diff -Nru libbiod-0.1.0/debian/changelog libbiod-0.1.0/debian/changelog --- libbiod-0.1.0/debian/changelog 2018-03-21 00:02:40.000000000 +0000 +++ libbiod-0.1.0/debian/changelog 2018-09-14 09:57:42.000000000 +0000 @@ -1,8 +1,23 @@ -libbiod (0.1.0-5build1) bionic; urgency=medium +libbiod (0.1.0-6build2) cosmic; urgency=medium - * No-change rebuild for libphobos2-ldc soname change. + * Rebuild against new ldc81. - -- Matthias Klose Wed, 21 Mar 2018 08:02:40 +0800 + -- Gianfranco Costamagna Fri, 14 Sep 2018 11:57:42 +0200 + +libbiod (0.1.0-6build1) cosmic; urgency=medium + + * Rebuild against new ldc81. + + -- Gianfranco Costamagna Sun, 09 Sep 2018 14:16:28 +0200 + +libbiod (0.1.0-6) unstable; urgency=medium + + * Point Vcs fields to salsa.debian.org + * Standards-Version: 4.2.1 + * Cherry pick patch from upstream (thanks for the hint to Matthias Klumpp) + Closes: #907451 + + -- Andreas Tille Wed, 29 Aug 2018 20:38:20 +0200 libbiod (0.1.0-5) unstable; urgency=medium diff -Nru libbiod-0.1.0/debian/control libbiod-0.1.0/debian/control --- libbiod-0.1.0/debian/control 2018-03-20 08:53:09.000000000 +0000 +++ libbiod-0.1.0/debian/control 2018-08-29 18:38:20.000000000 +0000 @@ -7,11 +7,11 @@ dh-dlang, meson (>= 0.40), pkg-config, - libundead-dev (>= 1.0.9-2), + libundead-dev, zlib1g-dev -Standards-Version: 4.1.3 -Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/libbiod.git -Vcs-Git: https://anonscm.debian.org/git/debian-med/libbiod.git +Standards-Version: 4.2.1 +Vcs-Browser: https://salsa.debian.org/med-team/libbiod +Vcs-Git: https://salsa.debian.org/med-team/libbiod.git Homepage: https://github.com/biod/BioD Package: libbiod0 diff -Nru libbiod-0.1.0/debian/patches/0017_fix_expression_conversion.patch libbiod-0.1.0/debian/patches/0017_fix_expression_conversion.patch --- libbiod-0.1.0/debian/patches/0017_fix_expression_conversion.patch 1970-01-01 00:00:00.000000000 +0000 +++ libbiod-0.1.0/debian/patches/0017_fix_expression_conversion.patch 2018-08-29 18:38:20.000000000 +0000 @@ -0,0 +1,56 @@ +From: Pjotr Prins +Date: Sat, 28 Jul 2018 00:05:29 +0000 +Origin: https://github.com/biod/BioD/commit/dd07f3497979b5d7f32ad32476da5108ffc5121e +Bug-Debian: https://bugs.debian.org/907451 +Subject: [PATCH] Fixes: + +BioD/bio/maf/reader.d(53): Error: cannot implicitly convert expression `this._f.byLine(cast(Flag)true, '\x0a')` of type `ByLineImpl!(char, char)` to `ByLine!(char, char)` + +See https://github.com/bioconda/bioconda-recipes/pull/8787#issuecomment-389195848 +--- + bio/maf/reader.d | 9 +++++---- + 1 file changed, 5 insertions(+), 4 deletions(-) + +diff --git a/bio/maf/reader.d b/bio/maf/reader.d +index 708c5b3..c57decd 100644 +--- a/bio/maf/reader.d ++++ b/bio/maf/reader.d +@@ -1,6 +1,7 @@ + /* + This file is part of BioD. + Copyright (C) 2013 Artem Tarasov ++ Copyright (C) 2018 Pjotr Prins + + Permission is hereby granted, free of charge, to any person obtaining a + copy of this software and associated documentation files (the "Software"), +@@ -8,10 +9,10 @@ + the rights to use, copy, modify, merge, publish, distribute, sublicense, + and/or sell copies of the Software, and to permit persons to whom the + Software is furnished to do so, subject to the following conditions: +- ++ + The above copyright notice and this permission notice shall be included in + all copies or substantial portions of the Software. +- ++ + THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR + IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, + FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +@@ -50,7 +51,7 @@ struct MafBlockRange { + + this(string fn) { + _f = File(fn); +- _lines = _f.byLine(KeepTerminator.yes); ++ _lines = cast(LineRange)_f.byLine(KeepTerminator.yes); + skipHeader(); + popFront(); + } +@@ -85,7 +86,7 @@ struct MafBlockRange { + + /// + class MafReader { +- ++ + private string _fn; + + /// diff -Nru libbiod-0.1.0/debian/patches/series libbiod-0.1.0/debian/patches/series --- libbiod-0.1.0/debian/patches/series 2018-03-20 08:53:09.000000000 +0000 +++ libbiod-0.1.0/debian/patches/series 2018-08-29 18:38:20.000000000 +0000 @@ -12,3 +12,4 @@ 0014-Add-compareCoordinatesAndStrand-to-fix-sorting-test-.patch 0015-Add-Meson-build-definition.patch 0016-fix-type-conversion.patch +0017_fix_expression_conversion.patch diff -Nru libbiod-0.1.0/debian/upstream/metadata libbiod-0.1.0/debian/upstream/metadata --- libbiod-0.1.0/debian/upstream/metadata 1970-01-01 00:00:00.000000000 +0000 +++ libbiod-0.1.0/debian/upstream/metadata 2018-08-29 18:38:20.000000000 +0000 @@ -0,0 +1,8 @@ +Name: BioD +Registry: + - Name: OMICtools + Entry: OMICS_20057 + - Name: SciCrunch + Entry: NA + - Name: bio.tools + Entry: NA