Mercurial > repos > galaxyp > openms_idmapper
changeset 1:79186fbde4ea draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 820d990f9217706e693b8a2f1da91e13c09cb0fb
| author | galaxyp |
|---|---|
| date | Tue, 18 Apr 2017 16:08:04 -0400 |
| parents | 026dbe52de09 |
| children | b5d0905419da |
| files | IDMapper.xml readme.md |
| diffstat | 2 files changed, 14 insertions(+), 11 deletions(-) [+] |
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--- a/IDMapper.xml Wed Mar 01 12:31:09 2017 -0500 +++ b/IDMapper.xml Tue Apr 18 16:08:04 2017 -0400 @@ -28,10 +28,20 @@ -mz_tolerance $param_mz_tolerance #end if #if $param_mz_measure: - -mz_measure $param_mz_measure + -mz_measure + #if " " in str($param_mz_measure): + "$param_mz_measure" + #else + $param_mz_measure + #end if #end if #if $param_mz_reference: - -mz_reference $param_mz_reference + -mz_reference + #if " " in str($param_mz_reference): + "$param_mz_reference" + #else + $param_mz_reference + #end if #end if #if $param_ignore_charge: -ignore_charge
--- a/readme.md Wed Mar 01 12:31:09 2017 -0500 +++ b/readme.md Tue Apr 18 16:08:04 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.: