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bcbio / bcbio-nextgen-vm

Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
MIT License
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Where to find sample_config.yaml #170

Closed romanzac closed 5 years ago

romanzac commented 6 years ago

Hello,

I just installed bcbio_vm.py and I would like to run it with test data, however I cannot find sample_config.yaml file.

Thanks for info. R.

chapmanb commented 6 years ago

The sample configuration file is a customized input file describing your samples and analysis. There are more details about building and creating it in the documentation:

https://bcbio-nextgen.readthedocs.io/en/latest/contents/configuration.html

Does this provide a useful starting point for getting your test data analysis going? Hope this is helpful.

romanzac commented 6 years ago

Thanks chapmanb. The website you have linked definitely provides help. I was just expecting more easy start, because when I go step by step through installation process, everything is easy and straight forward including test data download. When I move to "Running" section, complexity increases significantly.

R.

chapmanb commented 5 years ago

Glad that helps and please let us know if you have specific questions. Once you reach sample specification things do get less automated as you have lot of different choices depending on your samples and the type of analysis you're looking to run. We've tried to automate as much as possible of that and please let us know if we can help at all to make it easier to get started.