Mercurial > repos > ximgchess > chap_test_20230411
changeset 92:142f73036013 draft
planemo upload for repository https://github.com/CHESSComputing/ChessAnalysisPipeline commit 01388c69776c82e48e84676a3d17d4623f5e08bd-dirty
author | ximgchess |
---|---|
date | Wed, 24 May 2023 13:55:45 +0000 |
parents | 72608a06dd7f |
children | c63315c31cef |
files | tomo/tomo_combine.xml tomo/tomo_reduce.xml |
diffstat | 2 files changed, 11 insertions(+), 3 deletions(-) [+] |
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--- a/tomo/tomo_combine.xml Wed May 24 11:57:05 2023 +0000 +++ b/tomo/tomo_combine.xml Wed May 24 13:55:45 2023 +0000 @@ -7,7 +7,7 @@ <command detect_errors="exit_code"> <![CDATA[ mkdir tomo_combine_plots; - cp $input_file reconstruced.nex && + cp $input_file reconstructed.nex && cp $tool_config combine.yaml && CHAP --config $__tool_directory__/pipeline_combine.yaml
--- a/tomo/tomo_reduce.xml Wed May 24 11:57:05 2023 +0000 +++ b/tomo/tomo_reduce.xml Wed May 24 13:55:45 2023 +0000 @@ -9,7 +9,11 @@ mkdir tomo_reduce_plots; #if str($map.type_selector) == "yaml" cp $input_file map.yaml && - cat $__tool_directory__/$map.detector.type_selector $tool_config > reduce.yaml && + #if str($map.detector.type_selector) == "from_file" + cat $map.detector.detector_file $tool_config > reduce.yaml && + #else + cat $__tool_directory__/$map.detector.type_selector $tool_config > reduce.yaml && + #end if #else cp $input_file setup.nex && cp $tool_config reduce.yaml && @@ -45,14 +49,18 @@ <when value="yaml"> <param name="input_file" type="data" format="yaml" optional="false" label="Map config file"/> <conditional name="detector"> - <param name="type_selector" type="select" display="radio" label="Choose detector prefix"> + <param name="type_selector" type="select" display="radio" label="Choose detector"> <option value="andor2.yaml">andor2</option> <option value="manta.yaml">manta</option> <option value="retiga.yaml">retiga</option> + <option value="from_file">from file</option> </param> <when value="andor2.yaml"/> <when value="manta.yaml"/> <when value="retiga.yaml"/> + <when value="from_file"> + <param name="detector_file" type="data" format="yaml" optional="false" label="Detector config file"/> + </when> </conditional> </when> <when value="nexus">