Add support for nibi HPC system#169
Merged
douglatornell merged 8 commits intomainfrom Mar 11, 2026
Merged
Conversation
douglatornell
added
documentation
Codecov Report✅ All modified and coverable lines are covered by tests. Additional details and impacted files@@ Coverage Diff @@
## main #169 +/- ##
=======================================
Coverage 98.69% 98.69%
=======================================
Files 17 17
Lines 2223 2224 +1
Branches 64 64
=======================================
+ Hits 2194 2195 +1
Misses 23 23
Partials 6 6
Flags with carried forward coverage won't be shown. Click here to find out more. ☔ View full report in Codecov by Sentry. 🚀 New features to boost your workflow:
|
douglatornell
force-pushed
the
nibi-support
branch
from
81ea167 to
3cefda7
Compare
Introduced a new YAML configuration file for dask clusters on the `nibi` HPC system. Updated associated tests to support and validate the inclusion of this cluster configuration.
Corrected the test class docstring for `TestVarsList` by adding a missing
article ("the") before `core.info._vars_list()`. This improves clarity and
consistency in documentation.
Add conversion of path object to str with `os.fspath()` in a `Syntax.from_path()` call. This ensures compatibility with path-like objects and improves code robustness.
Changed the type hint for the `model_profile` parameter from `str` to `dict` in `info._vars_list()`. This aligns the function signature with its actual usage and improves code accuracy.
Introduced a new example, "Extractions from Research Runs on `nibi`" in the use examples documentation.
Updated the example for extracting heterotrophic bacteria in `nibi` research runs, including detailed YAML configurations and instructions for batch and interactive job submissions. Added sections emphasizing version control and customization of extraction files for reproducibility.
for more information, see https://pre-commit.ci
douglatornell
force-pushed
the
nibi-support
branch
from
424b053 to
1d02e5b
Compare
Member
Author
|
@SusanEAllen and @JoseEOAS : The new docs section is rendered at https://reshapr--169.org.readthedocs.build/en/169/examples/nibi_research_run_extraction.html where it is prettier and probably easier to read than looking at the reStructuredText here. |
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
nibiHPC system. Updated associated tests to support and validate the inclusion of this cluster configuration.nibi" section to the use examples documentation.