Hi Geert,

Thanks for letting us know - I've added the folllowing Trello card for this and 
we'll get it fixed asap.

https://trello.com/c/65DOL7PL/160-repository-package-libpng-owned-by-devteam-on-main-tool-shed-bug

Greg Von Kuster


On Feb 20, 2014, at 5:10 PM, Geert Vandeweyer <geert.vandewey...@uantwerpen.be> 
wrote:

> Hi Bjoern & devteam members, 
> 
> I tried to install R_3_0_2 iuc version  from the main toolshed, but got an 
> error from the package_libpng from the devteam. I checked between the working 
> tool_dependency from the testtoolshed and the failing one from the main. 
> 
> working: 
>               <action 
> type="download_by_url">http://downloads.sourceforge.net/project/libpng/libpng16/older-releases/1.6.7/libpng-1.6.7.tar.gz</action>
> 
> failing : 
>               <action 
> type="download_by_url">http://downloads.sourceforge.net/project/libpng/libpng16/1.6.7/libpng-1.6.7.tar.gz</action>
> 
> The package_libpng from the devteam is downloading a different version on 
> test and main. 
> 
> Best, 
> 
> Geert
> 
> 
> 
> 
> On 02/20/2014 12:56 PM, Björn Grüning wrote:
>> Hello,
>> 
>>> Hi, 
>>> 
>>> Compilation/installing works now. Using this R from the commandline no 
>>> longer complains about missing X. With regards to cairo, I don't think I 
>>> explicitly need it, but as I understood it, it was used in case there was 
>>> no X11 server on the system? 
>> 
>> Not sure, I will add it if anyone complains :)
>> 
>>> would you add it to the main toolshed? Then I can put is as a dependency on 
>>> my tools that create plots from R (coverage_report), which has now the 
>>> system version hardcoded. 
>> 
>> Done!
>> Thanks for testing!
>> Bjoern
>> 
>>> Best, 
>>> 
>>> Geert
>>> 
>>> On 02/20/2014 01:45 AM, Björn Grüning wrote:
>>>> 
>>>> Hi Geert,
>>>> 
>>>> can you retest please, I had a typo. Unfortunately, I can't test it by 
>>>> myself since my internet connection is to bad here in Slovenia to download 
>>>> that R-tarball.
>>>> 
>>>> Sorry,
>>>> Bjoern
>>>> 
>>>>> hi, 
>>>>> 
>>>>> The dependencies installed fine, but R itself gave this error: 
>>>>> 
>>>>> configure: error: unrecognized option: 
>>>>> `-I/galaxy/galaxy_tool_binaries/libpng/1.6.7/devteam/package_libpng_1_6_7/a0b0e0281cc4/include'
>>>>>  Try `./configure --help' for more information
>>>>> 
>>>>> 
>>>>> Any idea what might be wrong? 
>>>>> 
>>>>> Best, 
>>>>> 
>>>>> Geert
>>>>> 
>>>>> 
>>>>> On 02/19/2014 12:55 PM, Björn Grüning wrote:
>>>>>> Hi Geert, 
>>>>>> 
>>>>>> I tried to update the R package to include the libpng dependency, if you 
>>>>>> like to test it ... 
>>>>>> 
>>>>>> http://testtoolshed.g2.bx.psu.edu/view/iuc/package_r_3_0_2 
>>>>>> 
>>>>>> Do you know if cairo is really needed? If I can I would omit to have a 
>>>>>> dependency on cairo :) 
>>>>>> 
>>>>>> Cheers, 
>>>>>> Bjoern 
>>>>>> 
>>>>>>> Hi all, 
>>>>>>> 
>>>>>>> I installed to package_r_2.11 and r_3x from the devteam to use as tool 
>>>>>>> dependency. All installation goes fine, but when I run my tool I get 
>>>>>>> the following error: 
>>>>>>> 
>>>>>>> Error in png(file = "../Plots/outname.png", bg = "white", width = 480,  
>>>>>>> : 
>>>>>>>   X11 is not available 
>>>>>>> 
>>>>>>> The tool uses the installed R : 
>>>>>>> /galaxy/galaxy_tool_binaries/R/2.11.0/devteam/package_r_2_11_0/8d0a55bf7aaf/lib/R/bin/R
>>>>>>> 
>>>>>>> If I force the tool to use the system installed version of R, it works 
>>>>>>> fine. Are there packages available in the toolsheds that allow the 
>>>>>>> 'png' function to work? I already tried the R-packages from boris, but 
>>>>>>> they gave compilation errors... I also tried to install the R-png 
>>>>>>> package from cran as a galaxy dependency, but that didn't help either. 
>>>>>>> 
>>>>>>> 
>>>>>>> Thanks for the help, 
>>>>>>> 
>>>>>>> Geert 
>>>>>>> 
>>>>>> 
>>>>> 
>>>>> 
>>>>> -- 
>>>>> 
>>>>> Geert Vandeweyer, Ph.D.
>>>>> Department of Medical Genetics
>>>>> University of Antwerp
>>>>> Prins Boudewijnlaan 43
>>>>> 2650 Edegem
>>>>> Belgium
>>>>> Tel: +32 (0)3 275 97 56
>>>>> E-mail: geert.vandewe...@ua.ac.be
>>>>> http://ua.ac.be/cognitivegenetics
>>>>> http://www.linkedin.com/in/geertvandeweyer
>>>> 
>>> 
>>> 
>>> -- 
>>> 
>>> Geert Vandeweyer, Ph.D.
>>> Department of Medical Genetics
>>> University of Antwerp
>>> Prins Boudewijnlaan 43
>>> 2650 Edegem
>>> Belgium
>>> Tel: +32 (0)3 275 97 56
>>> E-mail: geert.vandewe...@ua.ac.be
>>> http://ua.ac.be/cognitivegenetics
>>> http://www.linkedin.com/in/geertvandeweyer
>> 
> 
> 
> -- 
> 
> Geert Vandeweyer, Ph.D.
> Department of Medical Genetics
> University of Antwerp
> Prins Boudewijnlaan 43
> 2650 Edegem
> Belgium
> Tel: +32 (0)3 275 97 56
> E-mail: geert.vandewe...@ua.ac.be
> http://ua.ac.be/cognitivegenetics
> http://www.linkedin.com/in/geertvandeweyer
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