diff RM_custom_search.py @ 11:16150c85fb3a draft

Uploaded

--- a/RM_custom_search.py	Mon Feb 03 06:44:58 2020 -0500
+++ b/RM_custom_search.py	Tue Feb 04 07:39:32 2020 -0500
@@ -19,7 +19,10 @@
         # extract only dirCLXXXX/reads.fas
         seq_list = []
         for filein in z.namelist():
-            if filein.lower().startswith("seqclust/clustering/clusters/dir_cl") and filein.endswith("reads.fas"):
+            c1 = filein.lower().startswith("seqclust/clustering/clusters/dir_cl")
+            c2 = filein.endswith("reads.fas")
+            c3 = filein.endswith("reads.fasta")  # in newer RE2 versions
+            if c1 and (c2 or c3):
                 outdir = filein.split("/")[3]
                 outfile = outdir +"/reads.fas"
                 source = z.open(filein)