Anaconda package with SUPPA?

[AngryMaciek]

Dear Authors,
I would like to use SUPPA2 in a bigger pipeline I build. Every step is in executed in a conda environment with specified libs and packages to ease re-runing the tool and avoid installation/dependency problems. Could you please consider building a SUPPA2 conda package and uploading it to anaconda cloud?
described here

This for sure would help not only me but also anyone that would like to utilize your/mine/anyone's tool that also runs SUPPA

[EduEyras]

Hi Maciej,

Thanks for the suggestion. Let's me check with JC or JL. Perhaps they can implement this easily, and it will be useful for us as well.

Thanks

E.

[AngryMaciek]

Dear @EduEyras , is there any update on the case?

Best,
Maciek

[EduEyras]

JC, were you able to look into making an anaconda package? thanks E.

…

On Wed, Feb 28, 2018 at 9:52 AM, AngryMaciek ***@***.***> wrote: Dear @EduEyras <https://github.com/edueyras> , is there any update on the case? Best, Maciek — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub <#18 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AMWVB_TQlyVPDzVwqiWWVn4jrgvfQfrUks5tZVohgaJpZM4RwvJa> .

-- Dr E Eyras ICREA Research Professor Universitat Pompeu Fabra PRBB, Dr Aiguader 88 Tel: +34 93 316 0502 (ext 1502) E08003 Barcelona, Spain Fax: +34 93 316 0550 http://scholar.google.com/citations?user=LiojlGoAAAAJ http://www.researcherid.com/rid/L-1053-2014 http://regulatorygenomics.upf.edu/

[dpryan79]

I've taken the liberty of making a package for this in bioconda, so one can now conda install -c bioconda suppa. For your next release, it would be nice if you incorporated the patch that I had to make for this package. It would also be nice to generally reorganize things, since a module named lib is likely to be ambiguous (try calling it suppa or something like that).

[EduEyras]

Thanks a lot Devon! We'll incorporate your suggestions best Eduardo

…

On Mon, Mar 26, 2018 at 2:23 PM, Devon Ryan ***@***.***> wrote: I've taken the liberty of making a package for this in bioconda, so one can now conda install -c bioconda suppa. For your next release, it would be nice if you incorporated the patch that I had to make <https://github.com/bioconda/bioconda-recipes/blob/master/recipes/suppa/patches> for this package. It would also be nice to generally reorganize things, since a module named lib is likely to be ambiguous (try calling it suppa or something like that). — You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub <#18 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AMWVB9m7PE-srJz_Broo8EGKl4wvwhb3ks5tiN3LgaJpZM4RwvJa> .

-- Dr E Eyras ICREA Research Professor Universitat Pompeu Fabra PRBB, Dr Aiguader 88 Tel: +34 93 316 0502 (ext 1502) E08003 Barcelona, Spain Fax: +34 93 316 0550 http://scholar.google.com/citations?user=LiojlGoAAAAJ http://www.researcherid.com/rid/L-1053-2014 http://regulatorygenomics.upf.edu/

[JLTrincado]

Dear Devon,

I was gonna incorporate the shebang lines. Since we already have some improvements that we want to put on a new release, how can we update the bioconda repository for pointing to this new one?

Thanks a lot for your time

[dpryan79]

The general procedure is:

1. Make a release of SUPPA
2. Fork the bioconda/bioconda-recipes repository and make a new branch.
3. Update meta.yaml under recipes/suppa to point to the new version. Remove patches as well.
4. Update build.sh under recipes/suppa if needed.
5. Make a pull request.

Then you can be added to the bioconda team so you can just create a branch on it and merge things yourself in the future.

[JLTrincado]

Perfect. Thanks for the explanation!!