Mercurial > repos > rv43 > tomo
diff tomo_reconstruct.xml @ 21:3caba2116858 draft
"planemo upload for repository https://github.com/rolfverberg/galaxytools commit e32e37ee46f47b185f924884685eb1d464761e86"
author | rv43 |
---|---|
date | Mon, 18 Apr 2022 19:43:15 +0000 |
parents | 44f168e1e14f |
children | ef5c2f7b49ec |
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--- a/tomo_reconstruct.xml Mon Apr 18 18:10:07 2022 +0000 +++ b/tomo_reconstruct.xml Mon Apr 18 19:43:15 2022 +0000 @@ -5,11 +5,12 @@ </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ + mkdir center_slice_pngs; $__tool_directory__/tomo_reconstruct.py -i '$red_stacks' -c '$config' --center_offsets $center_offsets.lower_center_offset $center_offsets.upper_center_offset - --output_data 'output.npz' + --output_data 'output_data.npz' --output_config 'output_config.yaml' -l '$log' ]]></command> @@ -24,6 +25,9 @@ <outputs> <expand macro="common_outputs"/> <data name="output_data" format="npz" label="Reconstructed tomography stacks" from_work_dir="output_data.npz"/> + <collection name="recon_slices" type="list" label="Recontructed slices midway in each dimension"> + <discover_datasets pattern="__name_and_ext__" directory="center_slice_pngs"/> + </collection> </outputs> <help><![CDATA[ Reconstruct tomography images.