Mercurial > repos > galaxyp > openms_proteinquantifier
changeset 1:412ad0cf0690 draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
| author | galaxyp |
|---|---|
| date | Tue, 18 Apr 2017 15:49:25 -0400 |
| parents | 0a83e4af50a8 |
| children | 6d76e6a90583 |
| files | ProteinQuantifier.xml readme.md |
| diffstat | 2 files changed, 14 insertions(+), 11 deletions(-) [+] |
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--- a/ProteinQuantifier.xml Wed Mar 01 10:13:09 2017 -0500 +++ b/ProteinQuantifier.xml Tue Apr 18 15:49:25 2017 -0400 @@ -28,7 +28,12 @@ -top $param_top #end if #if $param_average: - -average $param_average + -average + #if " " in str($param_average): + "$param_average" + #else + $param_average + #end if #end if #if $param_include_all: -include_all @@ -52,7 +57,12 @@ -format:separator "$param_format_separator" #end if #if $param_format_quoting: - -format:quoting $param_format_quoting + -format:quoting + #if " " in str($param_format_quoting): + "$param_format_quoting" + #else + $param_format_quoting + #end if #end if #if $param_format_replacement: -format:replacement "$param_format_replacement"
--- a/readme.md Wed Mar 01 10:13:09 2017 -0500 +++ b/readme.md Tue Apr 18 15:49:25 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.: