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Jupyter notebook -> pdf error
I am unable to generate a pdf from my notebook. I get the following error. 500 : Internal Server Error The error was: nbconvert failed: PDF creating failed, captured latex output: Failed to run "xelatex .\notebook.tex -quiet" command:
^^@:4: Emergency stop
ps: tried removing the '.' from pdf.py
Can you post the notebook in question and the version of nbconvert your are using (I'd recommend testing this again with 5.6)?
Also try running with --Application.log_level=10 so we can get full logs of the failure.
Same here
`nbconvert failed: PDF creating failed, captured latex output: Failed to run "['xelatex', './notebook.tex', '-quiet']" command: This is XeTeX, Version 3.1415926-2.5-0.9999.3 (TeX Live 2013) restricted \write18 enabled. entering extended mode (./notebook.tex LaTeX2e <2011/06/27> Babel <v3.8m> and hyphenation patterns for english, dumylang, nohyphenation, lo aded. (/usr/share/texlive/texmf-dist/tex/latex/base/article.cls Document Class: article 2007/10/19 v1.4h Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/size11.clo))
! LaTeX Error: File `tcolorbox.sty' not found.
Type X to quit or <RETURN> to proceed, or enter new name. (Default extension: sty)
Enter file name: ! Emergency stop. <read *>
l.4 \usepackage {parskip} % Stop auto-indenting (to mimic markdown behavi...
No pages of output. Transcript written on notebook.log.`
@krinkere You'll need to install some extra latex packages. It looks like you need the tcolorbox package, but you may need others.
I'm having the same issue with a different log (see below). My nbconvert version is 5.6.1.
[I 00:38:38.850 NotebookApp] Building PDF [I 00:38:38.860 NotebookApp] Running xelatex 3 times: ['xelatex', '.\notebook.tex', '-quiet'] [C 00:38:40.330 NotebookApp] x failed: xelatex .\notebook.tex -quiet ^^@:104: Emergency stop [E 00:38:40.332 NotebookApp] nbconvert failed: PDF creating failed, captured latex output: Failed to run "xelatex .\notebook.tex -quiet" command:
^^@:104: Emergency stop
Traceback (most recent call last):
File "C:\ProgramData\Anaconda3\envs\sklearn22dev\lib\site-packages\notebook\nbconvert\handlers.py", line 130, in get
resources=resource_dict
File "C:\ProgramData\Anaconda3\envs\sklearn22dev\lib\site-packages\nbconvert\exporters\pdf.py", line 185, in from_notebook_node
self.run_latex(tex_file)
File "C:\ProgramData\Anaconda3\envs\sklearn22dev\lib\site-packages\nbconvert\exporters\pdf.py", line 156, in run_latex
self.latex_count, log_error, raise_on_failure)
File "C:\ProgramData\Anaconda3\envs\sklearn22dev\lib\site-packages\nbconvert\exporters\pdf.py", line 145, in run_command
command=command, output=out))
nbconvert.exporters.pdf.LatexFailed: PDF creating failed, captured latex output:
Failed to run "xelatex .\notebook.tex -quiet" command:
^^@:104: Emergency stop
[W 00:38:40.334 NotebookApp] 500 GET /nbconvert/pdf/Dropbox/Udemy_Courses/Machine_Learning_A_to_Z/Data_Sets/Part%209%20-%20Dimensionality%20Reduction/Section%2043%20-%20Principal%20Component%20Analysis%20(PCA)/Udemy-%20PCA.ipynb?download=true (::1): nbconvert failed: PDF creating failed, captured latex output: Failed to run "xelatex .\notebook.tex -quiet" command:
^^@:104: Emergency stop
[E 00:38:40.341 NotebookApp] { "Host": "localhost:8888", "Connection": "keep-alive", "Upgrade-Insecure-Requests": "1", "User-Agent": "Mozilla/5.0 (Windows NT 10.0; Win64; x64) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/78.0.3904.108 Safari/537.36", "Accept": "text/html,application/xhtml+xml,application/xml;q=0.9,image/webp,image/apng,/;q=0.8,application/signed-exchange;v=b3", "Sec-Fetch-Site": "same-origin", "Sec-Fetch-Mode": "navigate", "Referer": "http://localhost:8888/notebooks/Dropbox/Udemy_Courses/Machine_Learning_A_to_Z/Data_Sets/Part%209%20-%20Dimensionality%20Reduction/Section%2043%20-%20Principal%20Component%20Analysis%20(PCA)/Udemy-%20PCA.ipynb", "Accept-Encoding": "gzip, deflate, br", "Accept-Language": "en-US,en;q=0.9", "Cookie": "_xsrf=2|1f138e91|e2413fa3a7e254151728fea8e69f215f|1573153079; username-localhost-8889="2|1:0|10:1574714173|23:username-localhost-8889|44:MGQ2YmU2ZWJlNmQyNDY5ZGE2YmY1MWIyOGI0ZTY0NGM=|173027981271f14c8752a19b418079d40fbf686239322dacae55a167ce02dbbb"; username-localhost-8888="2|1:0|10:1574840247|23:username-localhost-8888|44:ZWViYWIzNjI2ZWUzNGQ2ZGJkYWNjOTFkNTJjZTNlYWE=|f80dfa680108386c834d15004a7ffe777a58870ee82935e594ef0500a29a36a9"" } [E 00:38:40.346 NotebookApp] 500 GET /nbconvert/pdf/Dropbox/Udemy_Courses/Machine_Learning_A_to_Z/Data_Sets/Part%209%20-%20Dimensionality%20Reduction/Section%2043%20-%20Principal%20Component%20Analysis%20(PCA)/Udemy-%20PCA.ipynb?download=true (::1) 1950.53ms referer=http://localhost:8888/notebooks/Dropbox/Udemy_Courses/Machine_Learning_A_to_Z/Data_Sets/Part%209%20-%20Dimensionality%20Reduction/Section%2043%20-%20Principal%20Component%20Analysis%20(PCA)/Udemy-%20PCA.ipynb
Im also gettings the same error. The error log was too long for github, so I uploaded it to pastebin. error log
from the nested logs @AnyByte It looks like MikTex is hard crashing:
Output written on B.2602gf (2 characters, 392 bytes).
Transcript written on B.log.
METAFONT failed for some reason
Sorry, but maketfm did not succeed.
The log file hopefully contains the information to get MiKTeX going again:
C:\Users\maxav\AppData\Local\MiKTeX\2.9\miktex\log\miktex-maketfm.log
You likely need to post those log files specifically, though given it's a hard crash inside miktex it may be an issue for the project specifically that nbconvert can't fix.
I am seeing the same issue. Even though it says Writing 32163 bytes to ./notebook.tex nothing is in the directory.
[NbConvertApp] Searching ['/home/ec2-user/SageMaker/AmazonSageMaker-UltimakerAnalysis', '/home/ec2-user/.jupyter', '/home/ec2-user/anaconda3/envs/JupyterSystemEnv/etc/jupyter', '/usr/local/etc/jupyter', '/etc/jupyter'] for config files
[NbConvertApp] Looking for jupyter_config in /etc/jupyter
[NbConvertApp] Looking for jupyter_config in /usr/local/etc/jupyter
[NbConvertApp] Looking for jupyter_config in /home/ec2-user/anaconda3/envs/JupyterSystemEnv/etc/jupyter
[NbConvertApp] Looking for jupyter_config in /home/ec2-user/.jupyter
[NbConvertApp] Looking for jupyter_config in /home/ec2-user/SageMaker/AmazonSageMaker-UltimakerAnalysis
[NbConvertApp] Looking for jupyter_nbconvert_config in /etc/jupyter
[NbConvertApp] Looking for jupyter_nbconvert_config in /usr/local/etc/jupyter
[NbConvertApp] Looking for jupyter_nbconvert_config in /home/ec2-user/anaconda3/envs/JupyterSystemEnv/etc/jupyter
[NbConvertApp] Looking for jupyter_nbconvert_config in /home/ec2-user/.jupyter
[NbConvertApp] Looking for jupyter_nbconvert_config in /home/ec2-user/SageMaker/AmazonSageMaker-UltimakerAnalysis
[NbConvertApp] Converting notebook UltimakerAnalysis.ipynb to pdf
[NbConvertApp] Notebook name is 'UltimakerAnalysis'
[NbConvertApp] Applying preprocessor: TagRemovePreprocessor
[NbConvertApp] Applying preprocessor: RegexRemovePreprocessor
[NbConvertApp] Applying preprocessor: coalesce_streams
[NbConvertApp] Applying preprocessor: SVG2PDFPreprocessor
[NbConvertApp] Applying preprocessor: LatexPreprocessor
[NbConvertApp] Applying preprocessor: HighlightMagicsPreprocessor
[NbConvertApp] Applying preprocessor: ExtractOutputPreprocessor
[NbConvertApp] Attempting to load template article.tplx
[NbConvertApp] template_path: .
[NbConvertApp] Writing 32163 bytes to ./notebook.tex
[NbConvertApp] Building PDF
[NbConvertApp] Running xelatex 3 times: ['xelatex', './notebook.tex', '-quiet']
[NbConvertApp] CRITICAL | xelatex failed: ['xelatex', './notebook.tex', '-quiet']
Traceback (most recent call last):
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/bin/jupyter-nbconvert", line 11, in <module>
sys.exit(main())
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/jupyter_core/application.py", line 268, in launch_instance
return super(JupyterApp, cls).launch_instance(argv=argv, **kwargs)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/traitlets/config/application.py", line 664, in launch_instance
app.start()
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/nbconvertapp.py", line 340, in start
self.convert_notebooks()
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/nbconvertapp.py", line 510, in convert_notebooks
self.convert_single_notebook(notebook_filename)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/nbconvertapp.py", line 481, in convert_single_notebook
output, resources = self.export_single_notebook(notebook_filename, resources, input_buffer=input_buffer)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/nbconvertapp.py", line 410, in export_single_notebook
output, resources = self.exporter.from_filename(notebook_filename, resources=resources)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/exporters/exporter.py", line 179, in from_filename
return self.from_file(f, resources=resources, **kw)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/exporters/exporter.py", line 197, in from_file
return self.from_notebook_node(nbformat.read(file_stream, as_version=4), resources=resources, **kw)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/exporters/pdf.py", line 185, in from_notebook_node
self.run_latex(tex_file)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/exporters/pdf.py", line 156, in run_latex
self.latex_count, log_error, raise_on_failure)
File "/home/ec2-user/anaconda3/envs/JupyterSystemEnv/lib/python3.6/site-packages/nbconvert/exporters/pdf.py", line 145, in run_command
command=command, output=out))
nbconvert.exporters.pdf.LatexFailed: PDF creating failed, captured latex output:
Failed to run "['xelatex', './notebook.tex', '-quiet']" command:```
Hi all, in fact we got this issue because some latex package is missing. To fix in the Temp directoty i search the file "notebook.tex" end i execute the file with MiKTeX. Miktex will download all needed package. and after it will be ok. Regards
I encountered the same error. I can convert some simple .ipynb files to pdf successfully .(there are only a few pages) But I can not convert .ipynb which contains many pages and the error above appeared . Does this mean that 'Nbconvert' can not convert complicated files ? I am confused.
The xelatex conversion is rather particular on what it needs installed / passed to work. It's unlikely the length of the notebook and more some feature of the later sections that is failing to render. There's some planned work to help make attachments better but there's not much active development going on around making the debug experience here better. If you generate a latex output (the .tex extension you see referenced) and then try xelatex ./notebook.tex yourself without the -quiet and see if it says something more detailed about the error.
Try to download as .tex file and remove following lines: " \usepackage{iftex} \ifPDFTeX \usepackage[T1]{fontenc} \usepackage{mathpazo} \else \usepackage{fontspec} \fi" now you should be able to run your tex-file with Miketex or what ever..
