Mercurial > repos > imgteam > imagej2_bunwarpj_raw_transform
diff imagej2_bunwarpj_raw_transform.xml @ 3:69e951528a0b draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/image_processing/imagej2 commit 8f49f3c66b5a1de99ec15e65c2519a56792f1d56
| author | imgteam |
|---|---|
| date | Wed, 25 Sep 2024 16:04:07 +0000 |
| parents | eabdcf6ad900 |
| children |
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--- a/imagej2_bunwarpj_raw_transform.xml Sun Nov 05 10:50:30 2023 +0000 +++ b/imagej2_bunwarpj_raw_transform.xml Wed Sep 25 16:04:07 2024 +0000 @@ -1,4 +1,4 @@ -<tool id="imagej2_bunwarpj_raw_transform" name="Apply raw transformation" version="@WRAPPER_VERSION@.2"> +<tool id="imagej2_bunwarpj_raw_transform" name="Apply raw transformation" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="23.0"> <description>with ImageJ2</description> <macros> <import>imagej2_macros.xml</import> @@ -18,10 +18,10 @@ ## ImageJ2 requires file extensions to be valid image data types. #set source_sans_ext = $os.path.splitext($os.path.basename($source_image.file_name))[0] -#set source_with_ext = '.'.join([source_sans_ext, $source_image.ext]) +#set source_with_ext = './' + '.'.join([source_sans_ext, $source_image.ext]) ln -s '$source_image.file_name' '$source_with_ext' && #set target_sans_ext = $os.path.splitext($os.path.basename($target_image.file_name))[0] -#set target_with_ext = '.'.join([target_sans_ext, $target_image.ext]) +#set target_with_ext = './' + '.'.join([target_sans_ext, $target_image.ext]) ln -s '$target_image.file_name' '$target_with_ext' && bunwarpj -raw_transform @@ -29,10 +29,6 @@ '$source_with_ext' '$raw_transformation' '$source_out' -&>'$error_log'; -if [[ $? -ne 0 ]]; then - cat '$error_log' >&2; -fi ]]></command> <inputs> <expand macro="param_target_image"/> @@ -57,7 +53,7 @@ <expand macro="test_target_source_images"/> <param name="raw_transformation" value="source_raw_transformation.txt"/> <param name="source_out_datatype" value="png"/> - <output name="source_out" file="raw_trans_registered_source1.png" compare="sim_size"/> + <output name="source_out" file="raw_trans_registered_source1.png" compare="image_diff"/> </test> </tests> <help>