Re: [ext] Re: failed to install the python-umap-learn package
Dear Simon, Thank you so much, the build was successful using: guix time-machine --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 \ -C /tmp/chan.scm \ -- package -p .guix-profile -i python-umap-learn best regards, Hong From: zimoun Sent: 30 September 2020 15:54 To: Li, Hong Cc: Ludovic Courtès; help-guix@gnu.org Subject: Re: [ext] Re: failed to install the python-umap-learn package Dear, Please run: echo "%default-channels" > /tmp/chan.scm guix time-machine --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 \ -C /tmp/chan.scm \ -- package -i pyhton-umap-learn This will fix your initial issue, I guess. Exactly, this works in the end. > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 -C /tmp/chan.scm -- > package -p guix/new/.guix-profile -i python-umap-learn I have not checked in your previous email, but it is the wrong commit. I tried all succeeded commits, and this commit is the first succeeded one from 2020-01-07 03:09:35 https://data.guix.gnu.org/repository/1/branch/master/package/python-umap-learn/output-history > build of > /gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv > failed > View build log at > '/gnu/var/log/guix/drvs/vx/f3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv'. > guix package: error: build of > `/gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv' > failed It could be expected since the package 'python-scikit-learn' is broken: https://data.guix.gnu.org/repository/1/branch/master/package/python-scikit-learn/output-history especially for the commit you are trying (which is not the one you need for the working 'python-umap-learn' package). > Why this commit? 'python-umap-learn' should be broken > > This commit is the most recent succeeded build from 2020-04-18 19:24:20, you > also suggested this commit before. Ah yeah but then what was the previous commit cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523? :-) > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 -- help > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... [...] > /builder for > `/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv' failed > to produce output path > `/gnu/store/9vpcvp00acz4lvglfs1k69a4i05p5hbw-guix-package-cache' > build of /gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > failed > View build log at > '/gnu/var/log/guix/drvs/ya/j4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv'. > cannot build derivation > `/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv': 1 dependencies > couldn't be built > guix time-machine: error: build of > `/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv' failed This comes from the extra 3 channels you added. If you remove them (see above), then it should work, I guess. Hope that helps, simon
Re: [ext] Re: failed to install the python-umap-learn package
Dear, Please run: echo "%default-channels" > /tmp/chan.scm guix time-machine --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 \ -C /tmp/chan.scm \ -- package -i pyhton-umap-learn This will fix your initial issue, I guess. > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 -C /tmp/chan.scm -- > package -p guix/new/.guix-profile -i python-umap-learn I have not checked in your previous email, but it is the wrong commit. > build of > /gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv > failed > View build log at > '/gnu/var/log/guix/drvs/vx/f3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv'. > guix package: error: build of > `/gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv' > failed It could be expected since the package 'python-scikit-learn' is broken: https://data.guix.gnu.org/repository/1/branch/master/package/python-scikit-learn/output-history especially for the commit you are trying (which is not the one you need for the working 'python-umap-learn' package). > Why this commit? 'python-umap-learn' should be broken > > This commit is the most recent succeeded build from 2020-04-18 19:24:20, you > also suggested this commit before. Ah yeah but then what was the previous commit cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523? :-) > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 -- help > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... [...] > /builder for > `/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv' failed > to produce output path > `/gnu/store/9vpcvp00acz4lvglfs1k69a4i05p5hbw-guix-package-cache' > build of /gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > failed > View build log at > '/gnu/var/log/guix/drvs/ya/j4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv'. > cannot build derivation > `/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv': 1 dependencies > couldn't be built > guix time-machine: error: build of > `/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv' failed This comes from the extra 3 channels you added. If you remove them (see above), then it should work, I guess. Hope that helps, simon
Re: [ext] Re: failed to install the python-umap-learn package
Dear Simon, Now the error is coming from python-scikit-learn-0.20.4. Please find my answers and comments inline. best regards, Hong From: zimoun Sent: 30 September 2020 14:11 To: Li, Hong Cc: Ludovic Courtès; help-guix@gnu.org Subject: Re: [ext] Re: failed to install the python-umap-learn package On Wed, 30 Sep 2020 at 13:41, hong...@mdc-berlin.de wrote: > $ guix time-machine --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 -- > package -p guix/new/.guix-profile -i python3 python-umap-learn > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... [...] > |builder for `/gnu/store/jvffmvaz1rm0q11c57wmsp08h0slj9ym-guix-past.drv' > failed to produce output path > `/gnu/store/gg8fs00h7vqx29icijxpd7w99z1p8lmf-guix-past' > build of /gnu/store/jvffmvaz1rm0q11c57wmsp08h0slj9ym-guix-past.drv failed The error comes from the channel 'guix-past'. Well, I will investigate later... Therefore, you have to turn off this channel. The simplest is to run: echo "%default-channels" > /tmp/chan.scm guix time-machine --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 \ -C /tmp/chan.scm \ -- package -p guix/new/.guix-profile -i python3 python-umap-learn Hope that helps. [h...