bioconda-recipes
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update khmer
khmer does not play well with python 3.12 and so I have updated the requirement. More information: https://github.com/dib-lab/khmer/issues/1927
Please read the guidelines for Bioconda recipes before opening a pull request (PR).
General instructions
- If this PR adds or updates a recipe, use "Add" or "Update" appropriately as the first word in its title.
- New recipes not directly relevant to the biological sciences need to be submitted to the conda-forge channel instead of Bioconda.
- PRs require reviews prior to being merged. Once your PR is passing tests and ready to be merged, please issue the
@BiocondaBot please add label
command. - Please post questions on Gitter or ping
@bioconda/core
in a comment.
Instructions for avoiding API, ABI, and CLI breakage issues
Conda is able to record and lock (a.k.a. pin) dependency versions used at build time of other recipes.
This way, one can avoid that expectations of a downstream recipe with regards to API, ABI, or CLI are violated by later changes in the recipe.
If not already present in the meta.yaml, make sure to specify run_exports
(see here for the rationale and comprehensive explanation).
Add a run_exports
section like this:
build:
run_exports:
- ...
with ...
being one of:
Case | run_exports statement |
---|---|
semantic versioning | {{ pin_subpackage("myrecipe", max_pin="x") }} |
semantic versioning (0.x.x) | {{ pin_subpackage("myrecipe", max_pin="x.x") }} |
known breakage in minor versions | {{ pin_subpackage("myrecipe", max_pin="x.x") }} (in such a case, please add a note that shortly mentions your evidence for that) |
known breakage in patch versions | {{ pin_subpackage("myrecipe", max_pin="x.x.x") }} (in such a case, please add a note that shortly mentions your evidence for that) |
calendar versioning | {{ pin_subpackage("myrecipe", max_pin=None) }} |
while replacing "myrecipe"
with either name
if a name|lower
variable is defined in your recipe or with the lowercase name of the package in quotes.
Bot commands for PR management
Please use the following BiocondaBot commands:
Everyone has access to the following BiocondaBot commands, which can be given in a comment:
@BiocondaBot please update |
Merge the master branch into a PR. |
@BiocondaBot please add label |
Add the please review & merge label. |
@BiocondaBot please fetch artifacts |
Post links to CI-built packages/containers. You can use this to test packages locally. |
Note that the @BiocondaBot please merge
command is now depreciated. Please just squash and merge instead.
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and will automatically re-post them to notify the addressed <team>
.