In general, see if the new package is available in conda-forge or
bioconda. If so, you just need to mention it in the requirements
section of the tool XML.
--
Devon Ryan, Ph.D.
Email: dpr...@dpryan.com
Data Manager/Bioinformatician
Max Planck Institute of Immunobiology and Epigenetics
Stübeweg 51
79108 Freiburg
Germany


On Mon, Jul 24, 2017 at 12:21 PM, Delisle Lucille
<lucille.deli...@epfl.ch> wrote:
> Hello Devon,
> Thank you very much for your quick answer. In fact in my 
> tool_dependencies.xml I did not put the '#':
>            <package 
> sha256sum="6ab8ff5c19e7f452966bf5a3220b845cf3244fe0b96544f7f9acedcc2db5c705">
>              
> https://pypi.python.org/packages/31/43/7777ab9535c416faabd1865453389260fdad0a23a714609c13112885009a/numexpr-2.6.2.tar.gz
>            </package>
> The log has been sent in a different e-mail (sorry).
>
> I think the conda is a really good alternative but I did not know how to ask 
> conda to resolve it.
> In fact, I need numexpr to install another python library and I do not know 
> how to write in this new package how to look for numexpr with conda.
>
> Thanks again,
>
> Lucille
>
> Lucille Delisle, PhD
> PostDoc Duboule Lab
> Laboratory of Developmental Genomics
> EPFL SV ISREC UPDUB
> SV 2843
> Station 19
> CH-1015 Lausanne
> Tel : +41 21 693 97 08
>
> ________________________________________
> De : dprya...@gmail.com <dprya...@gmail.com> de la part de Devon Ryan 
> <dpr...@dpryan.com>
> Envoyé : lundi 24 juillet 2017 12:06
> À : Delisle Lucille
> Cc : galaxy-dev@lists.galaxyproject.org
> Objet : Re: [galaxy-dev] Creating a tool dependency packages
>
> You can remove everything starting with the "#" in the URL, though I
> presume that's not the problem. Have a look in the installation log on
> your machine, perhaps there's an error message somewhere in it.
>
> More conveniently, though, numexpr-2.6.2 is available in conda-forge,
> so if you use conda as a dependency resolver then you can skip
> creating a tool dependency package. This saves a LOT of hassle, in my
> experience.
>
> Devon
> --
> Devon Ryan, Ph.D.
> Email: dpr...@dpryan.com
> Data Manager/Bioinformatician
> Max Planck Institute of Immunobiology and Epigenetics
> Stübeweg 51
> 79108 Freiburg
> Germany
>
>
> On Mon, Jul 24, 2017 at 11:58 AM, Delisle Lucille
> <lucille.deli...@epfl.ch> wrote:
>> Dear Galaxy list,
>>
>>
>> I do not know if it is the right place to ask my question. I would like to
>> create a tool dependency package for numexpr (a python library).
>>
>> I tried to do it taking examples from different tool dependency packages
>> from iuc for example.
>>
>> I added my repository to the testtoolshed but when I tried to install it.
>> The directory lib/python of my tool is empty.
>>
>> My repository is : package_python_2_7_numexpr_2_6_2
>>
>> The big difference I see between the one from iuc and mine is the url:
>>
>> For example, for pybigwig, the URL is :
>> https://pypi.python.org/packages/source/p/pyBigWig/pyBigWig-0.1.9.tar.gz
>>
>> For my library numexpr I could not find such a url so I put the one I
>> thought would be the good one:
>>
>> https://pypi.python.org/packages/31/43/7777ab9535c416faabd1865453389260fdad0a23a714609c13112885009a/numexpr-2.6.2.tar.gz#md5=943f8e4be7569b1ad01b10cbaa002a5c
>>
>>
>> Thank you very much for your help,
>>
>>
>>
>> Lucille Delisle, PhD
>> PostDoc Duboule Lab
>> Laboratory of Developmental Genomics
>> EPFL SV ISREC UPDUB
>> SV 2843
>> Station 19
>> CH-1015 Lausanne
>> Tel : +41 21 693 97 08
>>
>> ___________________________________________________________
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