Author: moeller Date: 2011-04-29 21:03:16 +0000 (Fri, 29 Apr 2011) New Revision: 6728
Modified: trunk/packages/qiime/trunk/debian/README.Debian trunk/packages/qiime/trunk/debian/changelog trunk/packages/qiime/trunk/debian/control Log: Uploaded all those nice improvements to Qiime by Tim and Andreas. Modified: trunk/packages/qiime/trunk/debian/README.Debian =================================================================== --- trunk/packages/qiime/trunk/debian/README.Debian 2011-04-29 18:23:44 UTC (rev 6727) +++ trunk/packages/qiime/trunk/debian/README.Debian 2011-04-29 21:03:16 UTC (rev 6728) @@ -1,32 +1,52 @@ Quick Start =========== -Type 'qiime' at the shell prompt before running any of the standard qiime -commands. +Type 'qiime' at the shell prompt before running any of the standard +qiime commands. -QIIME for Debian -================ +QIIME for Debian and Ubuntu +=========================== -QIIME is a very powerful environment, but the core of its power -stems from the tools underneath. +QIIME is a very powerful environment, but the core of its power stems +from the tools underneath. -Not all those tools that QIIME can work with are yet available -with Debian. If you find resources to help - please do. +Not all those tools that QIIME can work with are yet available with +Debian. If you find resources to help - please do. -Most of the needed tools are available via the Bio-Linux -project: http://nebc.nerc.ac.uk/tools/bio-linux - efforts -are underway by the Bio-Linux devlopers to port this work into Debian. +Most of the needed tools are available via the Bio-Linux project: +http://nebc.nerc.ac.uk/tools/bio-linux . This package was one of the +first to profit from now joint forces on getting the packages to a +best-possible shape for everyone. The package is in experimental since: - * it depends on python-pynast that is in experimental - and - since like pynast it uses the sphinx documentation system - that it not yet uses to streamline the orig.tar.gz and - recreate the documentation from its sources. - When adding python-sphinx the build fails because of a conflict - to orig.tar.gz that could not yet be resolved. + * it depends on python-pynast that is in experimental - and since like + pynast it uses the sphinx documentation system that it not yet uses + to streamline the orig.tar.gz and recreate the documentation from + its sources. When adding python-sphinx the build fails because of + a conflict to orig.tar.gz that could not yet be resolved. + * qiime still lacks a man page -The distribution set to contrib because of - * a build dependency to pynast from the cogent library that - incorporates some "free for academia only" code fragment. - * the strong suggest to use uclust that is not shipped with +The distribution is set to contrib because of + * the strong recommends to use uclust that is not shipped with Debian as a binary only package. + + +Disambiguation of versions in bio-linux, Debian and Ubuntu +---------------------------------------------------------- + +The conflict reports in the control file is originally indiciated against +bio-linux-qiime (<= bl1.1.x). The prefix "bl" is unfortunate since the +Debian packaging tools demand (and the Debian policy) demand the version +to start with a number, not a character. The version is now removed from +that indicated conflict. + +Depending on who was performing the last editing of the package, versions +are either specified with a suffix "-N", N numeric, for uploads to Debian, +or with the suffix "-ubuntuN". The changelog shall show the Ns to increase +and be reset for new upstream versions. This is yet slightly different +from the common practice to have the Ubuntu vesion keep the last Debian +version (or start a new one as 0) and have the version extended to +"NubuntuM" with M reset to 1 with every new Debian version. Either way +makes sense. The current approach indiciates better that some upload +to Debian may not yet have happened. + Modified: trunk/packages/qiime/trunk/debian/changelog =================================================================== --- trunk/packages/qiime/trunk/debian/changelog 2011-04-29 18:23:44 UTC (rev 6727) +++ trunk/packages/qiime/trunk/debian/changelog 2011-04-29 21:03:16 UTC (rev 6728) @@ -1,5 +1,6 @@ -qiime (1.2.1-1) UNRELEASED; urgency=low +qiime (1.2.1-6) experimental; urgency=low + [Andreas Tille] * Dropped cdbs in favour of dh * Debhelper 8 (compat+control) * Use debian/{install,dirs) to enable better readable debian/rules @@ -7,8 +8,12 @@ - override_dh_compress - override_dh_installchangelogs - -- Andreas Tille <[email protected]> Thu, 24 Mar 2011 22:39:55 +0100 + [Steffen Moeller] + * Updates to debian/README.Debian + * Policy updated to 3.9.2 + -- Steffen Moeller <[email protected]> Fri, 29 Apr 2011 22:56:37 +0200 + qiime (1.2.1-ubuntu5) lucid; urgency=low * Fixed silly error in qiime wrapper script Modified: trunk/packages/qiime/trunk/debian/control =================================================================== --- trunk/packages/qiime/trunk/debian/control 2011-04-29 18:23:44 UTC (rev 6727) +++ trunk/packages/qiime/trunk/debian/control 2011-04-29 21:03:16 UTC (rev 6728) @@ -2,9 +2,9 @@ Section: contrib/science Priority: extra Maintainer: Debian Med Packaging Team <[email protected]> -Uploaders: Sri Girish Srinivasa Murthy <[email protected]>, Steffen Moeller <[email protected]>, Tim Booth <[email protected]> +Uploaders: Steffen Moeller <[email protected]>, Tim Booth <[email protected]> Build-Depends: debhelper (>= 8), python, python-central, python-cogent, python-numpy, python-matplotlib -Standards-Version: 3.9.1 +Standards-Version: 3.9.2 Homepage: http://qiime.sourceforge.net/ Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/qiime/trunk/?rev=0&sc=0 Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/qiime/trunk/ @@ -15,7 +15,7 @@ Depends: ${shlibs:Depends}, ${misc:Depends}, ${misc:Depends}, ${python:Depends}, python-pynast, python-cogent ( >= 1.5 ) Recommends: blast2, cd-hit, denoiser, rdp-classifier, chimeraslayer, muscle, infernal, fasttree Suggests: t-coffee, cytoscape -Conflicts: bio-linux-qiime (<= bl1.1.x) +Conflicts: bio-linux-qiime XB-Python-Version: ${python:Versions} Description: Quantitative Insights Into Microbial Ecology QIIME (canonically pronounced ‘Chime’) is a pipeline for performing _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/debian-med-commit
