Created attachment 169872 [details] shar patch for new port biology/py-biom-format portlint: OK NOTE: All poudriere testport runs were done after applying the fix for math/openblas in bug 209190. testport: fails due to problem with science/hdf5; see bug 189453 (poudriere: 9.3-RELEASE-p39, i386) testport: OK (poudriere: 9.3-RELEASE-p39, amd64) testport: OK (poudriere: 10.3-RELEASE, i386) testport: OK (poudriere: 10.3-RELEASE, amd64) poudriere logs: http://pkg.awarnach.mathstat.dal.ca/data/9amd64-default/2016-05-01_23h30m19s/logs/py27-biom-format-2.1.5.log http://pkg.awarnach.mathstat.dal.ca/data/10i386-default/2016-05-01_23h30m32s/logs/py27-biom-format-2.1.5.log http://pkg.awarnach.mathstat.dal.ca/data/10amd64-default/2016-05-01_23h43m44s/logs/py27-biom-format-2.1.5.log
Created attachment 170017 [details] shar patch for new port biology/py-biom-format (fix typo) Fix a typo *in my name*. :-/
A commit references this bug: Author: olivierd Date: Mon May 9 16:37:45 UTC 2016 New revision: 414865 URL: https://svnweb.freebsd.org/changeset/ports/414865 Log: The BIOM file format (canonically pronounced biome) is designed to be a general-use format for representing biological sample by observation contingency tables. BIOM is a recognized standard for the Earth Microbiome Project and is a Genomics Standards Consortium supported project. The BIOM format is designed for general use in broad areas of comparative -omics. For example, in marker-gene surveys, the primary use of this format is to represent OTU tables: the observations in this case are OTUs and the matrix contains counts corresponding to the number of times each OTU is observed in each sample. With respect to metagenome data, this format would be used to represent metagenome tables: the observations in this case might correspond to SEED subsystems, and the matrix would contain counts corresponding to the number of times each subsystem is observed in each metagenome. Similarly, with respect to genome data, this format may be used to represent a set of genomes: the observations in this case again might correspond to SEED subsystems, and the counts would correspond to the number of times each subsystem is observed in each genome. WWW: http://biom-format.org/ PR: 209193 Submitted by: Joseph Mingrone Changes: head/biology/Makefile head/biology/py-biom-format/ head/biology/py-biom-format/Makefile head/biology/py-biom-format/distinfo head/biology/py-biom-format/pkg-descr
Committed, thanks!