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| -rw-r--r-- | miscellaneous/broken-guix-on-tux04-20241108.org | 162 |
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diff --git a/miscellaneous/broken-guix-on-tux04-20241108.org b/miscellaneous/broken-guix-on-tux04-20241108.org new file mode 100644 index 0000000..a3eb550 --- /dev/null +++ b/miscellaneous/broken-guix-on-tux04-20241108.org @@ -0,0 +1,162 @@ +* Broken Guix on Tux04 Troubleshooting Log + +Noticed at arount 15:30 (UTC-0500) that guix broke for no apparent reason and I +could no longer do ~guix pull~ without a "Segmentation fault" error. + +I could not even do a ~guix search~ without the error. + +Began today (2024-11-08UTC-0500) by attempting a pull, and still got the Segmentation fault. + +Try checking out an older generation + +#+begin_src sh + $ /home/fredm/opt/guix/bin/guix -p ~/opt/guix --list-generations + ⋮ + $ /home/fredm/opt/guix/bin/guix -p ~/opt/guix --delete-generations=46 + ⋮ + Segmentation fault + $ /home/fredm/opt/guix/bin/guix -p ~/opt/guix --delete-generations=40..47 + ⋮ + Segmentation fault +#+end_src + +Try pulling with someone else's guix: + +#+begin_src bash + /var/guix/profiles/per-user/aruni/current-guix/bin/guix --profile=/export3/local/home/fredm/opt/guix --channels=channels.scm +#+end_src + +#+begin_example +(repl-version 0 1 1) +Backtrace: + 1 (primitive-load "/gnu/store/2lpf5rl0dhq1v8wjfnfmglvr0p2?") +In ice-9/boot-9.scm: + 2007:7 0 (error _ . _) + +ice-9/boot-9.scm:2007:7: In procedure error: +inferior failed "/gnu/store/5rac7n9ya6qrpbz42gpn96sa47dkz7rj-guix-2394a7f5f" +#+end_example + +Fine, maybe the issue is my profile: delete all links and do a ~guix gc~ to clear any issues. + +Upgrade guix daemon + +#+begin_src bash + $ sudo -i /var/guix/profiles/per-user/aruni/current-guix/bin/guix pull + ⋮ + $ sudo systemctl stop guix-daemon.service + $ sudo systemctl start guix-daemon.service + $ sudo systemctl status guix-daemon.service +#+end_src + +Try again: No success. + +Try: +#+begin_src shell + $ /var/guix/profiles/per-user/aruni/current-guix/bin/guix describe --format=channels > channels-aruni.scm + $ /var/guix/profiles/per-user/aruni/current-guix/bin/guix pull -C channels-aruni.scm -p /home/fredm/opt/guix + $ /home/fredm/opt/guix/bin/guix search python-requests +#+end_src + +Okay, now that gives me an output! + +Try pulling latest channels: + +#+begin_src shell + $ /home/fredm/opt/guix/bin/guix pull -C channels.scm -p ~/opt/guix + ⋮ + Building from these channels: + guix-bioinformaticshttps://git.genenetwork.org/guix-bioinformatics 3659ecd + guix-forgehttps://git.systemreboot.net/guix-forge/ 9864821 + guix-past https://gitlab.inria.fr/guix-hpc/guix-past 5fb77cc + guix https://git.savannah.gnu.org/git/guix.git 2394a7f + ⋮ + building /gnu/store/gzm7jb7hj2bmfhdjzsprar8lacz34ncr-guix-past.drv... + -builder for `/gnu/store/gzm7jb7hj2bmfhdjzsprar8lacz34ncr-guix-past.drv' failed with exit code 1 + build of /gnu/store/gzm7jb7hj2bmfhdjzsprar8lacz34ncr-guix-past.drv failed + View build log at '/var/log/guix/drvs/gz/m7jb7hj2bmfhdjzsprar8lacz34ncr-guix-past.drv.gz'. + cannot build derivation `/gnu/store/rwarhjfc9kymw5k5wvl0pz658bmmmqvh-profile.drv': 1 dependencies couldn't be built + guix pull: error: build of `/gnu/store/rwarhjfc9kymw5k5wvl0pz658bmmmqvh-profile.drv' failed +#+end_src + +Okay, view the logs: +#+begin_src sh + $ gunzip -kc /var/log/guix/drvs/gz/m7jb7hj2bmfhdjzsprar8lacz34ncr-guix-past.drv.gz + (repl-version 0 1 1) + Backtrace: + 1 (primitive-load "/gnu/store/2lpf5rl0dhq1v8wjfnfmglvr0p2?") + In ice-9/boot-9.scm: + 2007:7 0 (error _ . _) + + ice-9/boot-9.scm:2007:7: In procedure error: + inferior failed "/gnu/store/5rac7n9ya6qrpbz42gpn96sa47dkz7rj-guix-2394a7f5f" +#+end_src + +Oh boy! + +How about we start with @aruni's channels and pin everything except +=guix-bioinformatics= in the code below: +#+begin_src scheme + (list (channel + (name 'guix-bioinformatics) + (url "https://git.genenetwork.org/guix-bioinformatics") + (branch "master")) + (channel + (name 'guix-forge) + (url "https://git.systemreboot.net/guix-forge/") + (branch "main") + (commit + "9864821f976b3de355138c12f287a19fdced67df") + (introduction + (make-channel-introduction + "0432e37b20dd678a02efee21adf0b9525a670310" + (openpgp-fingerprint + "7F73 0343 F2F0 9F3C 77BF 79D3 2E25 EE8B 6180 2BB3")))) + (channel + (name 'guix-past) + (url "https://gitlab.inria.fr/guix-hpc/guix-past") + (branch "master") + (commit + "5fb77cce01f21a03b8f5a9c873067691cf09d057") + (introduction + (make-channel-introduction + "0c119db2ea86a389769f4d2b9c6f5c41c027e336" + (openpgp-fingerprint + "3CE4 6455 8A84 FDC6 9DB4 0CFB 090B 1199 3D9A EBB5")))) + (channel + (name 'guix) + (url "https://git.savannah.gnu.org/git/guix.git") + (branch "master") + (commit + "b0b988c41c9e0e591274495a1b2d6f27fcdae15a") + (introduction + (make-channel-introduction + "9edb3f66fd807b096b48283debdcddccfea34bad" + (openpgp-fingerprint + "BBB0 2DDF 2CEA F6A8 0D1D E643 A2A0 6DF2 A33A 54FA"))))) +#+end_src +Put the code above in =channels.scm= and retry: + +#+begin_src sh + $ /home/fredm/opt/guix/bin/guix pull -C channels.scm -p ~/opt/guix + ⋮ + Building from these channels: + guix-bioinformaticshttps://git.genenetwork.org/guix-bioinformatics 3659ecd + guix-forgehttps://git.systemreboot.net/guix-forge/ 9864821 + guix-past https://gitlab.inria.fr/guix-hpc/guix-past 5fb77cc + guix https://git.savannah.gnu.org/git/guix.git b0b988c + ⋮ +#+end_src + +Success! + +Okay, now, try rebuilding the container: +#+begin_src sh + $ env PATH="/home/fredm/opt/guix/bin:${PATH}" ./production-deploy.sh +#+end_src + +Success! + +Check that https://gn2-fred.genenetwork.org/ is up and running: Yes! + +Okay. We are back! |