From 44dc72972f4722ecfacce153a4513f881e598db1 Mon Sep 17 00:00:00 2001
From: Helene Rimbert <helene.rimbert@inra.fr>
Date: Tue, 16 Jun 2020 11:13:17 +0200
Subject: [PATCH] force python to execute version 3.5
---
bin/microMappingPipeline.py | 2 +-
bin/recalcCoordsFromBlat.py | 2 +-
rules/preprocessISBP.smk | 2 +-
3 files changed, 3 insertions(+), 3 deletions(-)
diff --git a/bin/microMappingPipeline.py b/bin/microMappingPipeline.py
index 04c99b6..f941163 100755
--- a/bin/microMappingPipeline.py
+++ b/bin/microMappingPipeline.py
@@ -1,4 +1,4 @@
-#!/usr/bin/env python3
+#!/usr/bin/env python3.5
# coding: utf-8
import os.path
from os import path
diff --git a/bin/recalcCoordsFromBlat.py b/bin/recalcCoordsFromBlat.py
index 102ee98..d0b9e8c 100755
--- a/bin/recalcCoordsFromBlat.py
+++ b/bin/recalcCoordsFromBlat.py
@@ -1,4 +1,4 @@
-#!/usr/bin/env python3
+#!/usr/bin/env python3.5
# coding: utf-8
import os.path
from os import path
diff --git a/rules/preprocessISBP.smk b/rules/preprocessISBP.smk
index f80cf3d..c4542f1 100644
--- a/rules/preprocessISBP.smk
+++ b/rules/preprocessISBP.smk
@@ -4,7 +4,7 @@ rule filterBam:
output: temp(config['results']+'/1.filteredISBPs.bam')
params: mapq=config['mapq'], mismatches=config['mismatches']
log: config['results']+'/1.filterBam.log'
- shell: "bin/filterBam.py {input} {output} {params.mapq} {params.mismatches} 1> {log}"
+ shell: "bin/filterBam.py {input} {output} {params.mapq} {params.mismatches} &> {log}"
rule bam2bed:
message: "Convert Filtered BAM file into BED"
--
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