Vince
Vince
What's are everyone's / anyone's thoughts about making it case-insensitive? Example: right now, defining a `pipeline_args` section of a project config with `WGBS` and `RRBS` as section keys for opt/arg...
This is minor, but it seems like in the enumeration of reasons for not submitting a sample/pipeline, the door is open for duplicate accounting. This seems related to the existence...
Point from discussion with @nsheff : failures are very correlated between samples, so messages with failing sample names would be more informative if we list the names of the failed...
This idea came up when I was writing a configuration file that uses the `subprojects` section. For each of my subprojects, I was defining an alternate `output_dir` and `sample_annotation`, but...
It's mentioned in the [special columns section](http://looper.readthedocs.io/en/latest/define-your-project.html?#special-columns) of the project definition docs that `sample_name` should be a unique identifier, but I don't think that we enforce the uniqueness constraint, and...
`pytest` is now on its next major version (4.x), so we should probably transition at some point.
For interactive use, we want to limit data displayed by `__repr__` since we're interested in more frequent exploratory than debug usage context. To support more detailed inspection, though, we'd like...
- [ ] remove temp patches for `looper` backcompat (https://github.com/pepkit/peppy/pull/260/commits/a0324041b9c2ce5e0ea8e917b2543f66b8852d43) - [ ] imports in `__init__.py` of a couple `attmap` classes; remove these to force import directly from `attmap`. -...
When using a `Pipeline` and configuring the `outfolder` with a value that's _not_ an absolute path causes the `checkpoint` call to fail due to trying to write to a file...
With #220 , any `Stage` will be able to be marked as `nofail`, allowing the `Pipeline` of which it's part to continue. Whenever the pipeline ultimately finishes (or is halted...