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Hi everyone, I'm new to coding and Snakemake so I needed some help.
Unfortunately, I've encountered a problem when I tried the `bash run.sh all_harmonize_target_genotypes` step when trying to use VC…
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> Hello,
I am trying to run MAVIS and I am getting error.
-bash-4.2$ snakemake -j 1 --configfile mavis.cfg -s Snakefile
Traceback (most recent call last):
File "/u/home/m/mdistler/project-jflint…
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To guide the development of this lesson, it would be a good idea to have a clear outline of which parts of the current lesson are important to be kept for the HPC Carpentry setting, which are non-esse…
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Following the instructions in the "Install Decoil from source" section, a different version is intalled other than 1.1.2. which is : 1.1.3-alpha. When Decoil is used through singularity, no error oc…
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what was generated, where it is, etc.
could also be a link to the docs.
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Hi @zhxiaokang
i run into a problem when i execute the pipeline with the paired-end test data using htseq-count. There appears the following warning and finally the Error caused by missing file:
…
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In a sense, qtip mimics a workflow management system. It implements all steps in one command, and therefore you have written a lot of boilerplate code to check existence of intermediate files and so o…
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- [ ] Call Python code from R
- [ ] Use Snakemake Python API to construct the appropriate object
- [ ] Copy over the attributes (merge)
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Hello 👋 ,
Thank you for developing PAV! I'm seeing that this line is hard coded versus using the input directive, is this something you could update in the next release? If needed, I can make a PR.…
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(Version 5.3.0)
As I understand, in "run", the default language is Python. I would like to use the function "input" to get some input from the user, but it seems that Snakemake takes it as the "inp…