From 32b73e3be55d28ee96b6a41773450150da1e4e6c Mon Sep 17 00:00:00 2001
From: Christopher Schmied <schmied@mpi-cbg.de>
Date: Sun, 5 Jul 2015 20:17:46 +0200
Subject: [PATCH] Fixed bug in Snakefile
Pipeline tested and works with single channel data
---
spim_registration/timelapse/Snakefile | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/spim_registration/timelapse/Snakefile b/spim_registration/timelapse/Snakefile
index 4af3d90..c35a13e 100755
--- a/spim_registration/timelapse/Snakefile
+++ b/spim_registration/timelapse/Snakefile
@@ -14,7 +14,6 @@ configfile: "single_test.yaml"
# data specific config file, expected to be inside JOBDIR
# configfile: "tomancak_test_cluster.yaml"
-
padding_format = "{0:0"+str(padding_of_file_id(int(config["common"]["ntimepoints"])))+"d}"
ds_format = "-"+padding_format+"-00.h5"
@@ -30,7 +29,9 @@ rule done:
localrules: define_xml_czi, define_xml_tif, hdf5_xml, xml_merge, timelapse,
duplicate_transformations, external_transform, define_output,
hdf5_xml_output
-
+
+
+
rule resave_prepared:
input: expand("{dataset}.{suffix}",dataset=[ config["common"]["hdf5_xml_filename"] ], suffix=["xml","h5"])
--
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