Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Jose Juan Almagro Armenteros
OK, I will try to switch to Github then. Thank you for the help! Regards, Jose 2015-10-28 17:20 GMT+01:00 Nicola Soranzo : > Hi Jose, > unfortunately the release_15.07 branch on Bitbucket seems to be missing > all post-release updates, and I warmly suggest you to move to the Github > releases

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Nicola Soranzo
Hi Jose, unfortunately the release_15.07 branch on Bitbucket seems to be missing all post-release updates, and I warmly suggest you to move to the Github releases as soon as you can. The migration is documented at https://wiki.galaxyproject.org/Admin/SwitchingToGithubFromBitbucket Cheers, N

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Martin Čech
Hi Jose, I think that is a good idea. Please see the bottom of this page for some hints: https://wiki.galaxyproject.org/Develop/SourceCode Martin On Wed, Oct 28, 2015 at 12:06 PM Jose Juan Almagro Armenteros < jjalma...@gmail.com> wrote: > Hello again, > > I have the release_15.07 from Bitbucke

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Jose Juan Almagro Armenteros
Hello again, I have the release_15.07 from Bitbucket, so if I want to have that commit I suppose that I would have to switch my Galaxy instance from Bitbucket to Github. Is this correct? Regards, Jose 2015-10-28 17:00 GMT+01:00 Dave Bouvier : > Yes, this is definitely related to the issue I fi

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Dave Bouvier
Yes, this is definitely related to the issue I fixed part of, and (I think) Nicola fixed the rest of. - Dave Bouvier http://galaxyproject.org http://usegalaxy.org On 10/28/2015 11:46 AM, Nicola Soranzo wrote: Hi Jose, can you check that your release_15.07 is updated and contains git commit 197

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Nicola Soranzo
Hi Jose, can you check that your release_15.07 is updated and contains git commit 197c7b21b209a7b6fbdb9a8a11c232a2b88523fc ( https://github.com/galaxyproject/galaxy/commit/197c7b21b209a7b6fbdb9a8a11c232a2b88523fc )? Cheers, Nicola On 28/10/15 14:53, Jose Juan Almagro Armenteros wrote: Hello

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Jose Juan Almagro Armenteros
Hello Björn, I am using Galaxy 15.07, so everything should be updated. Regards, Jose 2015-10-28 15:43 GMT+01:00 Björn Grüning : > Hi Jose, > > which version of Galaxy are you using? > @Dave can this be one of the old un-compressing changes? > > Cheers, > Bjoern > > Am 28.10.2015 um 15:31 schri

Re: [galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Björn Grüning
Hi Jose, which version of Galaxy are you using? @Dave can this be one of the old un-compressing changes? Cheers, Bjoern Am 28.10.2015 um 15:31 schrieb Jose Juan Almagro Armenteros: > Hello, > > I have tried to install the last version of Bismark from the toolshed and I > got an error while inst

[galaxy-dev] Bismark installation dependencies error

2015-10-28 Thread Jose Juan Almagro Armenteros
Hello, I have tried to install the last version of Bismark from the toolshed and I got an error while installing. Basically it can't install bowtie and bowtie2 because the folder name is written twice in the download directory. Here is the error: File "/steno-internal/projects/galaxy/galaxy-dist