Commit 620c9401 authored by Michael R. Crusoe's avatar Michael R. Crusoe 🏳️‍🌈
Browse files

New upstream version 1.7.6

parent 4a95407e

Changes

+9 −0
Original line number Diff line number Diff line 
Summary of important user-visible changes for Bio-DB-NCBIHelper

---------------------------------------------------------------



1.7.6     2019-12-07 16:11:22-06:00 America/Chicago

  * Requires Bio::DB::WebDBSeqI v1.7.7



1.7.5     2019-11-29 16:55:33-06:00 America/Chicago

  * Explicitly add Bio::SeqIO::entrezgene and LWP::Protocol::https as dependencies

  * Actually get '-email' to work which requires overriding get_seq_stream

  * Fix remaining delay settings in tests which are causing issues during peak

    NCBI times



1.7.4     2019-03-10 21:29:52-05:00 America/Chicago

  * Switch away from Bio::Root::Test

  * Add '-email' parameter, which allows lower delay interval at NCBI (currently

META.json

+16 −3
Original line number Diff line number Diff line
@@ -30,18 +30,20 @@ 
      },

      "runtime" : {

         "requires" : {

            "Bio::DB::Query::WebQuery" : "0",

            "Bio::DB::Query::WebQuery" : "v1.7.7",

            "Bio::DB::Taxonomy" : "0",

            "Bio::DB::WebDBSeqI" : "0",

            "Bio::Root::IO" : "0",

            "Bio::Root::Root" : "0",

            "Bio::SeqIO" : "0",

            "Bio::SeqIO::entrezgene" : "0",

            "Bio::Taxon" : "0",

            "Bio::WebAgent" : "0",

            "CGI" : "0",

            "Cache::FileCache" : "0",

            "Getopt::Long" : "0",

            "HTTP::Request::Common" : "0",

            "LWP::Protocol::https" : "0",

            "LWP::UserAgent" : "0",

            "URI" : "0",

            "URI::Escape" : "0",
@@ -79,7 +81,7 @@ 
         "web" : "https://github.com/bioperl/bio-db-ncbihelper"

      }

   },

   "version" : "1.7.4",

   "version" : "1.7.6",

   "x_Dist_Zilla" : {

      "perl" : {

         "version" : "5.028001"
@@ -294,7 +296,7 @@ 
                  "branch" : null,

                  "changelog" : "Changes",

                  "signed" : 0,

                  "tag" : "Bio-DB-NCBIHelper-v1.7.4",

                  "tag" : "Bio-DB-NCBIHelper-v1.7.6",

                  "tag_format" : "%N-v%v",

                  "tag_message" : "%N-v%v"

               },
@@ -309,6 +311,17 @@ 
            "name" : "@BioPerl/Git::Tag",

            "version" : "2.045"

         },

         {

            "class" : "Dist::Zilla::Plugin::Prereqs",

            "config" : {

               "Dist::Zilla::Plugin::Prereqs" : {

                  "phase" : "runtime",

                  "type" : "requires"

               }

            },

            "name" : "Prereqs",

            "version" : "6.012"

         },

         {

            "class" : "Dist::Zilla::Plugin::FinderCode",

            "name" : ":InstallModules",

META.yml

+13 −3
Original line number Diff line number Diff line
@@ -24,18 +24,20 @@ meta-spec: 
  version: '1.4'

name: Bio-DB-NCBIHelper

requires:

  Bio::DB::Query::WebQuery: '0'

  Bio::DB::Query::WebQuery: v1.7.7

  Bio::DB::Taxonomy: '0'

  Bio::DB::WebDBSeqI: '0'

  Bio::Root::IO: '0'

  Bio::Root::Root: '0'

  Bio::SeqIO: '0'

  Bio::SeqIO::entrezgene: '0'

  Bio::Taxon: '0'

  Bio::WebAgent: '0'

  CGI: '0'

  Cache::FileCache: '0'

  Getopt::Long: '0'

  HTTP::Request::Common: '0'

  LWP::Protocol::https: '0'

  LWP::UserAgent: '0'

  URI: '0'