Thanks for advices @MSeal @Brezel31 . I have solved my problem by this: I compared the differences between the two ".ipynb" file . I found that I added a line "***" in markdown command to separate two lines . So the error above appeared when I converted it to pdf. However,when I removed this line"***" from the file, it worked. It can be transfered into pdf successfully. For markdown, the command like "***" means separating line and I think this is illegal for latex or pdf supported by texlive. So It worked when this command was deleted. In a word, do not use some "strange" commands that you hardly use in latex. That is my opinion.
nbconvert failed: PDF creating failed, captured latex output:
Failed to run "xelatex .\notebook.tex -quiet" command:
This is XeTeX, Version 3.14159265-2.6-0.999991 (TeX Live 2019/W32TeX) (preloaded format=xelatex)
restricted \write18 enabled.
entering extended mode
! Undefined control sequence.
<*> .\notebook
.tex -quiet
?
! Emergency stop.
<*> .\notebook
.tex -quiet
No pages of output.
Transcript written on ?.
The .tex document generated is correct and compilable (Atom: pdfTex).
It seems to be a compiling error, which can be easily circumnavigated.
No need to delete the things suggested by @Brezel31 in my case
If someone wanted to open a PR to catch and translate these control character errors to something renderable before they crash xelatex I'd be happy to review the PR. I'm unlikely to get to fixing this myself for some time.
nbconvert failed: PDF creating failed, captured latex output: Failed to run "xelatex .\notebook.tex -quiet" command: This is XeTeX, Version 3.14159265-2.6-0.999991 (TeX Live 2019/W32TeX) (preloaded format=xelatex) restricted \write18 enabled. entering extended mode ! Undefined control sequence. <*> .\notebook .tex -quiet ? ! Emergency stop. <*> .\notebook .tex -quiet No pages of output. Transcript written on ?.The .tex document generated is correct and compilable (Atom: pdfTex).
It seems to be a compiling error, which can be easily circumnavigated.
No need to delete the things suggested by @Brezel31 in my case
How can i solve this issue?
@yuliaUU Your issue has been fixed on master. It's caused by using TeX Live or some other version of LaTeX on Windows that was not originally intended for Windows. You can fix your issue by using the latest alpha of 6.0 of nbconvert or by switching to MikTeX.
@t-makaro thank you!
May I ask you to write the commands 8 need to run? Sorry I am a bit new to all of this
I have a similar error.
nbconvert failed: PDF creating failed, captured latex output:
Failed to run "xelatex .\notebook.tex -quiet" command:
This is XeTeX, Version 3.14159265-2.6-0.999992 (TeX Live 2020/W32TeX) (preloaded format=xelatex)
restricted \write18 enabled.
entering extended mode
! Undefined control sequence.
<*> .\notebook
.tex -quiet
?
! Emergency stop.
<*> .\notebook
.tex -quiet
No pages of output.
Transcript written on ?.
I wonder if installation of R latex package has something to do with it, because it worked before and the R packages uses xelatex, too. Thanks for runaround going through .tex format, it worked for me.
In case it helps:
I had recently the same problem. I wrote a python program (version 3.7.6) in a jupyter notebook (version 6.0.3) and got the same error (Failed to run "xelatex .\notebook.tex -quiet" command) when I tried File / Download as / PDF via LateX.
Ultimately, the issue came from the fact that I introduced a Markdown cell in my notebook ! Keeping this cell, neither from jupyter notebook, nor from jupyter lab, I was able to download to PDF. Removing this cell, I now can use the PDF via Latex method from inside my jupyter notebook, and it works !
The problem seems to come from mixing Python and Markdown cells in the same notebook. Surprising...
It's likely specific to some content in your markdown then. Can you post the markdown that caused the issue? I am guessing there's yet-another unescaped character that the LaTeX conversion tries to interpret.
Well, the code was simply taken from https://stackoverflow.com/questions/36288670/how-to-programmatically-generate-markdown-output-in-jupyter-notebooks:
from IPython.display import display, Markdown, Latex
display(Markdown('*some markdown* $\phi$'))
# If you particularly want to display maths, this is more direct:
display(Latex('\phi'))
I just re-imported this code in my notebook, and the command File / Download as / PDF via LateX (from inside my notebook) messed up again...
