From 94e9e4915e6ed2803ebd6199ccf35c668b60d9b3 Mon Sep 17 00:00:00 2001
From: Niko Ehrenfeuchter <nikolaus.ehrenfeuchter@unibas.ch>
Date: Tue, 2 Apr 2019 22:09:23 +0200
Subject: [PATCH] Catch non-existing model file
---
src/imcflibs/imagej/shading.py | 7 ++++++-
1 file changed, 6 insertions(+), 1 deletion(-)
diff --git a/src/imcflibs/imagej/shading.py b/src/imcflibs/imagej/shading.py
index bd66e18..bd0774b 100644
--- a/src/imcflibs/imagej/shading.py
+++ b/src/imcflibs/imagej/shading.py
@@ -6,6 +6,7 @@ import ij # pylint: disable-msg=import-error
from ..imagej import bioformats # pylint: disable-msg=no-name-in-module
from ..imagej import projections
+from ..imagej import misc
from ..pathtools import listdir_matching, gen_name_from_orig
from ..log import LOG as log
@@ -130,7 +131,11 @@ def process_folder(path, suffix, outpath, model_file, fmt):
model = None
else:
model = ij.IJ.openImage(model_file)
- model.show() # required, otherwise the IJ.run() call ignores the model
+ # the model needs to be shown, otherwise the IJ.run() call ignores it
+ try:
+ model.show()
+ except AttributeError:
+ misc.error_exit("Opening shading model [%s] failed!" % model_file)
matching_files = listdir_matching(path, suffix)
log.info("Running shading correction and projections on %s files...",
--
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