Mercurial > repos > galaxyp > openms_itraqanalyzer
changeset 2:3be9073b721e draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
| author | galaxyp |
|---|---|
| date | Tue, 18 Apr 2017 15:38:12 -0400 |
| parents | cf30ca99bd20 |
| children | fd17d7da784c |
| files | ITRAQAnalyzer.xml readme.md |
| diffstat | 2 files changed, 14 insertions(+), 11 deletions(-) [+] |
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--- a/ITRAQAnalyzer.xml Sat Apr 08 08:29:33 2017 -0400 +++ b/ITRAQAnalyzer.xml Tue Apr 18 15:38:12 2017 -0400 @@ -13,7 +13,12 @@ <command>ITRAQAnalyzer #if $param_type: - -type $param_type + -type + #if " " in str($param_type): + "$param_type" + #else + $param_type + #end if #end if #if $param_in: -in $param_in @@ -31,7 +36,12 @@ -id_pool "$param_id_pool" #end if #if $param_algorithm_Extraction_select_activation: - -algorithm:Extraction:select_activation '$param_algorithm_Extraction_select_activation' + -algorithm:Extraction:select_activation + #if " " in str($param_algorithm_Extraction_select_activation): + "$param_algorithm_Extraction_select_activation" + #else + $param_algorithm_Extraction_select_activation + #end if #end if #if $param_algorithm_Extraction_reporter_mass_shift: -algorithm:Extraction:reporter_mass_shift $param_algorithm_Extraction_reporter_mass_shift
--- a/readme.md Sat Apr 08 08:29:33 2017 -0400 +++ b/readme.md Tue Apr 18 15:38:12 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.: