cli_spec.rb in lederhosen-1.2.0

- old
+ new

@@ -22,10 +22,12 @@
     $?.success?.should be_true
   end
 
   it 'can cluster reads using usearch' do
     `./bin/lederhosen cluster --input #{$test_dir}/trimmed/ILT_L_9_B_001.fasta --database #{$test_dir}/test_db.udb --identity 0.95 --output #{$test_dir}/clusters.uc`
+    $?.success?.should be_true
+    File.exists?(File.join($test_dir, 'clusters.uc')).should be_true
   end
 
   it 'should build abundance matrices for each level' do
     levels = "domain phylum class order FAMILY genus Species"
     `./bin/lederhosen otu_table --files=spec/data/test.uc --prefix=#{$test_dir}/otu_table --levels=#{levels}`
@@ -43,9 +45,13 @@
   end
 
   it 'should split a fasta file into smaller fasta files (optionally gzipped)' do
     `./bin/lederhosen split_fasta --input=#{$test_dir}/trimmed/ILT_L_9_B_001.fasta --out-dir=#{$test_dir}/split/ --gzip true -n 100`
     $?.success?.should be_true
+  end
+
+  it 'should print representative sequences from uc files' do
+    `./bin/lederhosen get_reps --input=#{$test_dir}/clusters.uc --database=#{$test_dir}/trimmed/ILT_L_9_B_001.fasta --output=#{$test_dir}/representatives.fasta`
   end
 
   it 'should create a fasta file containing representative reads for each cluster'
 end