Mercurial > repos > artbio > lumpy_sv

changeset 2:1a4662c69bee draft

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"planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/lumpy-sv commit 07c73df696d6d80e03f03232603d713882131625"
author artbio
date Mon, 11 May 2020 23:36:00 +0000
parents 78f52aba0205
children aa9409835045
files lumpy.xml pairend_distro.py
diffstat 2 files changed, 3 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/lumpy.xml	Thu May 07 23:34:27 2020 +0000
+++ b/lumpy.xml	Mon May 11 23:36:00 2020 +0000
@@ -1,4 +1,4 @@
-<tool id="lumpy" name="lumpy-sv" version="1.2.0">
+<tool id="lumpy" name="lumpy-sv" version="1.2.1">
     <description>find structural variants</description>
     <requirements>
         <requirement type="package" version="0.2.13">lumpy-sv</requirement>
--- a/pairend_distro.py	Thu May 07 23:34:27 2020 +0000
+++ b/pairend_distro.py	Mon May 11 23:36:00 2020 +0000
@@ -62,11 +62,11 @@
 L = []
 c = 0
 
-for l in sys.stdin:
+for length in sys.stdin:
     if c >= options.N:
         break
 
-    A = l.rstrip().split('\t')
+    A = length.rstrip().split('\t')
     flag = int(A[SAM_FLAG])
     refname = A[SAM_REFNAME]
     mate_refname = A[SAM_MATE_REFNAME]