Mercurial > repos > bornea > saint_preprocessing

changeset 36:bc9c7764cc2f draft

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Uploaded
author bornea
date Thu, 19 May 2016 10:25:05 -0400
parents 26cc583a4ae4
children f988db1d36dc
files SAINT_preprocessing_mq_pep.py
diffstat 1 files changed, 10 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/SAINT_preprocessing_mq_pep.py	Thu May 19 10:02:48 2016 -0400
+++ b/SAINT_preprocessing_mq_pep.py	Thu May 19 10:25:05 2016 -0400
@@ -253,6 +253,16 @@
     errors = []
     for e in err:
         errors.append(e[0])
+    for a in proteins:
+        a = a.replace("\n", "")
+        # Remove \n for input into function.
+        a = a.replace("\r", "")
+        # Ditto for \r.
+        seq = get_info(a).seqlength
+        GN = get_info(a).genename
+        if seq != 'NA':
+            if GN != 'NA':
+                erros.append[a]
     with open('inter.txt', 'w') as input_file:
         l = 0; a = 0
         for bb in bait: