From unknown Sun Aug 17 22:12:11 2025 X-Loop: help-debbugs@gnu.org Subject: bug#61121: Cannot import IJulia in Julia Resent-From: Theodore Ehrenborg Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Sat, 28 Jan 2023 13:46:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 61121 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: 61121@debbugs.gnu.org X-Debbugs-Original-To: bug-guix@gnu.org Received: via spool by submit@debbugs.gnu.org id=B.167491355929596 (code B ref -1); Sat, 28 Jan 2023 13:46:01 +0000 Received: (at submit) by debbugs.gnu.org; 28 Jan 2023 13:45:59 +0000 Received: from localhost ([127.0.0.1]:39899 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pLlWp-0007hI-2l for submit@debbugs.gnu.org; Sat, 28 Jan 2023 08:45:59 -0500 Received: from lists.gnu.org ([209.51.188.17]:60264) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pLlWk-0007h6-0s for submit@debbugs.gnu.org; Sat, 28 Jan 2023 08:45:57 -0500 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1pLlWj-0007ay-OS for bug-guix@gnu.org; Sat, 28 Jan 2023 08:45:53 -0500 Received: from mail-yw1-x1133.google.com ([2607:f8b0:4864:20::1133]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1pLlWh-0005fp-Cb for bug-guix@gnu.org; Sat, 28 Jan 2023 08:45:53 -0500 Received: by mail-yw1-x1133.google.com with SMTP id 00721157ae682-4b718cab0e4so102908757b3.9 for ; Sat, 28 Jan 2023 05:45:44 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=to:subject:message-id:date:from:mime-version:from:to:cc:subject :date:message-id:reply-to; bh=ZTSouBLFQCvmFilvCJdmqnQX1OF3j0Btv+g/x7gD2kw=; b=bq1/yGAGpOIy7X4OJCjUsS+yHUp57G7YuQ1QE7i9i/9LzEQ61bzkGKxz8T2XcEOnuI vLKcthFR5PMfMSlxctgvcvZblO1Bl1EeT4QN+4ezBOmwthVcHaswfQASLMipsmHdVTvr 51LBD9W5n2slU1jnTskKjFeeDTVhVrO1N71hweJvB5Ce0D5TLhGAqxANZnq2evaorErQ J8Q3Emdr14XRXkVmjFNWeOQjMzoUJxOBuPPq/MdG2mP1BfxS6QB/scNGwbecqIxZcW2w aLm7a7F2kv7ZQRfD1oxsCgIbPy+PvtgHYAim/3xW4rfr6MKx+UmBGWVZnRNFKcRsKjhG xUIQ== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=to:subject:message-id:date:from:mime-version:x-gm-message-state :from:to:cc:subject:date:message-id:reply-to; bh=ZTSouBLFQCvmFilvCJdmqnQX1OF3j0Btv+g/x7gD2kw=; b=AfpRNR10UBOmoReMZOUAmvegH3RRq/Ih4a7QSSa5pnOtIWyPJUSrYFX7tZ8vJ1z2PW qzOsiR+9CkbZZsXQSRbI9FORqLFRbI+ytu8e3B+f+Jl66NBfSoTn9voP5Qcjn2rl/tHk bg+9s0DrmyOFa23Bv7EMxVBAHhvYAMaFA7OwuVI6ZQapoXUVXv3R/oEhtKb2HgACX49O TmFxWzVl72DadEr4SXq3dUe4ZS4La0X508jgEohQyoV7dtNC6eFnSZt9h3ufMVUlSWt9 DdxNEf9z6mndUKhcj8alpMIX63tJdYiwDEdLmTzjxSx3aVqMTSnxLXM9zskYACJJank6 YDOg== X-Gm-Message-State: AO0yUKW1jJZUru+ZR60jxtCuVI56FXxhTMqsaRwDgrqPr6JyTU398Paa wb4f1vY4r7BmUHQAIqR0RZj0KBT4DJleZZ4rMFhh24OaOq4= X-Google-Smtp-Source: AK7set8FEVg6mejZcXHmwWzhWSYdqZ0HHpadK7JSey0K4JQZgrEvHfkYlnAwEWv+OXkrp5gM1l5dMtMZrKcxb8ki/Cc= X-Received: by 2002:a81:620b:0:b0:506:4b55:5a39 with SMTP id w11-20020a81620b000000b005064b555a39mr2244096ywb.89.1674913543582; Sat, 28 Jan 2023 05:45:43 -0800 (PST) MIME-Version: 1.0 From: Theodore Ehrenborg Date: Sat, 28 Jan 2023 13:45:00 +0000 Message-ID: Content-Type: multipart/alternative; boundary="000000000000cb79fd05f35332e8" Received-SPF: pass client-ip=2607:f8b0:4864:20::1133; envelope-from=theodore.ehrenborg@gmail.com; helo=mail-yw1-x1133.google.com X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, FREEMAIL_FROM=0.001, HTML_MESSAGE=0.001, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) --000000000000cb79fd05f35332e8 Content-Type: text/plain; charset="UTF-8" Hi Guix, I would like to run a Jupyter notebook using Julia, so I need to install the IJulia backend: guix install julia julia # Enter julia REPL ] # To go into the julia pkg REPL add IJulia # Now type backspace to go to julia REPL using IJulia This produces the error: [ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a] ERROR: LoadError: InitError: SystemError: opening file "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert.pem": No such file or directory The full error message is here: https://pastebin.com/qC8yyHXT I saw a very similar bug on Gentoo: Without this file (which can be a symbolic link to `/etc/ssl/certs/ca-certificates.crt`) many Julia 1.8.3 packages, e.g. `HTTP`, do not work. This is what happens: julia> import HTTP [ Info: Precompiling HTTP [cd3eb016-35fb-5094-929b-558a96fad6f3] ERROR: LoadError: InitError: SystemError: opening file "/usr/share/julia/cert.pem": (https://bugs.gentoo.org/888978) Any help would be greatly appreciated. Best regards, Theodore Ehrenborg --000000000000cb79fd05f35332e8 Content-Type: text/html; charset="UTF-8"

Hi Guix,

I would like to run a Jupyter notebook using Julia, so I need to install the IJulia backend: 

guix install julia
julia # Enter julia REPL
] # To go into the julia pkg REPL
add IJulia
# Now type backspace to go to julia REPL
using IJulia

This produces the error: 

[ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a]
ERROR: LoadError: InitError: SystemError: opening file "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert.pem": No such file or directory

The full error message is here: https://pastebin.com/qC8yyHXT

I saw a very similar bug on Gentoo: 

Without this file (which can be a symbolic link to `/etc/ssl/certs/ca-certificates.crt`) many Julia 1.8.3 packages, e.g. `HTTP`, do not work.
This is what happens:

julia> import HTTP
[ Info: Precompiling HTTP [cd3eb016-35fb-5094-929b-558a96fad6f3]
ERROR: LoadError: InitError: SystemError: opening file "/usr/share/julia/cert.pem":

(https://bugs.gentoo.org/888978)

Any help would be greatly appreciated.

Best regards,
Theodore Ehrenborg

--000000000000cb79fd05f35332e8-- From unknown Sun Aug 17 22:12:11 2025 X-Loop: help-debbugs@gnu.org Subject: bug#61121: Cannot import IJulia in Julia Resent-From: Simon Tournier Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Mon, 30 Jan 2023 12:48:04 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 61121 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: Theodore Ehrenborg , 61121@debbugs.gnu.org Cc: Efraim Flashner Received: via spool by 61121-submit@debbugs.gnu.org id=B61121.16750828703876 (code B ref 61121); Mon, 30 Jan 2023 12:48:04 +0000 Received: (at 61121) by debbugs.gnu.org; 30 Jan 2023 12:47:50 +0000 Received: from localhost ([127.0.0.1]:46595 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMTZe-00010M-3Z for submit@debbugs.gnu.org; Mon, 30 Jan 2023 07:47:50 -0500 Received: from mail-wm1-f51.google.com ([209.85.128.51]:39928) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMTZc-0000zP-Pf for 61121@debbugs.gnu.org; Mon, 30 Jan 2023 07:47:49 -0500 Received: by mail-wm1-f51.google.com with SMTP id hn2-20020a05600ca38200b003dc5cb96d46so970173wmb.4 for <61121@debbugs.gnu.org>; Mon, 30 Jan 2023 04:47:48 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:references :in-reply-to:subject:cc:to:from:from:to:cc:subject:date:message-id :reply-to; bh=i2uC8ZGl8gPwCoFT3AGb1GTj4v1l6nfqObR0jpZQlzo=; b=Wrx+3U3KSsblQWd27b02WAhLWJlO59kS6Ct/zi1i2ky1opkc7eqYMtRLVFNlGRwDRi wc/zxzqK69rePKBdHiRZcxPy2w1hYsOIb744AAiE8a3b1NxnuE8lmWN9t0Qpf+o94f/r W4RYnqyoKABqd/BnKnfe3IyrO5z+jNFFsrlAPjQpJoBL7MN01uK65TWCYcntEGnMuMFS MFM3GPTPDz2umPPXyu6kWoZSOQHO+gtVg9SOgYfqTbqE+broe0pQOY8+vNLCoV4mGXY4 CUvFCjy3iSXs8XyCT+HY+43UkMRoYSPfPrAzoZd5DSRGh96didZGS2asJVVHTb3yN4C8 TE1w== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:references :in-reply-to:subject:cc:to:from:x-gm-message-state:from:to:cc :subject:date:message-id:reply-to; bh=i2uC8ZGl8gPwCoFT3AGb1GTj4v1l6nfqObR0jpZQlzo=; b=YRk6+LjtXIehMnMowG5lAsZCbv+hyK7NcBaUjiBNSblCGRj7PddRytjk4AV0AZJNKc