CapCruncherTools
Overview
A collection of Rust tools to speed up the Python-based functionality of the CapCruncher project. Python bindings have been generated to allow for easy integration into the existing Python code base.
Development
This project uses uv for Python dependency management and environment setup. Dependencies are declared in pyproject.toml and resolved in uv.lock.
Create or update the local environment:
uv sync --dev
Build the Rust extension into the uv environment:
uv run maturin develop --release
Run the test suite:
uv run pytest
Refresh locked dependencies after editing pyproject.toml:
uv lock --upgrade
Release version bumps are managed by release-plz. After conventional commits
land on the default branch, the release workflow opens or updates a release PR
that bumps Cargo.toml, updates Cargo.lock, and maintains the changelog.
Merge that PR, then create a vX.Y.Z GitHub release from the merged commit to
publish the Python distributions.
Runtime dependency ranges are intentionally broad so capcruncher-tools can
install inside CapCruncher pipeline environments without forcing shared
libraries such as Click, pandas, or Polars to a single version. Build and
development tools remain pinned for reproducible local builds. CapCruncher
itself is expected to be supplied by the parent pipeline or CLI environment.
Current Accelerators
FASTQ deduplication
This tool takes paired FASTQ files and removes any duplicate fragments.
Use it through the CapCruncher CLI or Python API; this package provides the compiled acceleration layer.
Restriction digestion of FASTA
This tool takes a FASTA file and a list of restriction enzymes and produces a list of fragments in BED format.
Use it through the CapCruncher CLI or Python API; this package does not install a
separate capcruncher-tools command.
Count restriction fragments
This tool counts the number of interactions between a fragment (in silico digested read).
Use it through CapCruncher's interaction-counting API; cooler creation and workflow orchestration live in CapCruncher.
1 maintainer
Metadata
1 maintainer
Release files for capcruncher-tools 0.2.6
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | |
|---|---|---|---|---|
| capcruncher_tools-0.2.6.tar.gz | 2.9 MB | With provenance | Details |
Built distributions (wheels)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| capcruncher_tools-0.2.6-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl | CPython 3.7 | abi3 | Linux glibc 2.17+ x86-64 | Details |
| capcruncher_tools-0.2.6-cp37-abi3-macosx_11_0_arm64.whl | CPython 3.7 | abi3 | macOS 11.0+ ARM64 | Details |
Total release size: 14.3 MB
Release files / capcruncher_tools-0.2.6.tar.gz
| Download URL | capcruncher_tools-0.2.6.tar.gz |
|---|---|
| Size | 2.9 MB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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|
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BLAKE2b-256 checksum How to use checksums |
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| Upload date | |
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twine/6.1.0 CPython/3.13.12
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Transparency logRelease files / capcruncher_tools-0.2.6-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl
| Download URL | capcruncher_tools-0.2.6-cp37-abi3-manylinux_2_17_x86_64.manylinux2014_x86_64.whl |
|---|---|
| Size | 6.1 MB |
| Tags | CPython 3.7 Linux glibc 2.17+ x86-64 abi3 |
|
SHA-256 checksum How to use checksums |
d6974d9328420ddb0a989451b7c81b1f970cf04c879939d32b173c14eb817785
|
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BLAKE2b-256 checksum How to use checksums |
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| Upload date | |
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Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.12
|
Provenance
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Transparency logRelease files / capcruncher_tools-0.2.6-cp37-abi3-macosx_11_0_arm64.whl
| Download URL | capcruncher_tools-0.2.6-cp37-abi3-macosx_11_0_arm64.whl |
|---|---|
| Size | 5.2 MB |
| Tags | CPython 3.7 abi3 macOS 11.0+ ARM64 |
|
SHA-256 checksum How to use checksums |
021bb4c5d419473cb71a985224fe1876509e3dc97e3ec369019c81870c68e95d
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BLAKE2b-256 checksum How to use checksums |
6a281af737e4fd9c8ddcd318ffd411185ebfe9e696d24238cb65f63cc723cfe6
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
Yes |
| Uploaded via |
twine/6.1.0 CPython/3.13.12
|
Provenance
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Transparency logSecurity for capcruncher-tools 0.2.6
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Attestation for capcruncher_tools-0.2.6.tar.gz
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Signed by GitHub Actions, verified by PyPI on Apr 29, 2026.
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