From b628c055c3c46d98ba006b3de712a38975d787f0 Mon Sep 17 00:00:00 2001
From: Yohan Jarosz <yohanjarosz@yahoo.fr>
Date: Mon, 1 Jun 2015 14:05:11 +0200
Subject: [PATCH] put tmp dir in build dir unless a absolute pat is set
---
Snakefile | 3 +++
1 file changed, 3 insertions(+)
diff --git a/Snakefile b/Snakefile
index fed3c3c..e9e5244 100644
--- a/Snakefile
+++ b/Snakefile
@@ -55,7 +55,10 @@ MEMTOTAL = os.environ.get("MEMTOTAL", config['memory_total_gb'])
MEMCORE = os.environ.get("MEMCORE", config['memory_per_core_gb'])
# temporary directory will be stored inside the OUTPUTDIR directory
+# unless a absolute path is set
TMPDIR = os.environ.get("TMPDIR", config['tmp_dir'])
+if not os.path.isabs(TMP_DIR):
+ TMPDIR = os.path.join(OUTPUTDIR, TMP_DIR)
def prepare_environment(stepname):
--
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