.travis.yml

@@ -8,9 +8,9 @@ addons:
     - libgfortran3
     - libncurses5-dev
 python:
-  - "3.4"
+- '3.4'
 sudo: false
 install:
-  - "source ./install_dependencies.sh"
+- source ./install_dependencies.sh
 script:
-  - "python setup.py test"
+- python setup.py test

ariba/ref_genes_getter.py

@@ -41,7 +41,7 @@ class RefGenesGetter:
     def _get_card_versions(self, tmp_file):
         print('Getting available CARD versions')
         common.download_file('https://card.mcmaster.ca/download', tmp_file, max_attempts=self.max_download_attempts, sleep_time=self.sleep_time, verbose=True)
-        p = re.compile(r'''href="(/download/.*?broad.*?v([0-9]+\.[0-9]+\.[0-9]+)\.tar\.bz2)"''')
+        p = re.compile(r'''href="(/download/.*?broad.*?v([0-9]+\.[0-9]+\.[0-9]+)\.tar\.(gz|bz2))"''')
         versions = {}
 
         with open(tmp_file) as f:
@@ -481,4 +481,3 @@ class RefGenesGetter:
 
     def run(self, outprefix):
         exec('self._get_from_' + self.ref_db + '(outprefix)')
-

setup.py

@@ -55,7 +55,7 @@ vcfcall_mod = Extension(
 setup(
     ext_modules=[minimap_mod, fermilite_mod, vcfcall_mod],
     name='ariba',
-    version='2.11.0',
+    version='2.11.1',
     description='ARIBA: Antibiotic Resistance Identification By Assembly',
     packages = find_packages(),
     package_data={'ariba': ['test_run_data/*']},