Mercurial > repos > galaxyp > openms_proteinresolver
changeset 1:df637a1ed4ca draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
| author | galaxyp |
|---|---|
| date | Tue, 18 Apr 2017 15:49:38 -0400 |
| parents | 4e9f2061888d |
| children | 1446dac09da1 |
| files | ProteinResolver.xml readme.md |
| diffstat | 2 files changed, 14 insertions(+), 11 deletions(-) [+] |
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--- a/ProteinResolver.xml Wed Mar 01 10:08:31 2017 -0500 +++ b/ProteinResolver.xml Tue Apr 18 15:49:38 2017 -0400 @@ -44,7 +44,12 @@ -resolver:min_length $param_resolver_min_length #end if #if $param_resolver_enzyme: - -resolver:enzyme $param_resolver_enzyme + -resolver:enzyme + #if " " in str($param_resolver_enzyme): + "$param_resolver_enzyme" + #else + $param_resolver_enzyme + #end if #end if #if $param_designer_experiment: -designer:experiment "$param_designer_experiment" @@ -53,7 +58,12 @@ -designer:file "$param_designer_file" #end if #if $param_designer_separator: - -designer:separator $param_designer_separator + -designer:separator + #if " " in str($param_designer_separator): + "$param_designer_separator" + #else + $param_designer_separator + #end if #end if #if $adv_opts.adv_opts_selector=='advanced': #if $adv_opts.param_force:
--- a/readme.md Wed Mar 01 10:08:31 2017 -0500 +++ b/readme.md Tue Apr 18 15:49:38 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.: