Hi Peter,
I just call planemo l sleepwaste.xml
Best,
Matthias
On 12.07.2017 16:54, Peter Cock wrote:
How are you running planemo lint - in particular is it set
to fail if there are any warnings present (like your missing
citation warning)?
Peter
On Wed, Jul 12, 2017 at 3:52 PM, Matthias Bernt <m.bernt(a)ufz.de> wrote:
> Dear list,
>
> In order to test the job resubmission feature I wrote a little tool for
> galaxy that just wastes a specified (minimum) time and memory (using
> different programming languages) for testing the new DRMAA job runner that I
> wrote.
>
> When linting it with planemo seemingly all tests are successful, but in the
> end I still get a fail -- verbose mode is also of no help here.
>
> Applying linter tests... CHECK
> .. CHECK: 7 test(s) found.
> Applying linter output... CHECK
> .. INFO: 1 outputs found.
> Applying linter inputs... CHECK
> .. INFO: Found 3 input parameters.
> Applying linter help... CHECK
> .. CHECK: Tool contains help section.
> .. CHECK: Help contains valid reStructuredText.
> Applying linter general... CHECK
> .. CHECK: Tool defines a version [0.1.0].
> .. CHECK: Tool defines a name [Waste time and memory].
> .. CHECK: Tool defines an id [sleepwaste].
> .. CHECK: Tool targets 16.01 Galaxy profile.
> Applying linter command... CHECK
> .. INFO: Tool contains a command.
> Applying linter citations... WARNING
> .. WARNING: No citations found, consider adding citations to your tool.
> Applying linter tool_xsd... CHECK
> .. INFO: File validates against XML schema.
> Failed linting
>
> The test of the tool are all successful. Any ideas what is wrong?
>
> Once the problems are solved, would such a tool also be useful in the
> toolshed?
>
> Cheers,
> Matthias
>
>
>
> --
>
> -------------------------------------------
> Matthias Bernt
> Bioinformatics Service
> Molekulare Systembiologie (MOLSYB)
> Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
> Helmholtz Centre for Environmental Research GmbH - UFZ
> Permoserstraße 15, 04318 Leipzig, Germany
> Phone +49 341 235 482296,
> m.bernt(a)ufz.de,
www.ufz.de
>
> Sitz der Gesellschaft/Registered Office: Leipzig
> Registergericht/Registration Office: Amtsgericht Leipzig
> Handelsregister Nr./Trade Register Nr.: B 4703
> Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board: MinDirig
> Wilfried Kraus
> Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
> Prof. Dr. Dr. h.c. Georg Teutsch
> Administrative Geschäftsführerin/ Administrative Managing Director:
> Prof. Dr. Heike Graßmann
> -------------------------------------------
>
> ___________________________________________________________
> Please keep all replies on the list by using "reply all"
> in your mail client. To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>
https://lists.galaxyproject.org/
>
> To search Galaxy mailing lists use the unified search at:
>
http://galaxyproject.org/search/
--
-------------------------------------------
Matthias Bernt
Bioinformatics Service
Molekulare Systembiologie (MOLSYB)
Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
Helmholtz Centre for Environmental Research GmbH - UFZ
Permoserstraße 15, 04318 Leipzig, Germany
Phone +49 341 235 482296,
m.bernt(a)ufz.de,
www.ufz.de
Sitz der Gesellschaft/Registered Office: Leipzig
Registergericht/Registration Office: Amtsgericht Leipzig
Handelsregister Nr./Trade Register Nr.: B 4703
Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board:
MinDirig Wilfried Kraus
Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
Prof. Dr. Dr. h.c. Georg Teutsch
Administrative Geschäftsführerin/ Administrative Managing Director:
Prof. Dr. Heike Graßmann
-------------------------------------------