blast execute + empty blast test template

test/test_tools_blast.py

@@ -0,0 +1,22 @@
+#!/usr/bin/env python
+
+__author__ = "hlevitin@broadinstitute.org"
+
+import unittest, os, sys, tempfile
+import util.file, tools.bwa
+
+class TestToolBlastN(unittest.TestCase) :
+
+    def setUp(self) :
+        util.file.set_tmpDir('TestToolBlastN')
+        self.blastn = tools.blast.BlastN()
+        self.blastn.install()
+
+    def tearDown(self) :
+        util.file.destroy_tmpDir()
+
+    def test_tool_blastn(self) :
+        pass
+
+if __name__ == '__main__':
+    unittest.main()

test/test_tools_bwa.py

@@ -1,5 +1,4 @@
 #!/usr/bin/env python
-# Unit tests for taxon_filter.py
 
 __author__ = "hlevitin@broadinstitute.org"
 

tools/blast.py

@@ -16,10 +16,7 @@ def get_url() :
     if uname[0] == 'Darwin' :
         osStr = 'universal-macosx'
     elif uname[0] == 'Linux' :
-        if uname[4].endswith('64') :
-            osStr = 'x64-linux'
-        else :
-            osStr = 'ia32-linux'
+        osStr = 'x64-linux' if uname[4].endswith('64') else 'ia32-linux'
     else :
         raise NotImplementedError('OS {} not implemented'.format(uname[0]))
     return '{}-{}.tar.gz'.format(URL_BASE, osStr)
@@ -70,7 +67,7 @@ def execute(self, options={}, option_string="", post_cmd=""):
             cmd))
         return os.system(cmd)
 
-class BlastnTool(BlastTools) :
+class BlastN(BlastTools) :
     subtoolName = 'blastn'