  URI::Escape: '0'
@@ -49,7 +51,7 @@ resources: 
  bugtracker: https://github.com/bioperl/bio-db-ncbihelper/issues

  homepage: https://metacpan.org/release/Bio-DB-NCBIHelper

  repository: git://github.com/bioperl/bio-db-ncbihelper.git

version: 1.7.4

version: 1.7.6

x_Dist_Zilla:

  perl:

    version: '5.028001'
@@ -218,7 +220,7 @@ x_Dist_Zilla: 
          branch: ~

          changelog: Changes

          signed: 0

          tag: Bio-DB-NCBIHelper-v1.7.4

          tag: Bio-DB-NCBIHelper-v1.7.6

          tag_format: '%N-v%v'

          tag_message: '%N-v%v'

        Dist::Zilla::Role::Git::Repo:
@@ -228,6 +230,14 @@ x_Dist_Zilla: 
          time_zone: local

      name: '@BioPerl/Git::Tag'

      version: '2.045'

    -

      class: Dist::Zilla::Plugin::Prereqs

      config:

        Dist::Zilla::Plugin::Prereqs:

          phase: runtime

          type: requires

      name: Prereqs

      version: '6.012'

    -

      class: Dist::Zilla::Plugin::FinderCode

      name: ':InstallModules'

Makefile.PL

+7 −3
Original line number Diff line number Diff line
@@ -22,18 +22,20 @@ my %WriteMakefileArgs = ( 
  "MIN_PERL_VERSION" => "5.006",

  "NAME" => "Bio::DB::NCBIHelper",

  "PREREQ_PM" => {

    "Bio::DB::Query::WebQuery" => 0,

    "Bio::DB::Query::WebQuery" => "1.7.7",

    "Bio::DB::Taxonomy" => 0,

    "Bio::DB::WebDBSeqI" => 0,

    "Bio::Root::IO" => 0,

    "Bio::Root::Root" => 0,

    "Bio::SeqIO" => 0,

    "Bio::SeqIO::entrezgene" => 0,

    "Bio::Taxon" => 0,

    "Bio::WebAgent" => 0,

    "CGI" => 0,

    "Cache::FileCache" => 0,

    "Getopt::Long" => 0,

    "HTTP::Request::Common" => 0,

    "LWP::Protocol::https" => 0,

    "LWP::UserAgent" => 0,

    "URI" => 0,

    "URI::Escape" => 0,
@@ -53,7 +55,7 @@ my %WriteMakefileArgs = ( 
    "Test::Most" => 0,

    "Test::RequiresInternet" => 0

  },

  "VERSION" => "1.7.4",

  "VERSION" => "1.7.6",

  "test" => {

    "TESTS" => "t/*.t"

  }
@@ -61,12 +63,13 @@ my %WriteMakefileArgs = ( 




my %FallbackPrereqs = (

  "Bio::DB::Query::WebQuery" => 0,

  "Bio::DB::Query::WebQuery" => "1.7.7",

  "Bio::DB::Taxonomy" => 0,

  "Bio::DB::WebDBSeqI" => 0,

  "Bio::Root::IO" => 0,

  "Bio::Root::Root" => 0,

  "Bio::SeqIO" => 0,

  "Bio::SeqIO::entrezgene" => 0,

  "Bio::Taxon" => 0,

  "Bio::WebAgent" => 0,

  "CGI" => 0,
@@ -76,6 +79,7 @@ my %FallbackPrereqs = ( 
  "HTTP::Request::Common" => 0,

  "IO::Handle" => 0,

  "IPC::Open3" => 0,

  "LWP::Protocol::https" => 0,

  "LWP::UserAgent" => 0,

  "Test::Exception" => 0,

  "Test::More" => 0,

dist.ini

+6 −1
Original line number Diff line number Diff line 
name = Bio-DB-NCBIHelper

version = 1.7.4

version = 1.7.6

author = Aaron Mackey <amackey@virginia.edu>

author = Brian Osborne <bosborne@alum.mit.edu>

author = Jason Stajich <jason@bioperl.org>
@@ -13,3 +13,8 @@ license = Perl_5 
-remove = PodWeaver

-remove = Test::EOL

-remove = Test::NoTabs



[Prereqs]

Bio::DB::Query::WebQuery = 1.7.7

Bio::SeqIO::entrezgene = 0

LWP::Protocol::https = 0