From f3794fe3e9564deaa08fc977287bb0fa65da110d Mon Sep 17 00:00:00 2001
From: "Luis M. Rodriguez-R" <lmrodriguezr@gmail.com>
Date: Wed, 24 Jan 2024 14:30:50 +0100
Subject: [PATCH] Minor adjustments for large NCBI lists

---
 lib/miga/cli/action/download/ncbi.rb | 2 +-
 lib/miga/json.rb                     | 7 +++++++
 lib/miga/project/dataset.rb          | 2 +-
 lib/miga/version.rb                  | 4 ++--
 4 files changed, 11 insertions(+), 4 deletions(-)

diff --git a/lib/miga/cli/action/download/ncbi.rb b/lib/miga/cli/action/download/ncbi.rb
index 60c2de7..0e08e30 100644
--- a/lib/miga/cli/action/download/ncbi.rb
+++ b/lib/miga/cli/action/download/ncbi.rb
@@ -79,7 +79,7 @@ def remote_list
 
     if cli[:ncbi_list_json]
       cli.say "Saving remote list: #{cli[:ncbi_list_json]}"
-      MiGA::Json.generate_plain(list, cli[:ncbi_list_json])
+      MiGA::Json.generate_fast(list, cli[:ncbi_list_json])
     end
 
     list
diff --git a/lib/miga/json.rb b/lib/miga/json.rb
index a4fe9db..ee3f0e9 100644
--- a/lib/miga/json.rb
+++ b/lib/miga/json.rb
@@ -75,6 +75,13 @@ def generate_plain(obj, path = nil)
       generate_generic(:generate, obj, path)
     end
 
+    ##
+    # Generates and returns plain JSON to represent +obj+ without checking for
+    # circular references. If +path+ is passed, it saves the JSON in that file.
+    def generate_fast(obj, path = nil)
+      generate_generic(:fast_generate, obj, path)
+    end
+
     private
 
     def generate_generic(method, obj, path)
diff --git a/lib/miga/project/dataset.rb b/lib/miga/project/dataset.rb
index 7465ba5..eb42e7f 100644
--- a/lib/miga/project/dataset.rb
+++ b/lib/miga/project/dataset.rb
@@ -26,7 +26,7 @@ def dataset_names_hash
   ##
   # Returns MiGA::Dataset
   def dataset(name)
-    name = name.miga_name
+    name = name.to_s.miga_name
     return nil unless MiGA::Dataset.exist?(self, name)
 
     @datasets ||= {}
diff --git a/lib/miga/version.rb b/lib/miga/version.rb
index 6cf8cd8..d842648 100644
--- a/lib/miga/version.rb
+++ b/lib/miga/version.rb
@@ -12,7 +12,7 @@ module MiGA
   # - String indicating release status:
   #   - rc* release candidate, not released as gem
   #   - [0-9]+ stable release, released as gem
-  VERSION = [1.3, 9, 5].freeze
+  VERSION = [1.3, 9, 6].freeze
 
   ##
   # Nickname for the current major.minor version.
@@ -20,7 +20,7 @@ module MiGA
 
   ##
   # Date of the current gem relese.
-  VERSION_DATE = Date.new(2024, 1, 23)
+  VERSION_DATE = Date.new(2024, 1, 24)
 
   ##
   # References of MiGA