[LON-CAPA-users] YUM problem with tre-common on CentOS 7
D G Teed
donald.teed at gmail.com
Wed Aug 21 05:50:19 EDT 2019
Thanks for that. yum update run today grabbed tre-devel, tre, and
tre-common from loncapa repositories
and they were all updated fine.
On Tue, Aug 20, 2019 at 3:39 PM Raeburn, Stuart <raeburn at msu.edu> wrote:
> Donald,
>
> The versions of tre and te-devel available from the EPEL 7 repo are newer
> than the corresponding packages available from the
> install.loncapa.org/centos/loncapa/7/ repo.
>
> LONCAPA-prerequisites requires R, which results in a dependency chain:
> R-devel -> R-core-devel -> tre-devel -> tre.
>
> The 64-bit tre package from lon-capa-updates (tre-0.8.0-10.el7.x86_64) has
> no dependency on tre-common, whereas the 64-bit package from EPEL 7
> (tre-0.8.0-18.20140228gitc2f5d13.el7.x86_64) does, which adds one final
> dependency to the chain: R-devel -> R-core-devel -> tre-devel -> tre ->
> tre-common
>
> >
> > I have not tried the exclude on the lon-capa repo, but assumed there was
> a reason the package exists
> > there.
> >
>
> loncapa-updates-noarch contains tre-common because the LON-CAPA
> repositories for 32 bit CentOS 7 include the i386 rpm for tre-0.8.0-18,
> which (like its 64 bit counterpart) has a dependency on tre-common.
>
> I think the solution will be for me to replace the 64-bit 0.8.0-10
> packages for tre and tre-devel in lon-capa-updates with the 0.8.0-18
> versions. I should be able to get to that this evening. After I have made
> that change you will want to run the "yum clean all" command (again).
>
> For now, if you insure that you have the 0.8.0-10 versions of tre and
> tre-devel installed instead of the 0.8.0-18 versions, then there will be no
> dependency on tre-common (which you could remove). You would then want to
> temporarily disable updates of tre and tre-devel from EPEL7.
>
> Stuart Raeburn
> LON-CAPA Academic Consortium
> _______________________________________
> From: LON-CAPA-users <lon-capa-users-bounces at mail.lon-capa.org> on behalf
> of D G Teed <donald.teed at gmail.com>
> Sent: Tuesday, August 20, 2019 8:22 AM
> To: Discussion list for LON-CAPA users
> Subject: [LON-CAPA-users] YUM problem with tre-common on CentOS 7
>
> Hello,
>
> I've just migrated our Redhat 6 Lon-Capa to CentOS 7.
>
> It seems the site is working OK. When I did a yum update recently there is
> a conflict with tre-common being provided by both epel and loncapa-updates
>
> I tried exclude=tre-common within /etc/yum.repos.d/epel.repo
> and did yum clean all followed by yum update. Same error as previously.
>
> This package wasn't part of the R dependencies on the previous OS version
> so I can't compare to how it was satisfied on the previous server.
>
> I think the problem is that tre comes from epel and lists a dependency
> and version found only
> on epel of tre-common, while loncapa-updates provides tre-common but not
> the matching tre so
> it isn't possible to make epel not provide tre packages.
>
> # yum list tre-common
> Loaded plugins: fastestmirror
> Loading mirror speeds from cached hostfile
> * base: mirror.calgah.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.calgah.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=sZ6tdCsXDERL_fv6KvAh-1yrLIZ3_yPFHIJ3tMAtd4o&e=
> >
> * epel: epel.mirror.constant.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__epel.mirror.constant.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=Q80abozTNcYv_KzySeS4EVuoHt0pFAVNDZf-ts-Da5Q&e=
> >
> * extras: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * updates: mirror.calgah.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.calgah.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=sZ6tdCsXDERL_fv6KvAh-1yrLIZ3_yPFHIJ3tMAtd4o&e=
> >
> Installed Packages
> tre-common.noarch
> 0.8.0-18.20140228gitc2f5d13.el7 @epel
> Available Packages
> tre-common.noarch
> 0.8.0-18.20140228gitc2f5d13.el7.centos
> loncapa-updates-noarch
>
> # yum list tre
> Loaded plugins: fastestmirror
> Loading mirror speeds from cached hostfile
> * base: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * epel: epel.mirror.constant.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__epel.mirror.constant.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=Q80abozTNcYv_KzySeS4EVuoHt0pFAVNDZf-ts-Da5Q&e=
> >
> * extras: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * updates: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> Installed Packages
> tre.x86_64
> 0.8.0-18.20140228gitc2f5d13.el7
> @epel
>
>
> # yum update
> Loaded plugins: fastestmirror
> Loading mirror speeds from cached hostfile
> epel/x86_64/metalink
> | 14 kB 00:00:00