@max-login3.mdc-berlin.net:~] $ guix time-machine --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 -C /tmp/chan.scm -- package -p guix/new/.guix-profile -i python-umap-learn Updating channel 'guix' from Git repository at 'https://git.savannah.gnu.org/git/guix.git'... guile: warning: failed to install locale guix package: warning: Consider running 'guix pull' followed by 'guix package -u' to get up-to-date packages and security updates. updating substitutes from 'https://ci.guix.gnu.org'... 100.0% The following package will be installed: python-umap-learn0.3.10 /gnu/store/yg68y32h1fhngn8mqpfyc8lzfg25df48-python-umap-learn-0.3.10 substitute: updating substitutes from 'https://ci.guix.gnu.org'... 100.0% building /gnu/store/fzcysynrdkz52f077c4hbrdmpwkb01nx-python-numba-0.46.0.drv... updating substitutes from 'https://ci.guix.gnu.org'... 100.0% building /gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv... 100% 'check' [###]builder for `/gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv' failed with exit code 1 build of /gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv failed View build log at '/gnu/var/log/guix/drvs/vx/f3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv'. guix package: error: build of `/gnu/store/vxf3qwhkahgzfhwp6c63vm8vky9fj5bl-python-scikit-learn-0.20.4.drv' failed > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 -- package -p > guix/new/.guix-profile -i python3 python-umap-learn Why this commit? 'python-umap-learn' should be broken This commit is the most recent succeeded build from 2020-04-18 19:24:20, you also suggested this commit before. > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... > Computing Guix derivation for 'x86_64-linux'... WARNING: (guix build > emacs-build-system): imported module (guix build utils) overrides core > binding `delete'| > The following derivation will be built: >/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv > The following profile hook will be built: >/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > building package cache... > /builder for > `/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv' failed > to produce output path > `/gnu/store/9vpcvp00acz4lvglfs1k69a4i05p5hbw-guix-package-cache' > build of /gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > failed > View build log at > '/gnu/var/log/guix/drvs/ya/j4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache
Re: [ext] Re: failed to install the python-umap-learn package
On Wed, 30 Sep 2020 at 13:41, hong...@mdc-berlin.de wrote: > $ guix time-machine --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 -- > package -p guix/new/.guix-profile -i python3 python-umap-learn > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... [...] > |builder for `/gnu/store/jvffmvaz1rm0q11c57wmsp08h0slj9ym-guix-past.drv' > failed to produce output path > `/gnu/store/gg8fs00h7vqx29icijxpd7w99z1p8lmf-guix-past' > build of /gnu/store/jvffmvaz1rm0q11c57wmsp08h0slj9ym-guix-past.drv failed The error comes from the channel 'guix-past'. Well, I will investigate later... Therefore, you have to turn off this channel. The simplest is to run: echo "%default-channels" > /tmp/chan.scm guix time-machine --commit=cd5406effa34fa5cfda7eb7bbd2ccaf5201cf523 \ -C /tmp/chan.scm \ -- package -p guix/new/.guix-profile -i python3 python-umap-learn Hope that helps. > [h...@max-login3.mdc-berlin.net:~] $ guix time-machine > --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 -- package -p > guix/new/.guix-profile -i python3 python-umap-learn Why this commit? 'python-umap-learn' should be broken > Updating channel 'guix' from Git repository at > 'https://git.savannah.gnu.org/git/guix.git'... > Updating channel 'guix-bimsb' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb.git'... > Updating channel 'guix-past' from Git repository at > 'https://gitlab.inria.fr/guix-hpc/guix-past'... > Updating channel 'guix-bimsb-nonfree' from Git repository at > 'https://github.com/BIMSBbioinfo/guix-bimsb-nonfree.git'... > Computing Guix derivation for 'x86_64-linux'... WARNING: (guix build > emacs-build-system): imported module (guix build utils) overrides core > binding `delete'| > The following derivation will be built: >/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv > The following profile hook will be built: >/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > building package cache... > /builder for > `/gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv' failed > to produce output path > `/gnu/store/9vpcvp00acz4lvglfs1k69a4i05p5hbw-guix-package-cache' > build of /gnu/store/yaj4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv > failed > View build log at > '/gnu/var/log/guix/drvs/ya/j4m68r6l9jhdb767psz79fm84hb6x6-guix-package-cache.drv'. > cannot build derivation > `/gnu/store/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv': 1 dependencies > couldn't be built I do not know why it returns an error here. What happens if you run: guix time-machine --commit=cac674d99dc4a332e6210c57ec7f1b8164f66642 -- help ? All the best, simon
Re: [ext] Re: failed to install the python-umap-learn package
/zz2557r32hsq2ksa53ix4ygaskkrs2qi-profile.drv' failed best regards, Hong From: Ludovic Courtès Sent: 30 September 2020 10:56:24 To: zimoun Cc: Li, Hong; help-guix@gnu.org Subject: [ext] Re: failed to install the python-umap-learn package Hi, zimoun skribis: > Thank you for pointing out the issue. Using the Guix Data Service, > > > https://data.guix.gnu.org/repository/1/branch/master/package/python-umap-learn/output-history [...] > From the Guix Data Service, the first offending commit is > cac674d99dc4a332e6210c57ec7f1b8164f66642 which updates python-cython. Neat! We should put that that to good use somehow to quickly notice and fix regressions: with IRC/email notifications, ‘guix weather’ reporting info from the Data Service, things like that. Ludo’.