Hello, I am new to LaTeX, working on Mac OS Catalina nbconvert version: 5.6.1
Notebook: https://github.com/Funnear/math_formulas/blob/master/Logarithms.ipynb
nbconvert failed: PDF creating failed, captured latex output:
Failed to run "['xelatex', './notebook.tex', '-quiet']" command:
This is XeTeX, Version 3.14159265-2.6-0.999992 (TeX Live 2020) (preloaded format=xelatex)
restricted \write18 enabled.
entering extended mode
(./notebook.tex
LaTeX2e <2020-02-02> patch level 5
L3 programming layer <2020-03-06>
(/usr/local/texlive/2020/texmf-dist/tex/latex/base/article.cls
Document Class: article 2019/12/20 v1.4l Standard LaTeX document class
(/usr/local/texlive/2020/texmf-dist/tex/latex/base/size11.clo))
(/usr/local/texlive/2020/texmf-dist/tex/latex/tcolorbox/tcolorbox.sty
(/usr/local/texlive/2020/texmf-dist/tex/latex/pgf/basiclayer/pgf.sty
(/usr/local/texlive/2020/texmf-dist/tex/latex/pgf/utilities/pgfrcs.sty
(/usr/local/texlive/2020/texmf-dist/tex/generic/pgf/utilities/pgfutil-common.te
x
(/usr/local/texlive/2020/texmf-dist/tex/generic/pgf/utilities/pgfutil-common-li
sts.tex))
(/usr/local/texlive/2020/texmf-dist/tex/generic/pgf/utilities/pgfutil-latex.def
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Transcript written on notebook.log.
Have you tried with 6.0.7? There's a lot of fixes in the 6.0 release though latex is still quite picky about some things that nbconvert doesn't catch well.
Have you tried with 6.0.7? There's a lot of fixes in the 6.0 release though latex is still quite picky about some things that nbconvert doesn't catch well.
I have updated nbconvert to 6.0.7and tried again. I get the same error. But I look at Anaconda terminal log and see that error messages start with XeTeX in C mode:
xelatex failed: ['xelatex', 'notebook.tex', '-quiet']
This is XeTeX, Version 3.14159265-2.6-0.999992 (TeX Live 2020) (preloaded format=xelatex)
restricted \write18 enabled.
entering extended mode
I just upgraded conda on my mac, and now I am encouthering an emergency stop on
ipython nbconvert --to pdf Split4.ipynb
with all of my scripts, all of which used to work. If I make a tex file with
ipython nbconvert --to latex Slit4.ipynb
I get a .tex file that works just fine using my normal latex tool.
Here is an example of the problem.
and the log when nbcovert to pdf is run goo.txt
and the pdf file that is produced if I run the conversion to latex only and then run my normal version of a latex processor
Addition: if I run xelatex on the .tex file that is produced, e.g
Then It encouters the error:
(/opt/sw/share/texmf-dist/tex/generic/oberdiek/se-ascii-print.def)
! Package pgfkeys Error: I do not know the key '/tcb/pad at break*', to which y
ou passed '1mm', and I am going to ignore it. Perhaps you misspelled it.
See the pgfkeys package documentation for explanation.
Type H <return> for immediate help.
...
l.387 ...back=cellbackground, colframe=cellborder]
but a quit command causes the routine to complete and produce a pdf file , so the issue seems to be some conbination of a problem with the tex file that is produced, and the not being able to handle the error.
Had the same issue. Found that it was caused by a cell with Python code that I had switched to "Raw Data" cell type to prevent execution. When I switched the cell to "Markdown" cell type the export to PDF worked.
I had the same problem it was because I typed LaTeX codes kinda wrong. I will write my problem, hope this helps.
$ x*2=x^2 $ --- This using is displaying in jupyter notebook but this is wrong and cannot convert a jupyter notebook file to PDF.
$x*2=x^2$ --- This using is correct and I solved by problem when I fixed it like this. You musn't use spaces between math code and $ signs.
I had the same problem it was because I typed LaTeX codes kinda wrong. I will write my problem, hope this helps.
$ x*2=x^2 $ --- This using is displaying in jupyter notebook but this is wrong and cannot convert a jupyter notebook file to PDF.
$x*2=x^2$ --- This using is correct and I solved by problem when I fixed it like this. You musn't use spaces between math code and $ signs.
@battalucar This fixed my problem as well. Worth checking for other people who might run into this.
