I and attempting to render a single jpg image using the minimal Bookdown setup.
Everything builds and knits fine in the original minimal bookdown state. When I add this one line of code just below '# Prerequisites,' the book incurs errors during the build process.
I've researched the error solutions to extent of my brain cells but cannot seem to locate the solution. The line of code works perfectly fine in R markdown, so it's not a file or directory does not exist issue.
When I knit the book, it produces the image in the proper position.
/__bookdown_dfc/__derivations/flow_diagram.jpg)
Error messages are provided in linked image[![enter image description here][1]][1].
[1]: https://i.stack.imgur.com/K0u4B.jpg
Try to use HTML instead <img src= "/Users/brianlee/Dropbox (Personal)/__bookdown_dfc/__derivations/flow_diagram.jpg">
I am using a for loop to generate a lot of images to put into a word document.
To get them in i use the ! [Alt text] (/Users/Antonio/Documents/images/tufte.book.jpg) method.
This works well but regardless of what I do i am not able to make the image bigger (fill the entire page)
Any ideas on how to progress?
I have an .rmd file containing working code for a Shiny interactive knitr/rmarkdown doc. I want this doc to run via GitHub pages.
How do I do this? (Can someone walk me through the steps clearly and fully).
I understand I have to create a gh-pages branch and upload the files there. However, I don't understand what to do with my .rmd file. Do I simply just resave it as an .html file? Or does an html file have to contain something in addition to the rmd file?
Please help explain this to me -- I've spent all day trying to figure this out, but I can;t get anything to work right :(.
Prior effort: I tried following the lead given by this SO.post, but the best I can get is a screen full of block text. No formatting, code or images show up. Just the whole document's text.
I have an ipython notebook with an embedded image from my local drive. I was expecting it to be embedded in the JSON along with the output of code cells, but when I distributed the notebook, the image did not appear to users. What is the recommended way (or ways) to embed an image in a Notebook, so that it doesn't disappear if users rerun code cells, clear cell output, etc.?
The notebook system caches images included with , but they last only until the python "kernel" serving the notebook is restarted. If I rename the image file on disk, I can close and reopen the notebook and it still shows the image; but it disappears when I restart the kernel.
Edit: If I generate an image as code cell output and then export the notebook to html, the image is embedded in the html as encoded data. Surely there must be a way to hook into this functionality and load the output into a markdown (or better yet "raw nbconvert") cell?
from IPython.display import Image
Image(filename='imagename.png')
will be exported (with ipython nbconvert) to html that contains the following:
<div class="output_png output_subarea output_execute_result">
<img src="data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAAnAAAAFgCAYAAAA...
</div>
However, even when I manually embedded this snippet into a markdown cell, I couldn't get the image to display. What am I doing wrong?
Update (2020)
Apparently, the problem has (finally!) been addressed in the newer notebook / Jupyter versions: as of 2018 (thanks for the link #Wayne), the html sanitizer will accept an embedded html image, as in <img src="data:image/png;base64,iV...> . Markdown image syntax also accepts images as embedded data, so there are two ways to do this. Details in these helpful answers:
markdown image syntax (answer by #id01)
html element syntax (in answer by #tel -- note that it works now!)
Are you happy to use an extra code cell to display the image? If so, use this:
from IPython.display import Image
Image(filename="example.png")
The output cell will have the raw image data embedded in the .ipynb file so you can share it and the image will be retained.
Note that the Image class also has a url keyword, but this will only link to the image unless you also specify embed=True (see the documentation for details). So it's safer to use the filename keyword unless you are referring to an image on a remote server.
I'm not sure if there is an easy solution if you require the image to be included in a Markdown cell, i.e. without a separate code cell to generate the embedded image data. You may be able to use the python markdown extension which allows dynamically displaying the contents of Python variables in markdown cells. However, the extension generates the markdown cells dynamically, so in order to retain the output when sharing the notebook you will need to run ipython nbconvert --to notebook original_notebook.ipynb --output preprocessed_notebook using the preprocessor pymdpreprocessor.py as mentioned in the section "Installation". The generated notebook then has the data embedded in the markdown cell as an HTML tag of the form <img src="data:image/png;base64,..."> so you can delete the corresponding code cell from preprocessed_notebook.ipynb. Unfortunately, when I tried this the contents of the <img> tag weren't actually displayed in the browser, so not sure if this is a viable solution. :-/
A different option would be to use the Image class in a code cell to generate the image as above, and then use nbconvert with a custom template to remove code input cells from the notebook. See this thread for details. However, this will strip all code cells from the converted notebook, so it may not be what you want.
The reason why the
<img src="data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAAnAAAAFgCAYAAAA...
tag doesn't do anything when you put it in a markdown cell is because IPython uses an HTML sanitizer (something called Google Caja) that screens out this type of tag (and many others) before it can be rendered.
The HTML sanitizer in IPython can be completely disabled by adding the following line to your custom.js file (usually located at ~/.ipython/profile_default/static/custom/custom.js):
iPython.security.sanitize_html = function (html) { return html; };
It's not a great solution though, as it does create a security risk, and it doesn't really help that much with distribution.
Postscript:
The ability to render base64 encoded strings as images != obvious security concern, so there should be a way for the Caja people to eventually allow this sort of thing through (although the related feature request ticket was first opened back in 2012, so don't hold your breath).
I figured out that replacing the image URL in the  with a base64 URL, similar to the ones found above, can embed an image in a markdown container.
Example markdown:
If using the IPython HTML() function to output raw HTML, you can embed a linked image in base64 inside an <img> tag using the following method:
import base64
import requests
from IPython.core.display import HTML
def embedded_image(url):
response = requests.get(url)
uri = ("data:" +
response.headers['Content-Type'] + ";" +
"base64," + str(base64.b64encode(response.content).decode('utf-8')))
return uri
# Here is a small example. When you export the notebook as HTML,
# the image will be embedded in the HTML file
html = f'<img src="{embedded_image("https://upload.wikimedia.org/wikipedia/commons/5/56/Kosaciec_szczecinkowaty_Iris_setosa.jpg")}" />'
HTML(html)
UPDATE: As pointed out by #alexis, this doesn't actually answer the question correctly, this will not allow users to re-run cells and have images persist (this solution only allows one to embed the images into exports).
As of Jupyter Notebook 5, you can attach image data to cells, and refer to them from the cell via attachment:<image-file-name>. See the menu Edit > Insert Image, or use drag and drop.
Unfortunately, when converting notebooks with attached (embedded) images to HTML, those images will not show up.
To get them into the HTML code, you can use (for instance) nbtoolbelt.
It will replace those attachment: references by data: with the image data embedded in the img tag.
When I make my knitr document, I see the html file in my directory. I load the file and it looks great.
However, I'm curious where the pictures are:
It gives me locations like:
img src="data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAACQAAAAYACAYAAAAjFnetAAAEJGlDQ1BJQ0MgUHJvZmlsZQAAOBGFVd9v21QUPolvUqQWPyBYR4eKxa9VU1u5GxqtxgZJk6XtShal6dgqJOQ6N4mpGwfb6baqT3uBNwb8AUDZAw9IPCENBmJ72fbAtElThyqqSUh76MQ ...."
Where exactly is the image?
This IS the image directly encoded in html. http://en.wikipedia.org/wiki/Data_URI_scheme
see f.e. this stack overflow question: Embedding Base64 Images
kind greetings