> * base: mirror.calgah.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.calgah.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=sZ6tdCsXDERL_fv6KvAh-1yrLIZ3_yPFHIJ3tMAtd4o&e=
> >
> * epel: epel.mirror.constant.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__epel.mirror.constant.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=Q80abozTNcYv_KzySeS4EVuoHt0pFAVNDZf-ts-Da5Q&e=
> >
> * extras: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * updates: mirror.calgah.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.calgah.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=sZ6tdCsXDERL_fv6KvAh-1yrLIZ3_yPFHIJ3tMAtd4o&e=
> >
> Resolving Dependencies
> --> Running transaction check
> ---> Package tre-common.noarch 0:0.8.0-18.20140228gitc2f5d13.el7 will be
> updated
> --> Processing Dependency: tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> for package: tre-0.8.0-18.20140228gitc2f5d13.el7.x86_64
> ---> Package tre-common.noarch 0:0.8.0-18.20140228gitc2f5d13.el7.centos
> will be an update
> --> Finished Dependency Resolution
> Error: Package: tre-0.8.0-18.20140228gitc2f5d13.el7.x86_64 (@epel)
> Requires: tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> Removing: tre-common-0.8.0-18.20140228gitc2f5d13.el7.noarch
> (@epel)
> tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> Updated By:
> tre-common-0.8.0-18.20140228gitc2f5d13.el7.centos.noarch
> (loncapa-updates-noarch)
> tre-common = 0.8.0-18.20140228gitc2f5d13.el7.centos
> You could try using --skip-broken to work around the problem
> You could try running: rpm -Va --nofiles --nodigest
> [root at sirius ~]# yum clean all
> Loaded plugins: fastestmirror
> Cleaning repos: base epel extras loncapa-updates-basearch
> loncapa-updates-noarch updates
> Cleaning up list of fastest mirrors
> Other repos take up 115 M of disk space (use --verbose for details)
> [root at sirius ~]# yum update
> Loaded plugins: fastestmirror
> Determining fastest mirrors
> epel/x86_64/metalink
> | 14 kB 00:00:00
> * base: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * epel: epel.mirror.constant.com<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__epel.mirror.constant.com&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=Q80abozTNcYv_KzySeS4EVuoHt0pFAVNDZf-ts-Da5Q&e=
> >
> * extras: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> * updates: mirror.its.dal.ca<
> https://urldefense.proofpoint.com/v2/url?u=http-3A__mirror.its.dal.ca&d=DwMGaQ&c=nE__W8dFE-shTxStwXtp0A&r=VsGo3jOm8tGLd6f-KlhT-g&m=wOaFS-i3n0r9lYv4k9rqgOYbY4-62QkPFQEY02KmLHo&s=3lgtWMlZcBS2PXj1QPEmmEP8qFyHi6Sb58e9--dYDWM&e=
> >
> base
> | 3.6 kB 00:00:00
> epel
> | 5.3 kB 00:00:00
> extras
> | 3.4 kB 00:00:00
> loncapa-updates-basearch
> | 951 B 00:00:00
> loncapa-updates-noarch
> | 951 B 00:00:00
> updates
> | 3.4 kB 00:00:00
> (1/7): base/7/x86_64/group_gz
> | 166 kB 00:00:00
> (2/7): epel/x86_64/group_gz
> | 88 kB 00:00:00
> (3/7): epel/x86_64/updateinfo
> | 999 kB 00:00:00
> (4/7): extras/7/x86_64/primary_db
> | 215 kB 00:00:00
> (5/7): epel/x86_64/primary_db
> | 6.8 MB 00:00:00
> (6/7): base/7/x86_64/primary_db
> | 6.0 MB 00:00:00
> (7/7): updates/7/x86_64/primary_db
> | 7.4 MB 00:00:00
> (1/2): loncapa-updates-noarch/7/primary
> | 32 kB 00:00:00
> (2/2): loncapa-updates-basearch/7/x86_64/primary
> | 31 kB 00:00:00
> loncapa-updates-basearch
> 81/81
> loncapa-updates-noarch
> 65/65
> Resolving Dependencies
> --> Running transaction check
> ---> Package tre-common.noarch 0:0.8.0-18.20140228gitc2f5d13.el7 will be
> updated
> --> Processing Dependency: tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> for package: tre-0.8.0-18.20140228gitc2f5d13.el7.x86_64
> ---> Package tre-common.noarch 0:0.8.0-18.20140228gitc2f5d13.el7.centos
> will be an update
> --> Finished Dependency Resolution
> Error: Package: tre-0.8.0-18.20140228gitc2f5d13.el7.x86_64 (@epel)
> Requires: tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> Removing: tre-common-0.8.0-18.20140228gitc2f5d13.el7.noarch
> (@epel)
> tre-common = 0.8.0-18.20140228gitc2f5d13.el7
> Updated By:
> tre-common-0.8.0-18.20140228gitc2f5d13.el7.centos.noarch
> (loncapa-updates-noarch)
> tre-common = 0.8.0-18.20140228gitc2f5d13.el7.centos
> You could try using --skip-broken to work around the problem
> You could try running: rpm -Va --nofiles --nodigest
>
> What do you suggest I try to resolve that issue? I have not tried the
> exclude on the lon-capa repo, but assumed
> there was a reason the package exists there.
>
> Regards,
>
> --Donald Teed
>
>
>
> _______________________________________________
> LON-CAPA-users mailing list
> LON-CAPA-users at mail.lon-capa.org
> http://mail.lon-capa.org/mailman/listinfo/lon-capa-users
>
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