BSD Portsbiology/py-htseq 2.1.2_2 FreeBSD
Python library to facilitate programmatic analysis of sequence data
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- License
- GPLv3
- Categories
- biology, python
- Package size
- 309.8 KiB, 1379.0 KiB installed
Description
HTSeq is a Python library to facilitate programmatic analysis of data from high-throughput sequencing (HTS) experiments. A popular component of HTSeq is htseq-count, a script to quantify gene expression in bulk and single-cell RNA-Seq and similar experiments.
In the other systems
| System | Port | Version |
|---|---|---|
| FreeBSD | biology/py-htseq | 2.1.2_2 |
| DragonFly | biology/py-htseq | 2.0.9_1 |
| HardenedBSD | biology/py-htseq | 2.1.2_2 |
| GhostBSD | biology/py-htseq | 2.1.2_2 |
Install
Binary package:
pkg install py312-HTSeqFrom the ports tree:
cd /usr/ports/biology/py-htseq/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= py312-HTSeq>0:biology/py-htseqPackages
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 | 2.1.2_2 | 2.1.2_2 | - | - | 2.1.2_2 |
| FreeBSD:14:quarterly | 2.1.2_2 | 2.1.2_2 | n/a | - | 2.1.2_2 |
| FreeBSD:15:latest | 2.1.2_2 | 2.1.2_2 | n/a | - | 2.0.9_1 |
| FreeBSD:15:quarterly | 2.1.2_2 | 2.1.2_2 | n/a | n/a | n/a |
| FreeBSD:16:latest | 2.1.2_2 | 2.1.2_2 | 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 2
${PYTHON_PKGNAMEPREFIX}numpy>=1.16: math/py-numpy${PYTHON_PKGNAMEPREFIX}pysam>0: biology/py-pysam
Runtime 3
${PYTHON_PKGNAMEPREFIX}matplotlib>=1.4.3: math/py-matplotlib${PYTHON_PKGNAMEPREFIX}numpy>=1.16: math/py-numpy${PYTHON_PKGNAMEPREFIX}pysam>0: biology/py-pysam
Test 3
${PYTHON_PKGNAMEPREFIX}matplotlib>=1.4: math/py-matplotlib${PYTHON_PKGNAMEPREFIX}pandas>=1.1.0: math/py-pandas${PYTHON_PKGNAMEPREFIX}scipy>1.5.0: science/py-scipy
The full lists below include those, and their dependencies in turn.
Build dependencies 34
- archivers/brotli
- archivers/libdeflate
- archivers/liblz4
- archivers/zstd
- biology/bcftools
- biology/htslib
- biology/py-pysam
- biology/samtools
- devel/binutils
- devel/gettext-runtime
- devel/libffi
- devel/libunistring
- devel/py-setuptools
- devel/readline
- dns/libidn2
- dns/libpsl
- ftp/curl
- lang/cython
- lang/gcc14
- lang/perl5.42
- lang/python312
- lang/python315
- math/gmp
- math/gsl
- math/mpc
- math/mpdecimal
- math/mpfr
- math/openblas
- math/py-numpy
- print/indexinfo
- security/libssh2
- shells/bash
- textproc/expat2
- www/libnghttp2
Run dependencies 93
- archivers/brotli
- archivers/libdeflate
- archivers/liblz4
- archivers/py-brotli
- archivers/py-zopfli
- archivers/zopfli
- archivers/zstd
- biology/bcftools
- biology/htslib
- biology/py-pysam
- biology/samtools
- converters/fribidi
- converters/libiconv
- devel/binutils
- devel/gettext-runtime
- devel/glib20
- devel/libffi
- devel/libinotify
- devel/libunistring
- devel/pcre2
- devel/py-cycler
- devel/py-lxml
- devel/py-olefile
- devel/py-packaging
- devel/py-pyparsing
- devel/py-python-dateutil
- devel/py-six
- devel/py-unicodedata2
- devel/readline
- dns/libidn2
- dns/libpsl
- ftp/curl
- graphics/gdk-pixbuf2
- graphics/giflib
- graphics/graphite2
- graphics/jbigkit
- graphics/jpeg-turbo
- graphics/lcms2
- graphics/lerc
- graphics/libavif
- graphics/libimagequant
- graphics/libyuv
- graphics/openjpeg
- graphics/png
- graphics/py-pillow
- graphics/tiff
- graphics/webp
- lang/cython
- lang/gcc14
- lang/perl5.42
- lang/python312
- lang/python315
- lang/tcl86
- math/gmp
- math/gsl
- math/mpc
- math/mpdecimal
- math/mpfr
- math/openblas
- math/py-contourpy
- math/py-kiwisolver
- math/py-matplotlib
- math/py-numpy
- math/qhull
- misc/shared-mime-info
- multimedia/aom
- multimedia/dav1d
- multimedia/vmaf
- print/freetype2
- print/harfbuzz
- print/indexinfo
- print/libraqm
- print/py-fonttools
- security/libgcrypt
- security/libgpg-error
- security/libssh2
- shells/bash
- textproc/expat2
- textproc/libxml2
- textproc/libxslt
- www/libnghttp2
- x11-fonts/fontconfig
- x11-fonts/libXft
- x11-toolkits/py-tkinter
- x11-toolkits/tk86
- x11/libX11
- x11/libXScrnSaver
- x11/libXau
- x11/libXdmcp
- x11/libXext
- x11/libXrender
- x11/libxcb
- x11/xorgproto
No port depends on this one.
Configuration
No options to configure.
- USES
- python
- Service scripts
- none
Files
distinfo 1
| File | Size | SHA256 |
|---|---|---|
| htseq-2.1.2.tar.gz | 506243 | 69d5a6b9a832ea85edf8a32fbac591a8af2e32bb961d1f3843c48c9d03a77a82 |
Master sites 1
- PYPI
Commit history 0
No commits in the history this site was built from.