From jmercier at cng.fr Tue Mar 5 16:45:36 2019 From: jmercier at cng.fr (Jonathan MERCIER) Date: Tue, 5 Mar 2019 17:45:36 +0100 Subject: [scl.org] Question about bebugInfo and SCL packaging Message-ID: Dear, I try to make my first scl package: -? the main spec bowtie.spec: https://paste.fedoraproject.org/paste/FtkPHPtms~1BBvf69d7wQQ - the meta spec cnrgh-bowtie2343.spec: https://paste.fedoraproject.org/paste/DpduM9SxOCNUJ9F2WxmXPg But while building the main spec I encounter this error: --> Processing Dependency: cnrgh-bowtie_2.3.4.3-runtime for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 --> Processing Dependency: tbb for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 --> Processing Dependency: libtbb.so.2()(64bit) for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 --> Processing Dependency: libtbbmalloc_proxy.so.2()(64bit) for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 ---> Package bowtie_2.3.4.3-bowtie-debuginfo.x86_64 0:2.3.4.3-1.el7 will be installed --> Processing Dependency: bowtie_2.3.4.3-runtime for package: bowtie_2.3.4.3-bowtie-debuginfo-2.3.4.3-1.el7.x86_64 ---> Package cnrgh-bowtie2343.x86_64 0:1.0.0-1.el7 will be installed --> Processing Dependency: cnrgh-bowtie2343-bowtie(x86-64) for package: cnrgh-bowtie2343-1.0.0-1.el7.x86_64 ---> Package cnrgh-bowtie2343-build.x86_64 0:1.0.0-1.el7 will be installed ---> Package cnrgh-bowtie2343-runtime.x86_64 0:1.0.0-1.el7 will be installed ---> Package cnrgh-bowtie2343-scldevel.x86_64 0:1.0.0-1.el7 will be installed --> Running transaction check ---> Package bowtie_2.3.4.3-bowtie.x86_64 0:2.3.4.3-1.el7 will be installed --> Processing Dependency: bowtie_2.3.4.3-runtime for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 --> Processing Dependency: cnrgh-bowtie_2.3.4.3-runtime for package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 ---> Package bowtie_2.3.4.3-bowtie-debuginfo.x86_64 0:2.3.4.3-1.el7 will be installed --> Processing Dependency: bowtie_2.3.4.3-runtime for package: bowtie_2.3.4.3-bowtie-debuginfo-2.3.4.3-1.el7.x86_64 ---> Package cnrgh-bowtie2343.x86_64 0:1.0.0-1.el7 will be installed --> Processing Dependency: cnrgh-bowtie2343-bowtie(x86-64) for package: cnrgh-bowtie2343-1.0.0-1.el7.x86_64 ---> Package tbb.x86_64 0:4.1-9.20130314.el7 will be installed --> Finished Dependency Resolution ?You could try using --skip-broken to work around the problem Error: Package: bowtie_2.3.4.3-bowtie-debuginfo-2.3.4.3-1.el7.x86_64 (/bowtie_2.3.4.3-bowtie-debuginfo-2.3.4.3-1.el7.x86_64) ?????????? Requires: bowtie_2.3.4.3-runtime Error: Package: cnrgh-bowtie2343-1.0.0-1.el7.x86_64 (/cnrgh-bowtie2343-1.0.0-1.el7.x86_64) ?????????? Requires: cnrgh-bowtie2343-bowtie(x86-64) Error: Package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 (/bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64) ?????????? Requires: bowtie_2.3.4.3-runtime Error: Package: bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64 (/bowtie_2.3.4.3-bowtie-2.3.4.3-1.el7.x86_64) ?????????? Requires: cnrgh-bowtie_2.3.4.3-runtime ?You could try running: rpm -Va --nofiles --nodigest ??? ... ??? ... Thanks for your help -- Jonathan MERCIER Centre National de Recherche en G?nomique Humaine (CNRGH) Researcher computational biology PhD, Jonathan MERCIER Bioinformatics (LBI) 2, rue Gaston Cr?mieux 91057 Evry Cedex Tel :(33) 1 60 87 83 44 Email :jonathan.mercier at cng.fr From jstanek at redhat.com Mon Mar 11 14:04:52 2019 From: jstanek at redhat.com (=?UTF-8?Q?Jan_Stan=c4=9bk?