nf-test
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Simple test framework for Nextflow pipelines
Hi, I've stumble on the following behaviour recently. When doing multiple test for a module with a conda profile. The nf-test seems to create a new conda environment for each...
This PR addresses #199. ### Optimizing Test Execution #### `--related-tests ` Finds and executes all related tests for the provided .nf or nf.test files. Multiple files can be provided space...
I recently worked on a test that involved using a setup step to untar a rather large database (~8 GB), [see here](https://github.com/nf-core/modules/blob/master/modules/nf-core/krakenuniq/preloadedkrakenuniq/tests/main.nf.test). These tests were causing the GitHub runners to...
I am trying to avoid taking the md5sum for some files in my snapshot. I found this example of one potential method that was shared online [here](https://github.com/nf-cmgg/germline/blob/5ad1ca9213d4017a99cd94d6ffb54a12f6274105/tests/pipeline/gvcfs/main.nf.test#L27), which I have...
Currently you cannot check the stdout/stderr of a process unless it is explicitly captured as a channel. It would be useful if `nf-test` could expose the content of the relevant...
Thanks for your work on this. Is it possible to use keyword arguments instead positional arguments? ``` process{ """ input[0] = a input[1] = b """ ``` to ``` process{...
Hi @lukfor, as always, thanks for creating and maintaining this great tool. I only just realized this is a feature in Nextflow, but unnamed workflows can also have `main` and...
If you pass an input file to an output file directly, the snapshot includes the absolute path of the input file. This causes problems because the snapshot is not transferable....
Hello, The current link is broken : https://www.nf-test.com/configuration.md
Hi there, Is it possible to obtain a code coverage report for Nextflow scripts using nf-test? If not, would you have any alternative suggestions? Many thanks in advance!
