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- add bioconductor config selection method - add warning when Project provided as an arg - make a few function private; docs
the source (piface and pipeline within piface) info is preserved
- modify getPipelines method, so that it can select the pipelines by protocol - simplify the getOutFiles function - make the getOutFiles function return outputs populated only by samples that match the protocol - docs
- preserve sample names when populating output strings - make the getOutfiles function return all protocols when none specified - rename bioconductor section const
updates to the list merging func
docs work, tests
Codecov Report
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Ok, I'm ready to release this. The tximeta thing is awesome. We're not passing tests though, is that something you wanted to solve now? |
yeah, I noticed that. But I was not able to reproduce the linux issue that makes the tests fail -- it is related to some BiocStyle dependency incompatibility. I spent some time trying to solve that but with no luck. This is not a problem for macOS and, surprisingly, for linux tests in Travis.
no, we can solve it in the future, before submitting to Bioconductor |
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