=) Date: Mon, 11 Mar 2019 15:04:52 +0100 Subject: [scl.org] Copr repository synchronization Message-ID: <1c2f12f1-d9ee-0ed5-d4bf-f854242cf569@redhat.com> Hello, the softwarecollections.org has an option to host RPM files for collections built in Copr. The official rh-* collections do not use it, and I was wondering if anyone actually does. In other words, would anyone miss the *file hosting* functionality if it would be removed? Thanks for any replies, Jan -- Jan Stan?k Associate Software Engineer, Core Services Red Hat Czech jstanek at redhat.com IM: jstanek -------------- next part -------------- A non-text attachment was scrubbed... Name: signature.asc Type: application/pgp-signature Size: 833 bytes Desc: OpenPGP digital signature URL: From jmercier at cng.fr Wed Mar 13 17:07:26 2019 From: jmercier at cng.fr (Jonathan MERCIER) Date: Wed, 13 Mar 2019 18:07:26 +0100 Subject: [scl.org] How to support multi version with mutiple binaries optimized for each arch ? Message-ID: <36d5396e-f54c-646b-f11c-bd436271df5e@cng.fr> Dear, with environment-modules the hierarchy is /opt/provider/-/-- as example for samtools 1.9 $ ls /opt/provider/samtools-1.9/ el6-x86_64-generic? el6-x86_64-haswell? el6-x86_64-westmere Is it possible to get the same beaviour with scl, in order to detect automaticaly the host and load the best "module" ? Thanks best regards -- Jonathan MERCIER Centre National de Recherche en G?nomique Humaine (CNRGH) Researcher computational biology PhD, Jonathan MERCIER Bioinformatics (LBI) 2, rue Gaston Cr?mieux 91057 Evry Cedex Tel :(33) 1 60 87 83 44 Email :jonathan.mercier at cng.fr -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: aacifkcgdphkhpkf. Type: image/jpg Size: 5638 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: emnddklenkccolfd. Type: image/jpg Size: 17553 bytes Desc: not available URL: From jmercier at cng.fr Fri Mar 1 16:18:09 2019 From: jmercier at cng.fr (Jonathan MERCIER) Date: Fri, 1 Mar 2019 17:18:09 +0100 Subject: [scl.org] Is it possible to get SRPMS used to build SLC ? Message-ID: <8fb26380-cc1d-6a99-81ae-a24b153119bd@cng.fr> Dear, I would like to see spec file used to generate SLC packages. for classical rpm I can use - yumdownloader with centos - and dnf download --source with fedora what about SLC ? Thanks Best regards -- Jonathan MERCIER Centre National de Recherche en G?nomique Humaine (CNRGH) Researcher computational biology PhD, Jonathan MERCIER Bioinformatics (LBI) 2, rue Gaston Cr?mieux 91057 Evry Cedex Tel :(33) 1 60 87 83 44 Email :jonathan.mercier at cng.fr -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: jjmoaidedebofdcf. Type: image/jpg Size: 5638 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: kaaflkcenohajhdc. Type: image/jpg Size: 17553 bytes Desc: not available URL: From jmercier at cng.fr Tue Mar 5 13:20:58 2019 From: jmercier at cng.fr (Jonathan MERCIER) Date: Tue, 5 Mar 2019 14:20:58 +0100 Subject: [scl.org] (no subject) Message-ID: <676de6c6-4653-c7e2-c8d4-3dfbbfc8d1a3@cng.fr> Dear, I try to make my first scl package: -? the main spec bowtie.spec: https://paste.fedoraproject.org/paste/cw4PPG2TKDdTLi3IraHmTg - the meta spec cnrgh-bowtie2343.spec: https://paste.fedoraproject.org/paste/DpduM9SxOCNUJ9F2WxmXPg But while building the main spec I encounter this error: error: Installed (but unpackaged) file(s) found: /usr/lib/debug/.build-id/12/80de9df6f1e2bc6cff28e4561eac137e9645d0 /usr/lib/debug/.build-id/12/80de9df6f1e2bc6cff28e4561eac137e9645d0.debug /usr/lib/debug/.build-id/5d/5b77f6fe1be733648b5c16bbba4e004d57ac02 /usr/lib/debug/.build-id/5d/5b77f6fe1be733648b5c16bbba4e004d57ac02.debug /usr/lib/debug/.build-id/9e/13da258063141942a31cd0ffc0cf1bc2e332fa /usr/lib/debug/.build-id/9e/13da258063141942a31cd0ffc0cf1bc2e332fa.debug /usr/lib/debug/.build-id/a8/b7394fdc961d76906be32531211d9354242f80 /usr/lib/debug/.build-id/a8/b7394fdc961d76906be32531211d9354242f80.debug /usr/lib/debug/.build-id/c5/aa7dcf6e4ac9e6a9eb327fdd12900830ddbae6 /usr/lib/debug/.build-id/c5/aa7dcf6e4ac9e6a9eb327fdd12900830ddbae6.debug /usr/lib/debug/.build-id/c9/6e7e06049540adbfebbde6cddf164ff8f1883a /usr/lib/debug/.build-id/c9/6e7e06049540adbfebbde6cddf164ff8f1883a.debug /usr/lib/debug/.build-id/d1/8b7428f8c85fd7c528ddc391c61116565e71ed.debug /usr/lib/debug/.dwz/cnrgh-bowtie2343-bowtie-2.3.4.3-1.el7.x86_64 /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-align-l.debug /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-align-s.debug /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-build-l.debug /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-build-s.debug /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-inspect-l.debug /usr/lib/debug/opt/cnrgh/cnrgh-bowtie2343/root/usr/bin/bowtie2-inspect-s.debug /usr/src/debug/bowtie2-2.3.4.3/aligner_bt.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_bt.h /usr/src/debug/bowtie2-2.3.4.3/aligner_cache.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_cache.h /usr/src/debug/bowtie2-2.3.4.3/aligner_driver.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_driver.h /usr/src/debug/bowtie2-2.3.4.3/aligner_metrics.h /usr/src/debug/bowtie2-2.3.4.3/aligner_result.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_result.h /usr/src/debug/bowtie2-2.3.4.3/aligner_seed.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_seed.h /usr/src/debug/bowtie2-2.3.4.3/aligner_seed2.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_seed2.h /usr/src/debug/bowtie2-2.3.4.3/aligner_seed_policy.cpp /usr/src/debug/bowtie2-2.3.4.3/aligner_seed_policy.h /usr/src/debug/bowtie2-2.3.4.3/aligner_sw.cpp ... ... Thanks for your help -- Jonathan MERCIER Centre National de Recherche en G?nomique Humaine (CNRGH) Researcher computational biology PhD, Jonathan MERCIER Bioinformatics (LBI) 2, rue Gaston Cr?mieux 91057 Evry Cedex Tel :(33) 1 60 87 83 44 Email :jonathan.mercier at cng.fr -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: cfdcaeddniocngcc. Type: image/jpg Size: 5638 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: okgohihgkocminjf. Type: image/jpg Size: 17553 bytes Desc: not available URL: From algonzal at redhat.com Tue Mar 12 16:28:37 2019 From: algonzal at redhat.com (Alberto Gonzalez de Dios) Date: Tue, 12 Mar 2019 17:28:37 +0100 Subject: [scl.org] Bug 1687922 - httpd container image contains private key localhost.key and localhost.crt In-Reply-To: References: Message-ID: HI, I've just opened bug 1687922 "httpd container image contains private key localhost.key and localhost.crt". -- *When using the RedHat image for httpd (from https://access.redhat.com/containers/#/registry.access.redhat.com/rhscl/httpd-24-rhel7/images/2.4-85 ), a private key for a certificate is stored in path /etc/pki/tls/private/localhost.key. The RedHat Container Image Guideline (https://docs.openshift.com/container-platform/3.9/creating_images/guidelines.html#openshift-specific-guidelines ) states that:```It is also possible and recommended to pass secrets such as certificates and keys into the container using environment variables. This ensures that the secret values do not end up committed in an image and leaked into a Docker registry.