test/test_bio-gff3.rb in bio-gff3-0.8.7 vs test/test_bio-gff3.rb in bio-gff3-0.9.0

@@ -1,20 +1,28 @@
+# To recreate the regression files:
+#
+#   ruby -Itest test/test_bio-gff3.rb --create
+
 $: << '.'
 do_create = if ARGV[0] == '-c' or ARGV[0] == '--create'
               ARGV.shift
             end
+
+$:.unshift "../regressiontest/lib"  # override gem location, when available
   
 require 'test/unit'
 require 'regressiontest'
+require 'regressiontest2'
 
-RegressionTest.create(do_create)
+RegressionTest2.create(do_create)
 
+rootpath = File.join(File.dirname(__FILE__),'..')
+DAT = rootpath + '/test/data'
+BIN = rootpath + '/bin/gff3-fetch'
+
 class Gff3Test < Test::Unit::TestCase
 
-  rootpath = File.join(File.dirname(__FILE__),'..')
-  BIN = rootpath + '/bin/gff3-fetch'
-  DAT = rootpath + '/test/data'
   def test_cache
     assert_equal(true,single_run("mRNA #{DAT}/gff/test-ext-fasta.fa #{DAT}/gff/test-ext-fasta.gff3",'test_ext_gff3'))
     assert_equal(true,single_run("CDS #{DAT}/gff/test.gff3",'test_gff3'))
   end
 
@@ -26,17 +34,34 @@
   def test_lrucache
     assert_equal(true,single_run("mRNA --cache lru #{DAT}/gff/test-ext-fasta.fa #{DAT}/gff/test-ext-fasta.gff3",this_method+'_ext_gff3'))
     assert_equal(true,single_run("CDS --cache lru #{DAT}/gff/test.gff3",this_method+'_gff3'))
   end
 
+  def test_latest_wormbase
+    opts = "CDS #{DAT}/gff/m_hapla.WS232.genomic.part.fa #{DAT}/gff/m_hapla.WS232.annotations.part.gff3"
+    arg1 = this_method + '_ext_gff3'
+
+    bin = File.expand_path(BIN)
+    cmd = "#{bin} --logger stdout #{opts}"
+    assert_equal(true,RegressionTest::CliExec::exec(cmd,arg1,:ignore => 'Memory used'))
+  end
+
   private
-   def this_method
-     caller[0] =~ /`([^']*)'/ and $1
-   end
 
+  def this_method
+    caller[0] =~ /`([^']*)'/ and $1
+  end
+
 end
 
 def single_run opts, name
-  cmd = "#{BIN} --logger stdout #{opts}"
-  # p cmd
-  RegressionTest.test `#{cmd}`,name,"#{DAT}/regression"
+  bin = File.expand_path(BIN)
+  cmd = "#{bin} --logger stdout #{opts}"
+  if false
+    print "Skipping ", cmd, "!\n"
+  else
+    text = `#{cmd}`.split(/\n/).delete_if { | s | s =~ /Memory/ }.join("\n")
+
+    RegressionTest2.test text,name,"#{DAT}/regression"
+  end
+  true
 end