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Allow errors (#174) 

* Added ability to pass aditional options to nbconvert. Main purpose is
to pass "--allow-errors"

* Changed IJulia.jupyter to IJulia.JUPYPTER to match change in IJulia.jl
pull/180/head
schrimpf 2019-02-25 09:24:01 -08:00 committed by Matti Pastell
parent 1e630ed825
commit adf7338f34
1 changed files with 5 additions and 4 deletions
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9
src/Weave.jl
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@ -156,7 +156,7 @@ function weave(doc::AbstractString, doctype::AbstractString)
end
"""
notebook(source::String, out_path=:pwd)
notebook(source::String, out_path=:pwd, timeout=-1, nbconvert_options="")
Convert Weave document `source` to Jupyter notebook and execute the code
using nbconvert. Requires IJulia. **Ignores** all chunk options
@ -164,9 +164,10 @@ using nbconvert. Requires IJulia. **Ignores** all chunk options
* `out_path`: Path where the output is generated. Can be: `:doc`: Path of the source document,
`:pwd`: Julia working directory, `"somepath"`: Path as a
String e.g `"/home/mpastell/weaveout"`
* nbconvert cell timeout in seconds. Defaults to -1 (no timeout)
* `timeout`: nbconvert cell timeout in seconds. Defaults to -1 (no timeout)
* `nbconvert_options`: string of additional options to pass to nbconvert, such as `--allow-errors`
"""
function notebook(source::String, out_path=:pwd, timeout=-1)
function notebook(source::String, out_path=:pwd, timeout=-1, nbconvert_options="")
doc = read_doc(source)
converted = convert_doc(doc, NotebookOutput())
doc.cwd = get_cwd(doc, out_path)
@ -178,7 +179,7 @@ function notebook(source::String, out_path=:pwd, timeout=-1)
@info("Running nbconvert")
eval(Meta.parse("using IJulia"))
out = read(`$(IJulia.jupyter)-nbconvert --ExecutePreprocessor.timeout=$timeout --to notebook --execute $outfile --output $outfile`, String)
out = read(`$(IJulia.JUPYTER)-nbconvert --ExecutePreprocessor.timeout=$timeout --to notebook --execute $outfile $nbconvert_options --output $outfile`, String)
end
"""