Re: [Advent bug squashing] Bug#988852: marked as done (transdecoder: broken symlink: /usr/lib/transdecoder/util/__pwm_tests/pasa_assemblies.fasta.gz -> ../../sample_data/pasa_example/pasa_assemblies.f
Am Mon, Dec 13, 2021 at 10:42:07PM +0100 schrieb Étienne Mollier: > Another low hanging fruit, but let's make it count. :) Every December I realise that there are a plenty of low hanging fruits - no idea why only a limited set of team members are trying to pick them. Thanks a lot Étienne for doing so and for sure it counts. ;-) Kind regards Andreas. -- http://fam-tille.de
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Hi Peter, Am Mon, Dec 13, 2021 at 08:18:42PM + schrieb Peter Rice: > I can take a look. What's the problem? The problem is described in the bug report[1]. May be one of the people who responded here will find a patch. > Still working through getting EMBOSS moved to github with all the past > releases. Nearly there. Then I play a lot of testing and updates for > anything that has run into problems. That's really great to know. Kind regards Andras. [1] https://bugs.debian.org/982036 > On 13/12/2021 17:55, Andreas Tille wrote: > > Hi, > > > > I've just asked for help on bug #982036 but no response so far. I think > > it is time to care if we want to keep emboss for the next stable > > release. > > > > Kind regards > > > >Andreas. > > > > -- > This email has been checked for viruses by AVG. > https://www.avg.com > > -- http://fam-tille.de
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Le lun. 13 déc. 2021 à 21:18, Peter Rice a écrit : > Hi Andreas, > > I can take a look. What's the problem? > Com.sun.net.ssl has been removed from java base package. Its (long time) replacement javax.net.ssl should be used instead > Still working through getting EMBOSS moved to github with all the past > releases. Nearly there. Then I play a lot of testing and updates for > anything that has run into problems. > > regards, > > Peter Rice > > > On 13/12/2021 17:55, Andreas Tille wrote: > > Hi, > > > > I've just asked for help on bug #982036 but no response so far. I think > > it is time to care if we want to keep emboss for the next stable > > release. > > > > Kind regards > > > >Andreas. > > > > -- > This email has been checked for viruses by AVG. > https://www.avg.com > >
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Hi Andreas, I can take a look. What's the problem? Still working through getting EMBOSS moved to github with all the past releases. Nearly there. Then I play a lot of testing and updates for anything that has run into problems. regards, Peter Rice On 13/12/2021 17:55, Andreas Tille wrote: Hi, I've just asked for help on bug #982036 but no response so far. I think it is time to care if we want to keep emboss for the next stable release. Kind regards Andreas. -- This email has been checked for viruses by AVG. https://www.avg.com
[Advent bug squashing]: Bug#985071: marked as done (smalt: native FTBFS with DEB_BUILD_OPTIONS=nocheck)
> On running with NOCHECK build opts and profile nocheck enabled, smalt > Fails to build from source with: This was also a simple, long overdue one. Kind regards Andreas. -- http://fam-tille.de
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Le lun. 13 déc. 2021 à 18:55, Andreas Tille a écrit : > Hi, > > I've just asked for help on bug #982036 but no response so far. I think > it is time to care if we want to keep emboss for the next stable > release. > Hummm, if not called in too many places, i expect ssl stuff should be quite easy to update/replace. I won t have time this week, but i could have a look next week. Olivier > Kind regards > > Andreas. > > -- > http://fam-tille.de >
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Hi, On 2021-12-13 19:55, Andreas Tille wrote: > I've just asked for help on bug #982036 but no response so far. I think > it is time to care if we want to keep emboss for the next stable > release. I am very much for retaining emboss, thus I may give it a look. The code using com.sun.net.ssl seems to be used to establish HTTPS connection for Java Network Launch Protocol. I wonder if that worked in the previous stable release, though. Best, Andrius
Re: emboss: FTBFS with OpenJDK 17 due to com.sun.net.ssl removal
Hi, I've just asked for help on bug #982036 but no response so far. I think it is time to care if we want to keep emboss for the next stable release. Kind regards Andreas. -- http://fam-tille.de
Re: r-bioc-txdb.hsapiens.ucsc.hg19.knowngene on salsa Re: please kindly review: r-bioc-fishpond -- Fishpond: differential transcript and gene expression with
Am Mon, Dec 13, 2021 at 05:35:27PM +0100 schrieb Steffen Möller: > > I did not have the privileges to remove the previous > r-bioc-txdb.hsapiens.ucsc.hg19.knowngene repository but could rename it, > so that is what I have done and then injected the new one. *-removeme is removed. Kind regards Andreas. -- http://fam-tille.de
r-bioc-txdb.hsapiens.ucsc.hg19.knowngene on salsa Re: please kindly review: r-bioc-fishpond -- Fishpond: differential transcript and gene expression with
Hi all, On 10.12.21 17:46, Andreas Tille wrote: Am Fri, Dec 10, 2021 at 11:57:49AM +0100 schrieb Steffen Möller: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1001436 for r-bioc-txdb.hsapiens.ucsc.hg19.knowngene and when I wanted to inject it found that it is already existing at https://salsa.debian.org/r-pkg-team/r-bioc-txdb.hsapiens.ucsc.hg19.knowngene in a "debian folder only" stage and 4 years old. You do not mind if I somehow adopt that? I don't mind at all. I remember that I used debian/ dir only due to the size of the source which might have been an issue at the time of creation. Technically I wonder whether it makes sense to remove the repository first and create it from scratch via prepare_missing_cran_package. It could perfectly be the case that it is the more straight approach to get a sensible package - but I'll leave this decision to you. I did not have the privileges to remove the previous r-bioc-txdb.hsapiens.ucsc.hg19.knowngene repository but could rename it, so that is what I have done and then injected the new one. Best, Steffen
[Advent bug squashing] Bug#995409: marked as done (ball: Please build depend on qtwebengine5-dev also on mips64el)
> Please build depend on qtwebengine5-dev also on mips64el > to be marked as done. This was an easy one as well, Andreas. -- http://fam-tille.de
