From 9549f6c7d877b767e4ecc1b5ddf9d652d8bb10d9 Mon Sep 17 00:00:00 2001
From: schmiedc <schmied@mpi-cbg.de>
Date: Tue, 7 Jul 2015 20:55:54 +0200
Subject: [PATCH] Update README.md
---
spim_registration/timelapse/README.md | 15 +++++++++++++++
1 file changed, 15 insertions(+)
diff --git a/spim_registration/timelapse/README.md b/spim_registration/timelapse/README.md
index f830c03..60bc9d8 100644
--- a/spim_registration/timelapse/README.md
+++ b/spim_registration/timelapse/README.md
@@ -106,6 +106,19 @@ If not:
```bash
snakemake -j2 -d /path/to/data/ --cluster-config ./cluster.json --cluster "bsub -q {cluster.lsf_q} {cluster.lsf_extra}"
```
+
+For error and output of the cluser add -o test.out -e test.err e.g.:
+DRMAA
+```bash
+snakemake -j2 -d /path/to/data/ --cluster-config ./cluster.json --drmaa " -q {cluster.lsf_q} {cluster.lsf_extra} -o test.out -e test.err"
+```
+LSF
+```bash
+snakemake -j2 -d /path/to/data/ --cluster-config ./cluster.json --cluster "bsub -q {cluster.lsf_q} {cluster.lsf_extra} -o test.out -e test.err"
+```
+
+Note: with this all the error and output files of one job would be written into these files.
+
Log files and supervision of the pipeline
---------------
@@ -115,3 +128,5 @@ The log files are ordered according to their position in the workflow. Multiple
force certain rules:
use the -R flag to rerun a particular rule and everything downstream
-R <name of rule>
+
+
--
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