wsclean/libstationresponse3 broken in KERN-6?

[o-smirnov]

After an update (of an 18.04 system), I can no longer run wsclean:

$ sudo apt install wsclean libstationresponse3 libcasa-tables5
Reading package lists... Done
Building dependency tree       
Reading state information... Done
libcasa-tables5 is already the newest version (3.4.0+5.8.0+2021.2.4-1~bionic2).
libstationresponse3 is already the newest version (4.1.1-2).
libstationresponse3 set to manually installed.
wsclean is already the newest version (2.9-2kern3).
0 upgraded, 0 newly installed, 0 to remove and 14 not upgraded.
$ wsclean
wsclean: symbol lookup error: /usr/lib/libstationresponse.so.3: undefined symbol: _ZNK8casacore11ArrayColumnIdEclEj

Am I missing something, stuck on an older version of something, or is the current set of packages in the repo broken?

[gijzelaerr]

I'm quite sure something breaks with the upgrade path somehow, just to make sure you can continue what happens if you:

$ dpkg -P wsclean libstationresponse3 libcasa-tables5
$ apt-get autoremove
$ apt-get clean
$ apt-get update 
$ apt-get upgrade
$ apt-get install wsclean

[gijzelaerr]

and before you do that, what are the 14 packages that are not upgraded and why? what do you see if you just run apt-get dist-upgrade now?

[o-smirnov]

and before you do that, what are the 14 packages that are not upgraded and why

Just some updates to cups-related stuff that showed up in the past 2 hours. apt upgrade installs them.

Ah but look, when I reinstall, it pulls stuff from the CARTA PPA:

Get:1 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-casa5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [898 kB]
Get:2 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-tables5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [1,498 kB]
Get:3 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-measures5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [408 kB]
Get:4 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-fits5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [322 kB]
Get:5 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-scimath-f5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [179 kB]
Get:6 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-scimath5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [359 kB]                 
Get:7 http://ppa.launchpad.net/cartavis-team/carta/ubuntu bionic/main amd64 libcasa-ms5 amd64 3.4.0+5.8.0+2021.2.4-1~bionic2 [1,132 kB]                    
Get:8 http://ppa.launchpad.net/kernsuite/kern-6/ubuntu bionic/main amd64 libstationresponse3 amd64 4.1.1-2 [92.5 kB]                                       
Get:9 http://ppa.launchpad.net/kernsuite/kern-6/ubuntu bionic/main amd64 libwsclean2 amd64 2.9-2kern3 [894 kB]                                             
Get:10 http://ppa.launchpad.net/kernsuite/kern-6/ubuntu bionic/main amd64 wsclean amd64 2.9-2kern3 [19.2 kB]                                               

If I remove the CARTA PPA and install wsclean, everything works now.

So what happened, did the CARTA people upload casacore packages with a newer version that superceded the KERN versions? I vaguely remember we had solved this problem with them before... at least CARTA and KERN could coexist...

[o-smirnov]

As I recall, CARTA needed its own specific version of the casacore libs, but you and Adrianna sorted that out...

[Athanaseus]

So what happened, did the CARTA people upload casacore packages with a newer version that superceded the KERN versions?

Yes, you are right @o-smirnov, CARTA and KERN should coexist. Unfortunately, this is what's going on:

FROM kernsuite/base:6
RUN add-apt-repository ppa:cartavis-team/carta
RUN apt update
RUN apt clean
RUN apt list --all-versions libcasa-casa5

This gives output:

Listing...                                                                                                                                                                                                         
libcasa-casa5/bionic 3.4.0+5.8.0+2021.2.4-1~bionic2 amd64                                                                                                                                                          
libcasa-casa5/bionic 3.3.0-1kern1 amd64

This means the package still exists (was not deleted but superseded) on CARTA archive and the version is greater than that of the KERN-6 libcasa version. When installing, the higher version always gets the priority, that's why CARTA version is pulled.

Here is how it looks on their repo:

This applies to the focal version (their KERN-7 equivalentce).

[confluence]

Apologies; I did not previously realise that the superseded packages remained installable and that there are circumstances under which they could be selected for installation. I will delete these obsolete versions from the PPA.

[o-smirnov]

Thanks @confluence -- would you let me know when you've done so, so I can retest the installations?

[confluence]

I have just requested deletion of the two packages (for focal and bionic); it may take some time for the change to be applied.

[o-smirnov]

OK looks like we're back in business -- thanks @confluence!