```* -- Now all the containers based on rhscl/httpd-24-rhel7 have the same certificate (private key and cert). And this is a high security risk. I think the best solution is to remove the certificate in the base image, and create a init script to generate a new certificate. This way we ensure security (no certificates in the base image), and usability (if we just remove the certificate, then https will not work by default as there is no certificate). Regards, -- Alberto Gonzalez de Dios OPENSHIFT PROACTIVE SUPPORT ENGINEER, RHCE, RHCSA Red Hat EMEA Paseo de la Castellana, 259C Madrid, Spain algonzal at redhat.com @RedHat Red Hat Red Hat -- Alberto Gonzalez de Dios OPENSHIFT PROACTIVE SUPPORT ENGINEER, RHCE, RHCSA Red Hat EMEA Paseo de la Castellana, 259C Madrid, Spain algonzal at redhat.com @RedHat Red Hat Red Hat -------------- next part -------------- An HTML attachment was scrubbed... URL: From mike at michaelrochefort.com Thu Mar 14 00:22:09 2019 From: mike at michaelrochefort.com (Michael Rochefort) Date: Wed, 13 Mar 2019 20:22:09 -0400 Subject: [scl.org] Is it possible to get SRPMS used to build SLC ? In-Reply-To: <8fb26380-cc1d-6a99-81ae-a24b153119bd@cng.fr> References: <8fb26380-cc1d-6a99-81ae-a24b153119bd@cng.fr> Message-ID: <1697993e599.ea85c1b462081.7174511666279042215@michaelrochefort.com> Hi Jonathan,The source files are publicly available in the CentOS vaults[0], if you choose to use a browser. If you wish to use the yum CLI, just issue it with the following flag:--enablerepo=centos-sclo-rh-source,centos-sclo-sclo-sourceor--enablerepo=centos-sclo*sourceThis should work with yum, yumdownloader, and repoquery. Just do a yum search for package*.src.rpm and you find the base source file to retrieve.?[0] http://vault.centos.org/centos/7/sclo/SourceCheers,Mike---- On Fri, 01 Mar 2019 11:18:09 -0500 Jonathan MERCIER wrote ---- Dear, I would like to see spec file used to generate SLC packages. for classical rpm I can use - yumdownloader with centos - and dnf download --source with fedora what about SLC ? Thanks Best regards -- Researcher computational biology PhD, Jonathan MERCIER Bioinformatics (LBI) 2, rue Gaston Cr?mieux 91057 Evry Cedex Tel :(33) 1 60 87 83 44 Email :jonathan.mercier at cng.fr _______________________________________________ SCLorg mailing list SCLorg at redhat.com https://www.redhat.com/mailman/listinfo/sclorg -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 1.jpg Type: image/jpeg Size: 5638 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 2.jpg Type: image/jpeg Size: 17553 bytes Desc: not available URL: From jmercier at cng.fr Thu Mar 14 08:33:08 2019 From: jmercier at cng.fr (Jonathan MERCIER) Date: Thu, 14 Mar 2019 09:33:08 +0100 Subject: [scl.org] Is it possible to get SRPMS used to build SLC ? In-Reply-To: <1697993e599.ea85c1b462081.7174511666279042215@michaelrochefort.com> References: <8fb26380-cc1d-6a99-81ae-a24b153119bd@cng.fr> <1697993e599.ea85c1b462081.7174511666279042215@michaelrochefort.com> Message-ID: <7568176c-389c-1024-3c66-0d4a6c7341ad@cng.fr> Hi Mike, Thanks for this explanation Have a good day Jonathan Le 14/03/2019 ? 