Mercurial > repos > galaxyp > openms_textexporter
changeset 1:7cca7b7dc08e draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
author | galaxyp |
---|---|
date | Tue, 18 Apr 2017 15:56:40 -0400 |
parents | 8c5c2b084e44 |
children | d3e76e242371 |
files | TextExporter.xml readme.md |
diffstat | 2 files changed, 14 insertions(+), 11 deletions(-) [+] |
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--- a/TextExporter.xml Wed Mar 01 10:16:43 2017 -0500 +++ b/TextExporter.xml Tue Apr 18 15:56:40 2017 -0400 @@ -25,7 +25,12 @@ -replacement "$param_replacement" #end if #if $param_quoting: - -quoting $param_quoting + -quoting + #if " " in str($param_quoting): + "$param_quoting" + #else + $param_quoting + #end if #end if #if $param_no_ids: -no_ids @@ -61,7 +66,12 @@ -consensus:features $param_consensus_features #end if #if $param_consensus_sorting_method: - -consensus:sorting_method $param_consensus_sorting_method + -consensus:sorting_method + #if " " in str($param_consensus_sorting_method): + "$param_consensus_sorting_method" + #else + $param_consensus_sorting_method + #end if #end if #if $param_consensus_sort_by_maps: -consensus:sort_by_maps
--- a/readme.md Wed Mar 01 10:16:43 2017 -0500 +++ b/readme.md Tue Apr 18 15:56:40 2017 -0400 @@ -39,10 +39,10 @@ * clone or install CTD2Galaxy ```bash - git clone https://github.com/blankclemens/CTD2Galaxy.git + git clone https://github.com/WorkflowConversion/CTD2Galaxy.git ``` - * If you have CTDopts and CTD2Galaxy installed you are ready to generate Galaxy Tools from CTD definitions. Change the following command according to your needs, especially the `/PATH/TO` parts. + * If you have CTDopts and CTD2Galaxy installed you are ready to generate Galaxy Tools from CTD definitions. Change the following command according to your needs, especially the `/PATH/TO` parts. The default files are provided in this repository. ```bash python generator.py \ @@ -102,13 +102,6 @@ [...] ]]> ``` - * In `PeakPickerHiRes.xml`, the parameter `report_FWHM_unit` has to be put in quotation marks. Look for the following line - - -algorithm:report_FWHM_unit $param_algorithm_report_FWHM_unit - - and change it to - - -algorithm:report_FWHM_unit "$param_algorithm_report_FWHM_unit" * In `FileConverter.xml` add `auto_format="true"` to the output, e.g.: