diff -Nru soapaligner-2.20/debian/changelog soapaligner-2.20/debian/changelog --- soapaligner-2.20/debian/changelog 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/changelog 2020-04-17 09:45:00.000000000 +0000 @@ -1,3 +1,20 @@ +soapaligner (2.20-4) unstable; urgency=medium + + * Team upload. + * Homepage has vanished - point to web archive to reflect this + * Deactivated watch file + * Standards-Version: 4.5.0 (routine-update) + * debhelper-compat 12 (routine-update) + * Remove trailing whitespace in debian/control (routine-update) + * Remove trailing whitespace in debian/rules (routine-update) + * Add salsa-ci file (routine-update) + * Rules-Requires-Root: no (routine-update) + * Set field Upstream-Contact in debian/copyright. + * Remove obsolete field Contact from debian/upstream/metadata (already + present in machine-readable debian/copyright). + + -- Andreas Tille Fri, 17 Apr 2020 11:45:00 +0200 + soapaligner (2.20-3) unstable; urgency=medium * Team upload. diff -Nru soapaligner-2.20/debian/compat soapaligner-2.20/debian/compat --- soapaligner-2.20/debian/compat 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/compat 1970-01-01 00:00:00.000000000 +0000 @@ -1 +0,0 @@ -11 diff -Nru soapaligner-2.20/debian/control soapaligner-2.20/debian/control --- soapaligner-2.20/debian/control 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/control 2020-04-17 09:45:00.000000000 +0000 @@ -3,11 +3,12 @@ Uploaders: Steffen Moeller Section: science Priority: optional -Build-Depends: debhelper (>= 11~) -Standards-Version: 4.1.4 +Build-Depends: debhelper-compat (= 12) +Standards-Version: 4.5.0 Vcs-Browser: https://salsa.debian.org/med-team/soapaligner Vcs-Git: https://salsa.debian.org/med-team/soapaligner.git -Homepage: http://soap.genomics.org.cn/soapaligner.html +Homepage: https://web.archive.org/web/20190127081222/http://soap.genomics.org.cn/soapaligner.html +Rules-Requires-Root: no Package: soapaligner Architecture: any-amd64 x32 @@ -15,7 +16,7 @@ ${misc:Depends} Description: aligner of short reads of next generation sequencers This package addresses a common problem in bioinformatics that has - become routine now also in clinical research: the assembly and + become routine now also in clinical research: the assembly and comparison of the very long genomic DNA sequences from many short reads that the machines provide. . diff -Nru soapaligner-2.20/debian/copyright soapaligner-2.20/debian/copyright --- soapaligner-2.20/debian/copyright 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/copyright 2020-04-17 09:45:00.000000000 +0000 @@ -1,6 +1,7 @@ Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: SOAPaligner Source: http://soap.genomics.org.cn/soapaligner.html +Upstream-Contact: soap@genomics.org.cn Files: * Copyright: 2004 Wong Chi Kwong diff -Nru soapaligner-2.20/debian/README.Debian soapaligner-2.20/debian/README.Debian --- soapaligner-2.20/debian/README.Debian 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/README.Debian 2020-04-17 09:45:00.000000000 +0000 @@ -1,6 +1,12 @@ soap2 for Debian ---------------- -The authors of this package demand the amd64 platform. +Upstream site vanished. Last seen on web archive - -- Steffen Moeller Sat, 21 Apr 2012 22:45:08 +0200 + https://web.archive.org/web/20190127081222/http://soap.genomics.org.cn/soapaligner.html + +The latest upstream version + Release 2.21 , 02-14-2011 +was only in binary form and can not be packaged. + + -- Andreas Tille Fri, 17 Apr 2020 11:38:18 +0200 diff -Nru soapaligner-2.20/debian/rules soapaligner-2.20/debian/rules --- soapaligner-2.20/debian/rules 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/rules 2020-04-17 09:45:00.000000000 +0000 @@ -11,4 +11,4 @@ export LDFLAGS:=-Wl,-flto $(shell dpkg-buildflags --get LDFLAGS) %: - dh $@ + dh $@ diff -Nru soapaligner-2.20/debian/salsa-ci.yml soapaligner-2.20/debian/salsa-ci.yml --- soapaligner-2.20/debian/salsa-ci.yml 1970-01-01 00:00:00.000000000 +0000 +++ soapaligner-2.20/debian/salsa-ci.yml 2020-04-17 09:45:00.000000000 +0000 @@ -0,0 +1,4 @@ +--- +include: + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/salsa-ci.yml + - https://salsa.debian.org/salsa-ci-team/pipeline/raw/master/pipeline-jobs.yml diff -Nru soapaligner-2.20/debian/upstream/metadata soapaligner-2.20/debian/upstream/metadata --- soapaligner-2.20/debian/upstream/metadata 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/upstream/metadata 2020-04-17 09:45:00.000000000 +0000 @@ -1,4 +1,3 @@ -Contact: soap@genomics.org.cn Reference: DOI: 10.1093/bioinformatics/btn025 Eprint: http://bioinformatics.oxfordjournals.org/content/24/5/713.full.pdf+html @@ -16,5 +15,7 @@ Entry: OMICS_00688 - Name: SciCrunch Entry: SCR_005503 + - Name: conda:bioconda + Entry: soapaligner - Name: bio.tools - Entry: SOAPaligner + Entry: soap2 diff -Nru soapaligner-2.20/debian/watch soapaligner-2.20/debian/watch --- soapaligner-2.20/debian/watch 2018-07-05 11:51:03.000000000 +0000 +++ soapaligner-2.20/debian/watch 2020-04-17 09:45:00.000000000 +0000 @@ -1,3 +1,7 @@ version=4 -http://soap.genomics.org.cn/soapaligner.html down/SOAPaligner-v(\d[.\d]+)-src.tar.gz +# Upstream site vanished +opts=dversionmangle=s/.*/0.No-Site/ \ + https://people.debian.org/~eriberto/ FakeWatchNoUpstreamSiteForThisPackage-(\d\S+)\.gz + +# http://soap.genomics.org.cn/soapaligner.html down/SOAPaligner-v(\d[.\d]+)-src.tar.gz