01:22, Michael Rochefort a ?crit?: > Hi Jonathan, > > The source files are publicly available in the CentOS vaults[0], if > you choose to use a browser. If you wish to use the yum CLI, just > issue it with the following flag: > > --enablerepo=centos-sclo-rh-source,centos-sclo-sclo-source > > or > > --enablerepo=centos-sclo*source > > This should work with yum, yumdownloader, and repoquery. Just do a yum > search for package*.src.rpm and you find the base source file to > retrieve. > > [0] http://vault.centos.org/centos/7/sclo/Source > > Cheers, > Mike > > > ---- On Fri, 01 Mar 2019 11:18:09 -0500 Jonathan > MERCIER wrote ---- > > Dear, > > I would like to see spec file used to generate SLC packages. > > for classical rpm I can use > > - yumdownloader with centos > > - and dnf download --source with fedora > > what about SLC ? > > Thanks > > > Best regards > > -- > Jonathan MERCIER > Centre National de Recherche en G?nomique Humaine (CNRGH) > > Researcher computational biology > > PhD, Jonathan MERCIER > > Bioinformatics (LBI) > > 2, rue Gaston Cr?mieux > > 91057 Evry Cedex > > Tel :(33) 1 60 87 83 44 > > Email :jonathan.mercier at cng.fr > > _______________________________________________ > SCLorg mailing list > SCLorg at redhat.com > https://www.redhat.com/mailman/listinfo/sclorg > > > > _______________________________________________ > SCLorg mailing list > SCLorg at redhat.com > https://www.redhat.com/mailman/listinfo/sclorg -------------- next part -------------- An HTML attachment was scrubbed... URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 1.jpg Type: image/jpeg Size: 5638 bytes Desc: not available URL: -------------- next part -------------- A non-text attachment was scrubbed... Name: 2.jpg Type: image/jpeg Size: 17553 bytes Desc: not available URL: From lfarkas at lfarkas.org Sat Mar 16 16:13:48 2019 From: lfarkas at lfarkas.org (Farkas Levente) Date: Sat, 16 Mar 2019 17:13:48 +0100 Subject: [scl.org] JMC for CentOS Message-ID: hi, JMC for fedora and RHEL SCL are released. is there any plan for centos port of it? https://developers.redhat.com/blog/2019/03/15/jdk-mission-control-red-hat-build-openjdk/ thanks in advance. regards. -- Levente "Si vis pacem para bellum!" -------------- next part -------------- An HTML attachment was scrubbed... URL: From Fedora at FamilleCollet.com Mon Mar 25 13:24:46 2019 From: Fedora at FamilleCollet.com (Remi Collet) Date: Mon, 25 Mar 2019 14:24:46 +0100 Subject: [scl.org] [SCLo SIG] new sclo-php*-unit-php packages available for testing Message-ID: Yet another package available in centos-sclo-sclo-testing NGINX Unit is a dynamic web and application server, designed to run applications in multiple languages. Unit is lightweight, polyglot, and dynamically configured via API. The design of the server allows reconfiguration of specific application parameters as needed by the engineering or operations. See https://unit.nginx.org/ unit-php is the module for the php language designed to work with "unit" from official nginx repository. For rh-php72 (EL-7 only) * sclo-php72-unit-php-1.8.0-1 For rh-php71 (EL-7 only) * sclo-php71-unit-php-1.8.0-1 For rh-php70 * sclo-php70-unit-php-1.8.0-1 Remi. P.S. https://wiki.centos.org/SpecialInterestGroup/SCLo