BSD Portsmisc/snakemake 9.27.0 FreeBSD
Workflow management system
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- Last update
- Commit
92375a410b- License
- MIT
- Categories
- misc, python
- Package size
- 1400.3 KiB, 7632.9 KiB installed
Description
Snakemake is a workflow management system that aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment, together with a clean and modern specification language in python style. Snakemake workflows are essentially Python scripts extended by declarative code to define rules. Rules describe how to create output files from input files.
In the other systems
| System | Port | Version |
|---|---|---|
| FreeBSD | misc/snakemake | 9.27.0 |
| DragonFly | misc/snakemake | 6.15.5_4 |
Install
Binary package:
pkg install snakemakeFrom the ports tree:
cd /usr/ports/misc/snakemake/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= snakemake>0:misc/snakemakePackages
The version each package repository carries. “-” means the repository builds no package of it, “n/a” that there is no such repository.
| Repository | aarch64 | amd64 | armv6 | armv7 | i386 |
|---|---|---|---|---|---|
| FreeBSD:14:latest | 9.27.0 | - | - | 6.15.5_4 | 9.27.0 |
| FreeBSD:14:quarterly | 9.27.0 | 9.27.0 | n/a | 6.15.5_4 | 9.27.0 |
| FreeBSD:15:latest | - | 9.27.0 | n/a | 6.15.5_4 | 6.15.5_4 |
| FreeBSD:15:quarterly | 9.27.0 | 9.27.0 | n/a | n/a | n/a |
| FreeBSD:16:latest | 9.27.0 | 9.27.0 | n/a | n/a | n/a |
| FreeBSD:16:quarterly | n/a | n/a | n/a | n/a | n/a |
Dependencies
As this port's Makefile names them.
Build 3
${PYTHON_PKGNAMEPREFIX}setuptools>0: devel/py-setuptools${PYTHON_PKGNAMEPREFIX}setuptools-scm>=8: devel/py-setuptools-scm${PYTHON_PKGNAMEPREFIX}wheel>0: devel/py-wheel
Runtime 31
${PYTHON_PKGNAMEPREFIX}conda-inject>=1.3.1: devel/py-conda-inject${PYTHON_PKGNAMEPREFIX}configargparse>0: devel/py-configargparse${PYTHON_PKGNAMEPREFIX}connection_pool>=0.0.3: devel/py-connection_pool${PYTHON_PKGNAMEPREFIX}docutils>=0.20: textproc/py-docutils${PYTHON_PKGNAMEPREFIX}dpath>=2.1.6: devel/py-dpath${PYTHON_PKGNAMEPREFIX}gitpython>0: devel/py-gitpython${PYTHON_PKGNAMEPREFIX}humanfriendly>0: textproc/py-humanfriendly${PYTHON_PKGNAMEPREFIX}immutables>0: devel/py-immutables${PYTHON_PKGNAMEPREFIX}Jinja2>=3.0: devel/py-Jinja2${PYTHON_PKGNAMEPREFIX}jsonschema>0: devel/py-jsonschema${PYTHON_PKGNAMEPREFIX}nbformat>0: devel/py-nbformat${PYTHON_PKGNAMEPREFIX}packaging>=24.0: devel/py-packaging${PYTHON_PKGNAMEPREFIX}platformdirs>0: devel/py-platformdirs${PYTHON_PKGNAMEPREFIX}psutil>0: sysutils/py-psutil${PYTHON_PKGNAMEPREFIX}pulp>=2.3.1: math/py-PuLP${PYTHON_PKGNAMEPREFIX}pyyaml>0: devel/py-pyyaml${PYTHON_PKGNAMEPREFIX}referencing>0: devel/py-referencing${PYTHON_PKGNAMEPREFIX}requests>=2.8.1: www/py-requests${PYTHON_PKGNAMEPREFIX}smart-open>=4.0: net/py-smart-open${PYTHON_PKGNAMEPREFIX}snakemake-interface-common>=1.20.1: misc/py-snakemake-interface-common${PYTHON_PKGNAMEPREFIX}snakemake-interface-executor-plugins>=9.3.2: misc/py-snakemake-interface-executor-plugins${PYTHON_PKGNAMEPREFIX}snakemake-interface-logger-plugins>=1.1.0: misc/py-snakemake-interface-logger-plugins${PYTHON_PKGNAMEPREFIX}snakemake-interface-report-plugins>=1.2.0: misc/py-snakemake-interface-report-plugins${PYTHON_PKGNAMEPREFIX}snakemake-interface-scheduler-plugins>=2.0.0: misc/py-snakemake-interface-scheduler-plugins${PYTHON_PKGNAMEPREFIX}snakemake-interface-storage-plugins>=4.4.1: misc/py-snakemake-interface-storage-plugins${PYTHON_PKGNAMEPREFIX}sqlmodel>=0.0.37: databases/py-sqlmodel${PYTHON_PKGNAMEPREFIX}tabulate>0: devel/py-tabulate${PYTHON_PKGNAMEPREFIX}tenacity>=9.1.4: devel/py-tenacity${PYTHON_PKGNAMEPREFIX}throttler>0: devel/py-throttler${PYTHON_PKGNAMEPREFIX}wrapt>0: devel/py-wrapt${PYTHON_PKGNAMEPREFIX}yte>=1.5.5: textproc/py-yte
Test 1
${PYTHON_PKGNAMEPREFIX}pytest>0: devel/py-pytest
The full lists below include those, and their dependencies in turn.
