Genome analyzer: proper parsing of sequence name from .txt annotation…

… file (similar to parsing gff, ncbi, bed)
ablab · Oct 22, 2018 · 4dab611 · 4dab611
1 parent 3ba03dc
commit 4dab611
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/quast_libs/genes_parser.py b/quast_libs/genes_parser.py
@@ -15,7 +15,7 @@
 from quast_libs.log import get_logger
 logger = get_logger(qconfig.LOGGER_DEFAULT_NAME)
 
-txt_pattern_gi = re.compile(r'gi\|(?P<id>\d+)\|\w+\|(?P<seqname>\S+)\|\s+(?P<gene_id>.+)\s+(?P<start>\d+)\s+(?P<end>\d+)$', re.I)
+txt_pattern_gi = re.compile(r'(?P<seqname>\S+)\s+(?P<gene_id>.+)\s+(?P<start>\d+)\s+(?P<end>\d+)$', re.I)
 
 txt_pattern = re.compile(r'(?P<seqname>\S+)\s+(?P<gene_id>.+)\s+(?P<start>\d+)\s+(?P<end>\d+)$', re.I)