would those be? I'm on Mac OS and using Anaconda.
conda install -c conda-forge nbstripout
nbstripout filename.ipynb. Make sure that there is no whitespace in the filename.
I had a feeling that the program in my Jupyter notebook was stuck trying to produce some output, so I restarted the kernel and cleared output and that seemed to do the trick!
If Jupyter crashes while opening the ipynb file, try "using nbstripout to clear output directly from the .ipynb file via command line"(bndwang). Install with pip install nbstripout
I was having the same problem with jupyter notebook. My recommendations to you are as follows:
First, check the size of the .ipynb file you are trying to open. Probably the file size is in MB and is large. One of the reasons for this might be the output of a dataset that you previously displayed all rows.
For example;
In order to check the dataset, sometimes I use pd.set_option('display.max_rows', None) instead of the .head() function. And so I view all the rows in the data set.
The large number of outputs increases the file size, making the notebook slower. Try to delete such outputs.
I think this will solve your problem.
Here restarting your kernel will not help. Instead use nbstripout to strip the output from command line.
Run this command -> nbstripout FILE.ipynb
Install nbstripout if it is not there
https://pypi.org/project/nbstripout/
It happened to me the time I decided to print a matrix for 100000 times. The notebook file became 150MB and Jupyter (in Chrome) was not able to open it: it said all the things you experienced and then the page died saying it was "OutOfMemory".
I solved the issue opening it in Visual Studio Code, there is a button "Clear All Output", then I saved the notebook again and it was back to some hundreds of KB, which I could open normally.
If you don't have Visual Studio Code installed, you can open the notebook with another editor (gedit if you use Linux or Notepad++ in Windows) and try to delete the output cells. This is more tricky since you have to pay a lot of attention in what you are deleting, otherwise the notebook will stop working.
I just installed Miniconda and the R Essentials bundle on my Windows 10 machine, following the instructions given here. Everything went swimmingly until I opened up an Anaconda command prompt and entered jupyter notebook and got an error. I then used ipython notebook which worked, so okay, no problem there.
However, after creating a new folder and trying to create a new R notebook within that folder, my Jupyter tabs started to hang. Whenever I try to do something, whether it is rename the notebook, run a block of code, basically anything, all of the Jupyter tabs sit there loading endlessly saying "Waiting for localhost..."
I try stopping the server and restarting it, but every time I try to do anything I get the same result. I also tried changing the port and running the command prompt as administrator--same result. I am using Chrome, which shouldn't be an issue.
Any ideas? I was really excited about using a Jupyter notebook to keep track of my analyses in R, but if I can't even get it to function out of the box I'll have to find a better solution.