diff imagej2_smooth.xml @ 3:c11777ffe5b1 draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 8f49f3c66b5a1de99ec15e65c2519a56792f1d56

--- a/imagej2_smooth.xml	Sun Nov 05 10:53:34 2023 +0000
+++ b/imagej2_smooth.xml	Wed Sep 25 16:05:45 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="imagej2_smooth" name="Smooth image" version="@WRAPPER_VERSION@.1">
+<tool id="imagej2_smooth" name="Smooth image" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.0">
     <description>with ImageJ2</description>
     <macros>
         <import>imagej2_macros.xml</import>
@@ -13,25 +13,17 @@
     <expand macro="fiji_requirements"/>
     <command detect_errors="exit_code"><![CDATA[
 #import os
-#set error_log = 'output_log.txt'
-touch '$error_log' &&
 #set input_sans_ext = $os.path.splitext($os.path.basename($input.file_name))[0]
-#set input_with_ext = '.'.join([input_sans_ext, $input.ext])
+#set input_with_ext = './' + '.'.join([input_sans_ext, $input.ext])
 ln -s '$input.file_name' '$input_with_ext' &&
 #set output_filename = '.'.join(['output', $input.ext])
 touch '$output_filename' &&
 ImageJ --ij2 --headless --debug
 --jython '$__tool_directory__/imagej2_smooth_jython_script.py'
-'$error_log'
 '$input_with_ext'
 '$output_filename'
 '$input.ext'
-&>'$error_log';
-if [[ $? -ne 0 ]]; then
-    cat '$error_log' >&2;
-else
-    mv '$output_filename' '$output';
-fi
+&& mv '$output_filename' '$output';
 ]]></command>
     <inputs>
         <expand macro="param_input"/>
@@ -42,7 +34,7 @@
     <tests>
         <test>
             <param name="input" value="blobs.gif"/>
-            <output name="output" file="blobs_smooth.gif" compare="sim_size"/>
+            <output name="output" file="blobs_smooth.gif" compare="image_diff"/>
         </test>
     </tests>
     <help>