Info2: << Package: pycogent-py%type_pkg[python] # this is the last python2 release # pycogent3 is in alpha release: https://github.com/cogent3/cogent3 Version: 1.9 Revision: 1 Description: Library for genomic biology Type: python (2.7) License: GPL Maintainer: Hanspeter Niederstrasser Depends: << matplotlib-py%type_pkg[python], numpy-py%type_pkg[python], python%type_pkg[python] << BuildDepends: << cython-py%type_pkg[python] (>= 0.27.3), fink (>= 0.32) << Recommends: << mpi4py-py%type_pkg[python], mysql-python-py%type_pkg[python], sqlalchemy-py%type_pkg[python] << Source: https://github.com/pycogent/pycogent/archive/%v.tar.gz SourceRename: PyCogent-%v.tar.gz Source-Checksum: SHA256(c9f56d21d764aa62e3e8a9df5a300eb7fb59e502572bec41894d21df19aeceb5) Source2: http://archive.ubuntu.com/ubuntu/pool/universe/p/python-cogent/python-cogent_%v-11build1.debian.tar.xz Source2-Checksum: SHA256(fd4640a9eadf623dab411fe21eb9846ae2e57aa3d08e818beb6e1cc61ad58d56) PatchScript: << #!/bin/sh -ev # remove Debian patch we don't need rm ../debian/patches/usr_bin_ls.patch # apply Debian patches for i in ../debian/patches/*.patch; do patch -p1 < $i; done << CompileScript: << chmod 644 ChangeLog README %p/bin/python%type_raw[python] setup.py build << ### Some tests fail when run as fink-bld ### https://github.com/pycogent/pycogent/issues/39 InfoTest: << TestScript: << #!/bin/sh -ev export PYTHON_TEST_EXE=%p/bin/python%type_raw[python] sh run_tests || exit 2 << << InstallScript: << #!/bin/sh -ev %p/bin/python%type_raw[python] setup.py install --root %d --prefix %p << DocFiles: ChangeLog README Homepage: http://pycogent.org/ DescDetail: << PyCogent is a software library for genomic biology. It is a fully integrated and thoroughly tested framework for: controlling third-party applications; devising workflows; querying databases; conducting novel probabilistic analyses of biological sequence evolution; and generating publication quality graphics. It is distinguished by many unique built-in capabilities (such as true codon alignment) and the frequent addition of entirely new methods for the analysis of genomic data. Knight R, Maxwell P, Birmingham A, Carnes J, Caporaso JG, Easton BC, Eaton M, Hamady M, Lindsay H, Liu Z, et al.: PyCogent: a toolkit for making sense from sequence. Genome Biol 2007, 8(8):R171. << DescPackaging: << * 4 tests not compatible with matplotlib >= 1.5 https://github.com/pycogent/pycogent/issues/112 << <<