conda problem

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conda problem

Matthias Bernt
Dear list,

When running rmarkdown_wgcna I get the following error in the logs:

PaddingError: Placeholder of length '80' too short in package
bioconda::r-wgcna-1.51-r3.3.1_0.
The package must be rebuilt with conda-build > 2.0.

The command that seems to lead to this is:

Executing command:
/gpfs1/data/galaxy_server/galaxy-dev/database/dependencies/_conda/bin/conda
create -y --name mulled-v1-3bfe8da4ed798836281cc963619917
317ae960c9a828f7ea05d1670c65b19619 pandoc=1.15.0.6-0 r-getopt=1.20.0
r-rmarkdown=1.2 r-plyr=1.8.4 r-highcharter=0.4.0 r-dt=0.2
r-htmltools=0.3.5 r-wgcna=1.51

Any ideas?

Best,
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,
[hidden email], 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
-------------------------------------------
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Re: conda problem

Björn Grüning-3
Hi Matthias,

conda-build only supported 80 chars limit for a long time. This has
fixed and all new packages don't have this problem.

So hopefully this PR will fix it:

https://github.com/bioconda/bioconda-recipes/pull/5912

Cheers,
bjeorn

On 31.08.2017 17:19, Matthias Bernt wrote:

> Dear list,
>
> When running rmarkdown_wgcna I get the following error in the logs:
>
> PaddingError: Placeholder of length '80' too short in package
> bioconda::r-wgcna-1.51-r3.3.1_0.
> The package must be rebuilt with conda-build > 2.0.
>
> The command that seems to lead to this is:
>
> Executing command:
> /gpfs1/data/galaxy_server/galaxy-dev/database/dependencies/_conda/bin/conda
> create -y --name mulled-v1-3bfe8da4ed798836281cc963619917
> 317ae960c9a828f7ea05d1670c65b19619 pandoc=1.15.0.6-0 r-getopt=1.20.0
> r-rmarkdown=1.2 r-plyr=1.8.4 r-highcharter=0.4.0 r-dt=0.2
> r-htmltools=0.3.5 r-wgcna=1.51
>
> Any ideas?
>
> Best,
> Matthias
>
>
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Re: conda problem

Matthias Bernt
Hi Bjoern,

thanks for the information. Then I will check for a new version next
week and check if the problem is gone.

Have a great weekend.

Cheers,
Matthias

On 31.08.2017 18:24, Björn Grüning wrote:

> Hi Matthias,
>
> conda-build only supported 80 chars limit for a long time. This has
> fixed and all new packages don't have this problem.
>
> So hopefully this PR will fix it:
>
> https://github.com/bioconda/bioconda-recipes/pull/5912
>
> Cheers,
> bjeorn
>
> On 31.08.2017 17:19, Matthias Bernt wrote:
>> Dear list,
>>
>> When running rmarkdown_wgcna I get the following error in the logs:
>>
>> PaddingError: Placeholder of length '80' too short in package
>> bioconda::r-wgcna-1.51-r3.3.1_0.
>> The package must be rebuilt with conda-build > 2.0.
>>
>> The command that seems to lead to this is:
>>
>> Executing command:
>> /gpfs1/data/galaxy_server/galaxy-dev/database/dependencies/_conda/bin/conda
>> create -y --name mulled-v1-3bfe8da4ed798836281cc963619917
>> 317ae960c9a828f7ea05d1670c65b19619 pandoc=1.15.0.6-0 r-getopt=1.20.0
>> r-rmarkdown=1.2 r-plyr=1.8.4 r-highcharter=0.4.0 r-dt=0.2
>> r-htmltools=0.3.5 r-wgcna=1.51
>>
>> Any ideas?
>>
>> Best,
>> 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,
[hidden email], 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/

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