diff -Nru libgo-perl-0.15/debian/changelog libgo-perl-0.15/debian/changelog --- libgo-perl-0.15/debian/changelog 2016-07-14 08:17:36.000000000 +0000 +++ libgo-perl-0.15/debian/changelog 2016-07-17 16:14:55.000000000 +0000 @@ -1,3 +1,14 @@ +libgo-perl (0.15-4) unstable; urgency=medium + + * Team upload. + * add libyaml-perl to debian/control + * add GO/Handlers/obj_yaml.pm and GO/Parsers/obj_yaml_parser.pm to + debian/tests/pkg-perl/syntax-skip + * add Andreas Tille's spelling patch + * fixed remaining spelling warnings in man pages + + -- Tatiana Malygina Sat, 16 Jul 2016 06:08:20 +0300 + libgo-perl (0.15-3) unstable; urgency=medium [ Tatiana Malygina ] diff -Nru libgo-perl-0.15/debian/control libgo-perl-0.15/debian/control --- libgo-perl-0.15/debian/control 2016-07-14 07:42:08.000000000 +0000 +++ libgo-perl-0.15/debian/control 2016-07-16 16:36:47.000000000 +0000 @@ -24,7 +24,8 @@ Depends: ${perl:Depends}, ${misc:Depends}, libdata-stag-perl, - libgraphviz-perl + libgraphviz-perl, + libyaml-perl Recommends: libxml-libxml-perl, libxml-libxslt-perl, libxml-writer-perl, diff -Nru libgo-perl-0.15/debian/patches/series libgo-perl-0.15/debian/patches/series --- libgo-perl-0.15/debian/patches/series 2016-07-14 08:02:04.000000000 +0000 +++ libgo-perl-0.15/debian/patches/series 2016-07-17 15:47:22.000000000 +0000 @@ -4,3 +4,4 @@ fix_test_xsltproc fix_hash_in_go_io_dotty.patch spelling.patch +spelling2.patch diff -Nru libgo-perl-0.15/debian/patches/spelling2.patch libgo-perl-0.15/debian/patches/spelling2.patch --- libgo-perl-0.15/debian/patches/spelling2.patch 1970-01-01 00:00:00.000000000 +0000 +++ libgo-perl-0.15/debian/patches/spelling2.patch 2016-07-17 15:47:22.000000000 +0000 @@ -0,0 +1,132 @@ +Author: Tatiana Malygina +Last-Update: 2016-07-17 +Description: fixes remaining spelling warnings in man pages + +--- a/GO/Model/Evidence.pm ++++ b/GO/Model/Evidence.pm +@@ -246,7 +246,7 @@ + Returns - + Args - + +-deprected - sets first pub_xref_list ++deprecated - sets first pub_xref_list + + =cut + +--- a/GO/Model/GeneProduct.pm ++++ b/GO/Model/GeneProduct.pm +@@ -16,7 +16,7 @@ + =head1 DESCRIPTION + + represents a gene product in a particular species (this will +-effectively always be refered to implicitly by the gene symbol even ++effectively always be referred to implicitly by the gene symbol even + though a gene may have >1 product) + + =cut +--- a/GO/Model/GraphIterator.pm ++++ b/GO/Model/GraphIterator.pm +@@ -86,7 +86,7 @@ + Returns - bool + Args - bool + +-set this if you dont want relationships to be traversed twice; ++set this if you don't want relationships to be traversed twice; + this gives a more compact tree representation of the graph + + =cut +@@ -100,7 +100,7 @@ + by default, all relationship types are treated as transitive, and will + be traversed by the iterator + +-sometimes you dont want to traverse all relations, even if they are ++sometimes you don't want to traverse all relations, even if they are + transitive. For example, when answering the query "find all genes + expressed in the embryo" you way want subtypes of embryo and parts of + the embryo but not things that develop_from the embryo. +--- a/GO/Model/Root.pm ++++ b/GO/Model/Root.pm +@@ -315,7 +315,7 @@ + $name =~ s/.*://; # strip fully-qualified portion + + if ($name eq "DESTROY") { +- # we dont want to propagate this!! ++ # we don't want to propagate this!! + return; + } + +--- a/GO/Model/Seq.pm ++++ b/GO/Model/Seq.pm +@@ -185,7 +185,7 @@ + $name =~ s/.*://; # strip fully-qualified portion + + if ($name eq "DESTROY") { +- # we dont want to propagate this!! ++ # we don't want to propagate this!! + return; + } + +--- a/GO/Model/Species.pm ++++ b/GO/Model/Species.pm +@@ -16,7 +16,7 @@ + =head1 DESCRIPTION + + represents a gene product in a particular species (this will +-effectively always be refered to implicitly by the gene symbol even ++effectively always be referred to implicitly by the gene symbol even + though a gene may have >1 product) + + =cut +@@ -51,4 +51,3 @@ + my $self = shift; + return ($self->genus || "")." ".($self->species || ""); + } +- +--- a/GO/Model/Term.pm ++++ b/GO/Model/Term.pm +@@ -685,10 +685,10 @@ + $as2->gene_product->symbol; + } + elsif ($sortk eq "ev_code") { +- confess("cant sort on evcode yet"); ++ confess("can't sort on ev_code yet"); + } + else { +- confess("dont know $sortk"); ++ confess("don't know $sortk"); + } + } + $cmp; +--- a/GO/Model/Xref.pm ++++ b/GO/Model/Xref.pm +@@ -184,7 +184,7 @@ + Returns - string + Args - indent [integer] + +-XML representation; you probably shouldnt call this directly, this ++XML representation; you probably shouldn't call this directly, this + will be called by entities that own xrefs + + =cut +--- a/GO/Parser.pm ++++ b/GO/Parser.pm +@@ -246,7 +246,7 @@ + + the advantage of an event based parsing architecture is that it is + easy to build lightweight parsers, and heavy weight object models can +-be bypassed if prefered. ++be bypassed if preferred. + + =head2 EXAMPLES + +--- a/go-perl.pod ++++ b/go-perl.pod +@@ -30,7 +30,7 @@ + =head1 DESCRIPTION + + go-perl is part of the go-dev code distribution. It is also available +-as a seperate library in its own right. ++as a separate library in its own right. + + go-perl is a collection of perl modules for working with ontologies + and data, in particular the Gene Ontology and other Open diff -Nru libgo-perl-0.15/debian/tests/pkg-perl/syntax-skip libgo-perl-0.15/debian/tests/pkg-perl/syntax-skip --- libgo-perl-0.15/debian/tests/pkg-perl/syntax-skip 2016-07-14 07:42:08.000000000 +0000 +++ libgo-perl-0.15/debian/tests/pkg-perl/syntax-skip 2016-07-16 16:36:47.000000000 +0000 @@ -1,3 +1,5 @@ GO/Model/Seq.pm GO/Model/GeneProduct.pm GO/Metadata/Panther.pm +GO/Handlers/obj_yaml.pm +GO/Parsers/obj_yaml_parser.pm