Build dependencies 17
Run dependencies 140
- archivers/liblz4
- archivers/zstd
- databases/py-sqlalchemy20
- databases/py-sqlite3
- databases/py-sqlmodel
- databases/sqlite3
- devel/binutils
- devel/crc32c
- devel/gettext-runtime
- devel/libedit
- devel/libffi
- devel/py-Jinja2
- devel/py-aiosignal
- devel/py-annotated-types
- devel/py-argparse-dataclass
- devel/py-attrs
- devel/py-azure-core
- devel/py-azure-storage-blob
- devel/py-babel
- devel/py-backports.zstd
- devel/py-botocore
- devel/py-cffi
- devel/py-conda-inject
- devel/py-configargparse
- devel/py-connection_pool
- devel/py-cpsat-logutils
- devel/py-dpath
- devel/py-fastjsonschema
- devel/py-frozenlist
- devel/py-gitdb
- devel/py-gitpython
- devel/py-google-crc32c
- devel/py-googleapis-common-protos
- devel/py-greenlet
- devel/py-grpcio
- devel/py-grpcio-status
- devel/py-immutables
- devel/py-isodate
- devel/py-jmespath
- devel/py-jsonschema
- devel/py-jsonschema-specifications
- devel/py-jupyter-core
- devel/py-nbformat
- devel/py-opentelemetry-api
- devel/py-opentelemetry-instrumentation
- devel/py-opentelemetry-instrumentation-grpc
- devel/py-opentelemetry-semantic-conventions
- devel/py-orloge
- devel/py-packaging
- devel/py-platformdirs
- devel/py-propcache
- devel/py-proto-plus
- devel/py-protobuf
- devel/py-pyasn1
- devel/py-pyasn1-modules
- devel/py-pycparser
- devel/py-pydantic-core
- devel/py-pydantic2
- devel/py-python-dateutil
- devel/py-pyyaml
- devel/py-referencing
- devel/py-rpds-py
- devel/py-six
- devel/py-smmap
- devel/py-tabulate
- devel/py-tenacity
- devel/py-throttler
- devel/py-traitlets
- devel/py-typing-extensions
- devel/py-typing-inspection
- devel/py-wcwidth
- devel/py-wheel
- devel/py-wrapt
- devel/readline
- dns/c-ares
- dns/py-idna
- lang/gcc14
- lang/python312
- lang/python315
- lang/tcl86
- math/asl
- math/blas
- math/cbc
- math/cgl
- math/clp
- math/coin-or-data-netlib
- math/coin-or-data-sample
- math/coin-or-metis
- math/coin-or-mumps
- math/coinutils
- math/glpk
- math/gmp
- math/lapack
- math/libtommath
- math/mpc
- math/mpdecimal
- math/mpfr
- math/nauty
- math/openblas
- math/osi
The first 100 are listed.
No port depends on this one.
Configuration
No options to configure.
- USES
- python
- Service scripts
- none
Files
distinfo 1
| File | Size | SHA256 |
|---|---|---|
| snakemake-9.27.0.tar.gz | 6.818358e+06 | cd80a66dda92d274af02244a0c861d7de8851402b23caadbcbcc101f4c04a0d6 |
Master sites 1
- PYPI