Versioning question

[muffato]

Hi Rich,

The release 0.7.10 has got all its assets on GitHub named 0.7.11 . And the release 0.7.11 has got its assets named 0.7.12 .

The last pypi release is named 0.7.12 https://pypi.org/project/blobtk/ . Does it correspond to the 0.7.11 GitHub release ?

Matthieu

[DLBPointon]

Linked to the above, if the bioconda recipe gets attached to the PyPi, bioconda will get built automatically.

Currently, it looks like the conda update is through anaconda? Which we can't use anymore.

[rjchallis]

@muffato Thanks for pointing this out. I had some CI issues that were preventing the releases completing - thought I'd fixed things but looks like it left the cargo version out of step with the version number elsewhere. I'll be releasing 0.8.0 in the next couple of days (adds new snail plot scoring/reference assembly features and changes default snail plot scale function to linear (hence the minor version bump) so versions will be realigned.

@DLBPointon blobtk conda release is to a separate channel (-c tolkit) so should be fine to use as doesn't touch the main or default anaconda channels

[rjchallis]

and I wasn't aware there was a bioconda build out there. I had trouble resolving dependencies between the python lib and executable when I set up the packaging so kept it separate as I couldn't get it to build fully in a bioconda recipe then didn't revisit it. I'll look to link this when I get a chance as it's a shame the bioconda version is so out of date.

[DLBPointon]

Ah ok, thanks. I though that was the organisation on the first read.

I'm having a look at updating the bioconda at the minute, as we can only use pip, biocond or conda-forge for the nf-core modules. Using other channels will kill the testing we have to run.

I think it would just have to be modified to be like the below:

All i've done really it change it to using pypi as the source rather than github (so could probably remove alot of the dependencies) and added description.

EDIT: Actually this is failing no matter what I do

{% set name = "blobtk" %}
{% set version = "0.7.12" %}
{% set sha256 = "5875db705e1f5c348152b46a819930b1aa89ad1a5f215b694cedaaa0517feae2" %}

package:
  name: {{ name }}
  version: {{ version }}

source:
  url: "https://pypi.io/packages/source/{{ name[0] }}/{{ name }}/{{ name }}-{{ version }}.tar.gz"
  sha256: {{ sha256 }}

build:
  number: 0
  run_exports:
    - {{ pin_subpackage('blobtk', max_pin="x.x") }}

requirements:
  build:
    - {{ compiler('c') }}
    - {{ compiler('rust') }}
    - cmake
    - make
    - clangdev
    - llvmlite
    - pkg-config
  host:
    - python
    - pip
    - maturin
    - curl
    - wget
    - openssl
    - zlib
  run:
    - python

test:
  imports:
    - blobtk
  commands:
    - blobtk --help

about:
  home: "https://github.com/genomehubs/blobtk"
  summary: "Core functionality shared across BlobToolKit tools."
  license: MIT
  license_family: MIT
  license_file: LICENSE
  dev_url: "https://github.com/genomehubs/blobtk"
  doc_url: "https://github.com/genomehubs/blobtk/wiki"
  description: |
    BlobTk contains a set of core functions used by BlobToolKit tools.
    Implemented in Rust, these functions are intended to be accessible from
    the command line, as python modules and will include web assembly code
    for use in javascript.

extra:
  additional-platforms:
    - linux-aarch64
    - osx-arm64