Re: Clustalo Autopkgtests

Hi Canberk, any news about the other packages on the todo list? Kind regards Andreas. On Wed, Jul 13, 2016 at 01:35:47AM +0300, Canberk Koç wrote: > Hello Andreas, > > I commit to git. > > Best Regards > > > Canberk Koç > [image: https://]about.me/canberkkoc >

Re: Sponsoring request: ITK-4.10 (addendum)

On Thursday, July 14, 2016 8:04:28 AM CDT Andreas Tille wrote: > On Wed, Jul 13, 2016 at 10:43:27PM +0200, Gert Wollny wrote: > > > I admit I either need to find a powerful box *and* a connection with > > > better bandwidth for upload than I usually have. I have put Steve > > > who did previous up

Re: A common test-data package for genome assemblers

Hi all, > I've had a couple packages that indicate the availability of data > outside of the source distribution that can be used to try out the > software (and make sure that it actually runs). I didn't think it was a > good idea to bundle the data in with the actual package since it doesn't > ch

Re: Heads up: bioperl release candidate

> On Jul 11, 2016, at 8:13 AM, Charles Plessy wrote: > > Le Thu, Jul 07, 2016 at 10:20:18AM -0400, Michael Crusoe a écrit : >> >> If someone would like to try updating the Debian package with the release >> candidate and testing it that would be useful: >> >> https://cpan.metacpan.org/authors/

Re: metastudent and libgo-perl (Was: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing)

Hi Tanya, I've uploaded metastudent with the versioned depencency from libgo-perl and keep other uploaders of the package in CC. Thanks for your work on this Andreas. On Thu, Jul 14, 2016 at 11:15:49AM +0300, merlettaia wrote: > Hi Andreas, > > 2016-07-14 10:51 GMT+03:00 Andreas Tille :

Re: [outreachy] profnet uploaded

On Thu, Jul 14, 2016 at 10:41:15AM +0300, merlettaia wrote: > For now I think I should better move forward. Perfectly fine for me Andreas. -- http://fam-tille.de

Re: Sponsoring request: ITK-4.10 (addendum)

On Thu, Jul 14, 2016 at 10:30:58AM +0200, Gert Wollny wrote: > > Well, as far as I know, packages that have to go through NEW can't be > uploaded source only, at least that's what it says on the wiki [1] :(  Yes, that's correct - my fault Andreas. -- http://fam-tille.de

Re: metastudent and libgo-perl (Was: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing)

On Thu, Jul 14, 2016 at 11:15:49AM +0300, merlettaia wrote: > > > > Wouldn't this mean we need a versioned Depends from libgo-perl in > > metastudent? It seems to be only an indirect dependency since I can't > > see it in the dependencies but if it needs a certain version this should > > be specif

Re: Sponsoring request: ITK-4.10 (addendum)

Am Donnerstag, den 14.07.2016, 08:04 +0200 schrieb Andreas Tille: >  > If Steve does not respond until weekend I'll give it a try.  Another > option would be to do a source only upload and let autobuilders do > the work and save bandwidth.  Well, as far as I know, packages that have to go through

Re: metastudent and libgo-perl (Was: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing)

Hi Andreas, 2016-07-14 10:51 GMT+03:00 Andreas Tille : > [CC, ing other uploaders of reprof from rostlab] > Hi Tanya, > > On Thu, Jul 14, 2016 at 10:32:44AM +0300, merlettaia wrote: > > Hi Andreas, > > I've added tests for 2 packages - metastudent and libgo-perl, which is > used > > by metastuden

Re: A common test-data package for genome assemblers

على الأربعاء 13 تـمـوز 2016 ‫12:28، كتب Andreas Tille: >> This is a great idea! > +1 > > Please also read the thread > >https://lists.debian.org/debian-med/2016/07/msg00090.html > > which seems to fit this topic. > Yes, I saw that; this problem is indeed general enough to apply to the di

metastudent and libgo-perl (Was: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing)

[CC, ing other uploaders of reprof from rostlab] Hi Tanya, On Thu, Jul 14, 2016 at 10:32:44AM +0300, merlettaia wrote: > Hi Andreas, > I've added tests for 2 packages - metastudent and libgo-perl, which is used > by metastudent and which produced error (patch in libgo-perl makes > metastudent run

Re: A common test-data package for genome assemblers

على الأربعاء 13 تـمـوز 2016 ‫22:57، كتب Charles Plessy: > yes, this is an excellent idea. Discussions about data packages > spark from time to time (see https://wiki.debian.org/DataPackages > for instance), and it would be exciting to see this happening in > one way or the other ! Thanks for th

Re: [outreachy] profnet uploaded

Hi Andreas, For now I think I should better move forward. I'll probably return to that package if I'll work on profphd (I tried to update profphd to use current perl version, added testsuite, and then decided to postpone it - and for now to fix all possible errors appearing in predictprotein run -

Re: using `alternatives` for aligners and assemblers and promoting common interfaces

على الأربعاء 13 تـمـوز 2016 ‫10:58، كتب Michael Crusoe: > You may be interested in the http://nucleotid.es/ & http://bioboxes.org/ > efforts. Those do look interesting, but I was referring to a finer kind of standardization. Many of these tools can take some of the same parameters, so I was thin

Problems when testing predictprotein (Was: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing)

Hi Guy, sorry for not keeping you in the row since I assumed all interested people are reading the Debian Med mailing list. Currently an outreachy student does some QA work on Debian Med packages trying to add test suites. Please read below about the problems with packages created by rostlab. Y

Re: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing

Hi Andreas, I've added tests for 2 packages - metastudent and libgo-perl, which is used by metastudent and which produced error (patch in libgo-perl makes metastudent run work). BTW, I noticed that autopkgtest-pkg-perl skips modules syntax check, when specific file is not present, and debian/contro

Re: [outreachy] autopkgtest-pkg-perl in librg-utils-perl does nothing

On Wed, Jul 13, 2016 at 07:24:12PM +0300, merlettaia wrote: > Hi Andreas, > It would be fine to drop this line then. Dropped and uploaded since the Perl 5.22 issue seemed to be urgent. All other issues in your mail remain untouched. I will forward the issue also to Guy Yachdav . While he is his

[outreachy] profnet uploaded

Hi Tanya, I decided that the current changes in profnet are worth uploading. I did some further changes, main important one removing the *-dbg package since these are now created automatically. I noticed that the hardening options are not propagated even if I can see traces in the log. Unfortuna