Andreas Tille pushed to branch master at Debian Med / mothur
Commits: 69b1e0ff by Andreas Tille at 2018-09-14T08:26:43Z Droping MPI support from Debian package - - - - - f7069afa by Andreas Tille at 2018-09-14T08:27:52Z Remove Tim Booth from Uploaders - - - - - 9e262bd3 by Andreas Tille at 2018-09-14T08:28:35Z Drop unneeded get-orig-source target - - - - - 65fab91b by Andreas Tille at 2018-09-14T08:29:24Z Standards-Version: 4.2.1 - - - - - 6 changed files: - debian/README.Source - debian/changelog - debian/control - − debian/mothur-mpi.install - − debian/mothur-mpi.links - debian/rules Changes: ===================================== debian/README.Source ===================================== @@ -1,3 +1,6 @@ +Mothur for Debian +================= + Hints for using ccache with mothur build ----------------------------------------- @@ -18,3 +21,20 @@ but note MPICXX which is hooking into the MPI compiler, which is not replaced by ccache. -- Tomasz Buchert <[email protected]>, Fri, 4 Sep 2015 10:28:58 +0200 + + + +The MPI version was droped upstream +----------------------------------- + +commit 1e5f8e2927fca338e659621ac24cd9166705c3a2 refs/tags/v1.37.0 +Author: Sarah Westcott <[email protected]> +Date: Wed Aug 19 12:16:49 2015 -0400 + + Removes MPI source code + + Issue #144 + + The MPI version is slower and requires dual maintenance. No advantage to keeping it. + + -- Andreas Tille <[email protected]> Fri, 14 Sep 2018 10:01:35 +0200 ===================================== debian/changelog ===================================== @@ -1,3 +1,16 @@ +mothur (1.40.5-2) UNRELEASED; urgency=medium + + * Upstream droped MPI support since it is slower and requires dual + maintenance (see README.Debian) Thus droping MPI support from + Debian package + CLoses: #908786 + * Remove Tim Booth from Uploaders (Tim, thanks for your work on this + package) + * Drop unneeded get-orig-source target + * Standards-Version: 4.2.1 + + -- Andreas Tille <[email protected]> Fri, 14 Sep 2018 10:01:35 +0200 + mothur (1.40.5-1) unstable; urgency=medium * New upstream version 1.40.5 ===================================== debian/control ===================================== @@ -2,7 +2,6 @@ Source: mothur Maintainer: Debian Med Packaging Team <[email protected]> Uploaders: Steffen Moeller <[email protected]>, Andreas Tille <[email protected]>, - Tim Booth <[email protected]>, Tomasz Buchert <[email protected]> Section: science Priority: optional @@ -12,14 +11,15 @@ Build-Depends: debhelper (>= 11), libopenmpi-dev, libreadline-dev, zlib1g-dev -Standards-Version: 3.9.8 +Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/mothur Vcs-Git: https://salsa.debian.org/med-team/mothur.git Homepage: http://www.mothur.org Package: mothur Architecture: any -Depends: ${misc:Depends}, ${shlibs:Depends} +Depends: ${misc:Depends}, + ${shlibs:Depends} Conflicts: uchime Provides: uchime Description: sequence analysis suite for research on microbiota @@ -29,18 +29,3 @@ Description: sequence analysis suite for research on microbiota treeclimber, s-libshuff, unifrac, and much more. In addition to improving the flexibility of these algorithms, a number of other features including calculators and visualization tools were added. - -Package: mothur-mpi -Architecture: any -Depends: mothur, openmpi-bin, ${misc:Depends}, ${shlibs:Depends} -Description: mpi-enabled binary for mothur - Mothur seeks to develop a single piece of open-source, expandable - software to fill the bioinformatics needs of the microbial ecology - community. It has incorporated the functionality of dotur, sons, - treeclimber, s-libshuff, unifrac, and much more. In addition to improving - the flexibility of these algorithms, a number of other features including - calculators and visualization tools were added. - . - Provides the MPI-enabled binary for Mothur - This is recommended for operations like shhh.flows which will be - very slow on a single processor. ===================================== debian/mothur-mpi.install deleted ===================================== @@ -1 +0,0 @@ -mothur-mpi /usr/bin ===================================== debian/mothur-mpi.links deleted ===================================== @@ -1 +0,0 @@ -usr/share/man/man1/mothur.1.gz usr/share/man/man1/mothur-mpi.1.gz ===================================== debian/rules ===================================== @@ -19,20 +19,13 @@ export DEB_BUILD_MAINT_OPTIONS = hardening=+all dh $@ override_dh_auto_build: - dh_auto_build -- 64BIT_VERSION=$(64BIT_VERSION) USEMPI=yes - mv mothur mothur-mpi - make clean - dh_auto_build -- 64BIT_VERSION=$(64BIT_VERSION) USEMPI=no - # cp mothur mothur-mpi # XXX: debug + dh_auto_build -- 64BIT_VERSION=$(64BIT_VERSION) override_dh_auto_install: true #Cleaning needs help right now override_dh_auto_clean: - rm -f mothur mothur-mpi + rm -f mothur make clean ( cd source/uchime_src && rm -f *.o mk.stdout mk.stderr tmp.stderr ) - -get-orig-source: - uscan --verbose --force-download View it on GitLab: https://salsa.debian.org/med-team/mothur/compare/0362eeda494d593e077494c462ae6f375e111e1c...65fab91b8abb7a82d2d5e720bf41dbae2c11456f -- View it on GitLab: https://salsa.debian.org/med-team/mothur/compare/0362eeda494d593e077494c462ae6f375e111e1c...65fab91b8abb7a82d2d5e720bf41dbae2c11456f You're receiving this email because of your account on salsa.debian.org.
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