Updated the function submit_query_input_in_chunks, but reducing the number of initial jobs, the default slice length, and adding an if block to control the submission of the first batch of jobs

Gemfile.lock

@@ -1,43 +1,45 @@
 GEM
   remote: https://rubygems.org/
   specs:
-    activemodel (4.2.6)
+    activemodel (5.1.3)
-      activesupport (= 4.2.6)
+      activesupport (= 5.1.3)
+    activemodel-serializers-xml (1.0.2)
+      activemodel (> 5.x)
+      activesupport (> 5.x)
       builder (~> 3.1)
-    activeresource (4.1.0)
+    activeresource (5.0.0)
-      activemodel (~> 4.0)
+      activemodel (>= 5.0, < 6)
-      activesupport (~> 4.0)
+      activemodel-serializers-xml (~> 1.0)
-      rails-observers (~> 0.1.2)
+      activesupport (>= 5.0, < 6)
-    activesupport (4.2.6)
+    activesupport (5.1.3)
+      concurrent-ruby (~> 1.0, >= 1.0.2)
       i18n (~> 0.7)
-      json (~> 1.7, >= 1.7.7)
       minitest (~> 5.1)
-      thread_safe (~> 0.3, >= 0.3.4)
       tzinfo (~> 1.1)
-    builder (3.2.2)
+    builder (3.2.3)
-    domain_name (0.5.20160309)
+    concurrent-ruby (1.0.5)
+    domain_name (0.5.20170404)
       unf (>= 0.0.5, < 1.0.0)
-    http-cookie (1.0.2)
+    http-cookie (1.0.3)
       domain_name (~> 0.5)
-    i18n (0.7.0)
+    i18n (0.8.6)
-    json (1.8.3)
+    mime-types (3.1)
-    mime-types (2.99.1)
+      mime-types-data (~> 3.2015)
-    minitest (5.9.0)
+    mime-types-data (3.2016.0521)
+    minitest (5.10.3)
     netrc (0.11.0)
     openbabel (2.3.2.2)
-    rails-observers (0.1.2)
+    rest-client (2.0.2)
-      activemodel (~> 4.0)
-    rest-client (1.8.0)
       http-cookie (>= 1.0.2, < 2.0)
-      mime-types (>= 1.16, < 3.0)
+      mime-types (>= 1.16, < 4.0)
-      netrc (~> 0.7)
+      netrc (~> 0.8)
-    thread_safe (0.3.5)
+    thread_safe (0.3.6)
-    tzinfo (1.2.2)
+    tzinfo (1.2.3)
       thread_safe (~> 0.1)
     unf (0.1.4)
       unf_ext
-    unf_ext (0.0.7.2)
+    unf_ext (0.0.7.4)
-    yard (0.8.7.6)
+    yard (0.9.9)
 
 PLATFORMS
   ruby
@@ -49,4 +51,4 @@ DEPENDENCIES
   yard
 
 BUNDLED WITH
-   1.11.2
+   1.14.6

lib/classyfire_api.rb

@@ -215,7 +215,7 @@ module ClassyFireAPI
       k = 0
       for k in (i...(i + initial_nr_of_jobs))
         title     = File.basename(absolute_path).split(".")[0] + "_yannick" + "_part_#{k}"
-        i = i + 1
+
         begin
           puts "submitting #{title}"
           q = submit_query(title,subdivised_groups[k-1].join("\n"),type)
@@ -226,6 +226,7 @@ module ClassyFireAPI
           puts e.message
           puts e.backtrace.inspect
         end
+        i = i + 1
       end
       i = k
       puts "Going to sleep at #{Time.now - @start_time} for #{sleeping_time} s."