Merge pull request #54 from jemten/header_fix

Parsing multiple filters

Author: J35P312

setup.py

@@ -19,7 +19,7 @@
     ext_modules = []
 
 setup(name='svdb',
-      version='2.6.3',
+      version='2.6.4',
       url="https://github.com/J35P312/SVDB",
       author="Jesper Eisfeldt",
       author_email="jesper.eisfeldt@scilifelab.se",

svdb/__main__.py

@@ -38,7 +38,7 @@ def make_query_calls (args, queries, keyword):
         query_module.main(args)
 
 def main():
-    version = "2.6.3"
+    version = "2.6.4"
     parser = argparse.ArgumentParser(
         """SVDB-{}, use the build module to construct databases, use the query module to query the database usign vcf files, or use the hist module to generate histograms""".format(version), add_help=False)
     parser.add_argument('--build', help="create a db",

svdb/merge_vcf_module_cython.py

@@ -346,7 +346,7 @@ def merge(variants, samples, sample_order, sample_print_order, priority_order, a
                 line[7]+=";{}_QUAL={}".format(tag,",".join(qual_tag[tag]))
             #add filter of all merged variants
             for tag in filters_tag:
-                line[7]+=";{}_FILTERS={}".format(tag,",".join(filters_tag[tag]))
+                line[7]+=";{}_FILTERS={}".format(tag,",".join(filters_tag[tag]).replace(";",","))
             #add samples information for all merged variants
             for tag in samples_tag:
                 line[7]+=";{}_SAMPLE={}".format(tag,",".join(samples_tag[tag]))