What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

[Endre Bakken Stovner]

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Whenever I am in a snakefile and try one of the actions I get "no snakefile found for <dirname>`.

I do not really want to run the workflows within emacs, so this does not bother me but I suspect it is undesired behavior.

My file is called `"/Users/labsenter/havpryd/code/programmable_epigenetics/snakefiles/csaw/graph_filter_parameters.snakefile"` if that might matter.

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Re: What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

[Endre Bakken Stovner]

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I have folders upon folders of snakefiles for each of my projects. 

I am usually in the base folder of my current project calling snakefiles in subfolders.

Example of my last invocation:

`endrebak@havpryd ~/c/programmable_epigenetics> snakemake --snakefile snakefiles/csaw/graph_filter_parameters.snakefile -j 4`.

Will read the docs of the functions you mentioned.

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Re: What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

[Endre Bakken Stovner]

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It seems your function only finds files called `Snakefile`, right? So no matter what I set the dir functions to it would not work in my case.

My original graph functions just took the absolute path of the file visited by the buffer, which is what I would want in 100% of cases. Perhaps you (or I) could add some similar capability with an interactive function (`snakemake-create-dag(/rulegraph)-for-this-file`)?

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Re: What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

[Endre Bakken Stovner]

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I am working on my PhD which requires plenty of different analyses. I collect the related analyses into different snakefiles in the same folders. My main reason for not having them in the same file is to keep the files small and easier to edit, understand and reason about. 

Perhaps your setup would work if I created new folders for each snakefile, so that `a/b.snakefile` becomes `a/b/Snakefile`.

I guess you could ping https://github.com/johanneskoester and ask about his opinion.

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Re: What is the snakemake popup actions supposed to do/how are they supposed to work? (#11)

[Kyle Meyer]

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