Pilon might need newer scala

2021-10-01 Thread Andreas Tille
Hi, I intended to update pilon to its latest upstream version but got: scalac -classpath /usr/share/java/htsjdk.jar -d pilon.jar src/main/scala/org/broadinstitute/pilon/* src/main/scala/org/broadinstitute/pilon/BamFile.scala:24: error: object jdk is not a member of package scala import scala.jd

Re: salsa-ci initiation for Debian Med - suspended?

2021-10-01 Thread Andreas Tille
Am Fri, Oct 01, 2021 at 05:46:35PM +0530 schrieb Nilesh Patra: > On 10/1/21 5:40 PM, Steffen Möller wrote: > > I just got > > > > [...] > > $ salsa update_repo --ci-config-path debian/salsa-ci.yml > med-team/long-read-assembler > $ echo $?

Re: Please update sight packaging

2021-10-01 Thread Aaron M. Ucko
OK, thanks! FWIW, testing has had the same glibc version as unstable (2.32-4) for about a week now, and AFAICT cmake from unstable is installable in testing (though you will naturally also need to upgrade cmake-data to match, and likewise for whichever of cmake-doc and/or cmake-*-gui you have inst

Re: Please update sight packaging

2021-10-01 Thread Flavien Bridault
Hi Andreas, Thanks for the notice, actually I already started working on it few weeks ago. I just forgot to push my changes. I just did it however, I am currently stuck because of the current version of CMake in testing. Patching would be really tough, so I am waiting for CMake 3.21 to reach

Re: salsa-ci initiation for Debian Med - suspended?

2021-10-01 Thread Nilesh Patra
On 10/1/21 5:40 PM, Steffen Möller wrote: > Hi all, > > I just got > > [...] $ salsa update_repo --ci-config-path debian/salsa-ci.yml med-team/long-read-assembler $ echo $? 0 Works okay for me. There is some local problem for you > I

Enlighten needs some new (Test-)Depends

2021-10-01 Thread Andreas Tille
Hi Shayan, I've updated enlighten in Git but it seems it needs python3-prefixed>=0.3.2 which is not packaged yet. Can you (or someone else) please have a look? Kind regards Andreas. -- http://fam-tille.de

salsa-ci initiation for Debian Med - suspended?

2021-10-01 Thread Steffen Möller
Hi all, I just got + PROJECT_ID=64711 + set +x Error GETing https://salsa.debian.org/api/v4/user (HTTP 401): Unauthorized {"error":"invalid_token","error_description":"Toke... at /usr/share/perl5/Devscripts/Salsa/update_repo.pm line 114. W: Could not initiate CI for long-read-assembler, please i

Re: libcifpp

2021-10-01 Thread Maarten L. Hekkelman
Hi Andrius, Op 01-10-2021 om 07:32 schreef Andrius Merkys: I think that not shipping components.cif in a binary package and downloading it in postinst is a viable solution. But I would rely on the choice the user makes during the package configuration (as is done now for mmcif_pdbx_v50.dic). A d

Re: Debian Med video conference tomorrow, Tuesday 2021-08-17 18:00 UTC

2021-10-01 Thread Andreas Tille
Hi, this is the call for the next video conference of the Debian Med team that are an established means to organise the tasks inside our team. We do these conferences twice per month on every 2th and 17th of a month. Usually it takes us only 15-20min depending what we are talking about and

Please update sight packaging

2021-10-01 Thread Andreas Tille
Hi Flavien, sight watch file needed to be fixed which I did and I realised there is a new upstream version. Please update the patches (if needed) and ping here once the package is ready for uploading. Kind regards and thanks for caring for this package Andreas. -- http://fam-tille.de