fixing issue with ref_free_consensus / contig name splitting

Author: azufre451

cmseq/__init__.py

@@ -1,2 +1,3 @@
 from .cmseq import CMSEQ_DEFAULTS
 from .cmseq import BamFile
+from .cmseq import BamContig

cmseq/cmseq.py

@@ -172,7 +172,7 @@ def _parallel_consensus_worker(contigName):
 
 		if not terminating.is_set():
 			try:
-				t=BamFile(consensus_bamFile,filterInputList=contigName)
+				t=BamFile(consensus_bamFile,filterInputList=[contigName])
 				return (contigName,t.get_contig_by_label(contigName).reference_free_consensus(**consensus_args))
 			except Exception as e:
 				terminating.set()

setup.py

@@ -6,7 +6,7 @@
 install_requires = ["numpy", "scipy", "pysam", "pandas", "biopython", "bcbio-gff"]
 setuptools.setup(
     name='CMSeq',
-    version='1.0.3',
+    version='1.0.4',
     author='Moreno Zolfo',
     author_email='moreno.zolfo@unitn.it',
     url='http://github.com/SegataLab/cmseq/',