BSD Portsscience/py-pyteomics 5.0.1 FreeBSD
Python modules for proteomics data analysis
- System
- FreeBSD
- Repository
- FreeBSD ports
- Maintainer
- [email protected]
- Last update
- Commit
dabbbe357d- License
- APACHE20
- Categories
- science, python
- Package size
- 498.5 KiB, 3435.0 KiB installed
Description
Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provides a growing set of modules to facilitate the most common tasks in proteomics data analysis, such as:
- calculation of basic physico-chemical properties of polypeptides:
- mass and isotopic distribution
- charge and pI
- chromatographic retention time
- access to common proteomics data:
- MS or LC-MS data
- FASTA databases
- search engines output
- easy manipulation of sequences of modified peptides and proteins
The goal of the Pyteomics project is to provide a versatile, reliable and well-documented set of open tools for the wide proteomics community. One of the project's key features is Python itself, an open source language increasingly popular in scientific programming. The main applications of the library are reproducible statistical data analysis and rapid software prototyping.
In the other systems
| System | Port | Version |
|---|---|---|
| FreeBSD | science/py-pyteomics | 5.0.1 |
| DragonFly | science/py-pyteomics | 4.7.5 |
Install
Binary package:
pkg install py312-pyteomicsFrom the ports tree:
cd /usr/ports/science/py-pyteomics/ && make install cleanTo depend on this port in another port's Makefile:
RUN_DEPENDS= py312-pyteomics>0:science/py-pyteomicsPackages
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 | 5.0.1 | 5.0.1 | - | 4.7.5_1 | 5.0.1 |
| FreeBSD:14:quarterly | 5.0.1 | 5.0.1 | n/a | 4.7.5 | 5.0.1 |
| FreeBSD:15:latest | 5.0.1 | 5.0.1 | n/a | 4.7.5_1 | 4.7.5_1 |
| FreeBSD:15:quarterly | 5.0.1 | 5.0.1 | n/a | n/a | n/a |
| FreeBSD:16:latest | 5.0.1 | 5.0.1 | 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
${PYTHON_PKGNAMEPREFIX}setuptools>=0: devel/py-setuptools${PYTHON_PKGNAMEPREFIX}wheel>=0: devel/py-wheel
The full lists below include those, and their dependencies in turn.
Build dependencies 16
Run dependencies 92
- archivers/brotli
- archivers/libdeflate
- archivers/liblz4
- archivers/py-brotli
- archivers/py-zopfli
- archivers/zopfli
- archivers/zstd
- converters/fribidi
- converters/libiconv
- databases/py-sqlalchemy20
- databases/py-sqlite3
- databases/sqlite3
- devel/binutils
- devel/gettext-runtime
- devel/glib20
- devel/libedit
- devel/libffi
- devel/libinotify
- devel/pcre2
- devel/py-cycler
- devel/py-greenlet
- devel/py-lxml
- devel/py-olefile
- devel/py-packaging
- devel/py-pyparsing
- devel/py-python-dateutil
- devel/py-pytz
- devel/py-six
- devel/py-typing-extensions
- devel/py-tzdata
- devel/py-unicodedata2
- devel/readline
- 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/gcc14
- lang/python312
- lang/python315
- lang/tcl86
- math/gmp
- math/libtommath
- math/mpc
- math/mpdecimal
- math/mpfr
- math/openblas
- math/py-bottleneck
- math/py-contourpy
- math/py-kiwisolver
- math/py-matplotlib
- math/py-numexpr
- math/py-numpy
- math/py-pandas
- math/qhull
- misc/shared-mime-info
- multimedia/aom
- multimedia/dav1d
- multimedia/vmaf
- print/freetype2
- print/harfbuzz
- print/indexinfo
- print/libraqm
- print/py-fonttools
- science/py-psims
- security/libgcrypt
- security/libgpg-error
- textproc/expat2
- textproc/libxml2
- textproc/libxslt
- 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
Options name: science_pyteomics
| Option | Default | Description |
|---|---|---|
| DF | on | DataFrame support |
| GRAPHICS | on | Graphics support |
| PROFORMA | on | Proteoform and Peptidoform Notation support |
| TDA | on | Target-decoy approach support |
| UNIMOD | on | Unimod database support |
| XML | on | XML support |
- USES
- python
- Service scripts
- none
Files
distinfo 1
| File | Size | SHA256 |
|---|---|---|
| pyteomics-5.0.1.tar.gz | 275092 | 89670f1512caa7fce5a269f3dc8d5b3856ef02f161fd2abc77155adb0bbe4a48 |
Master sites 1
- PYPI