Lb5ernUoh7RRNzayDgantFQ1CtW+RnzkXrkSf6m7d/o4l5Jzw12Z9AxzFh4raf7oBSjG V4L2Okxb2kGqntRayAfGKEXYdq94MHfdIUIko5AHpvLiRkWsyA67EotCWwb/qiJsnyXb WmDB3NbWZa7tIlG8KNgbTwAimnK32cwxYd6lKR5FcldjVvXBntpSDgwyKc3NJrLWWJaR S/FksGPgxJdnarh51AT5DP7sejLJp/HjigwlDl0SIvSX9eh+NTzc8dVOJUk8iw/xy6y/ WRGQ== X-Gm-Message-State: AO0yUKWtmc2LDyUwH5PTAw2ZDZcNLnRwuCFv3lyd6TBIS490+udqjb+O 58s9vaCgOJQqL4+4jOGqE60= X-Google-Smtp-Source: AK7set9YuEEkGg/LC25FqB8nYzo3qW+K6YLHFHBg0x6iMyEhtt5vbyMtZVQFo+M6WEaSiqvj/5TABw== X-Received: by 2002:a05:600c:1e02:b0:3dc:4234:fe89 with SMTP id ay2-20020a05600c1e0200b003dc4234fe89mr2502082wmb.2.1675082863249; Mon, 30 Jan 2023 04:47:43 -0800 (PST) Received: from pfiuh07 ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id a11-20020a5d4d4b000000b00289bdda07b7sm11661857wru.92.2023.01.30.04.47.42 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Mon, 30 Jan 2023 04:47:42 -0800 (PST) From: Simon Tournier In-Reply-To: References: Date: Mon, 30 Jan 2023 13:27:50 +0100 Message-ID: <87bkmgky0p.fsf@gmail.com> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-Spam-Score: 0.0 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Hi, I confirm this bug. On sam., 28 janv. 2023 at 13:45, Theodore Ehrenborg wrote: > [ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a] > ERROR: LoadError: InitError: SystemError: opening file > "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert= .pem": > No such file or directory [...] > I saw a very similar bug on Gentoo: [...] > (https://bugs.gentoo.org/888978) Well, that=E2=80=99s because Julia upstream does not take care about packag= ers; as explicitly mentioned in this comment: https://github.com/JuliaLang/MbedTLS.jl/pull/261#issuecomment-1346886879 The Guixer Cayetano Santos fixed upstream the issue for one package. But as you are noticing it is not done for all. I do not know what is the best solution because the issue is coming from Julia itself. Efraim, any suggestion? Cheers, simon From unknown Sun Aug 17 22:12:11 2025 X-Loop: help-debbugs@gnu.org Subject: bug#61121: Cannot import IJulia in Julia Resent-From: Theodore Ehrenborg Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Mon, 30 Jan 2023 21:57:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 61121 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: Simon Tournier Cc: 61121@debbugs.gnu.org, Efraim Flashner Received: via spool by 61121-submit@debbugs.gnu.org id=B61121.167511577731943 (code B ref 61121); Mon, 30 Jan 2023 21:57:02 +0000 Received: (at 61121) by debbugs.gnu.org; 30 Jan 2023 21:56:17 +0000 Received: from localhost ([127.0.0.1]:50789 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMc8O-0008J9-OJ for submit@debbugs.gnu.org; Mon, 30 Jan 2023 16:56:17 -0500 Received: from mail-yb1-f175.google.com ([209.85.219.175]:41589) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMc8N-0008Ix-70 for 61121@debbugs.gnu.org; Mon, 30 Jan 2023 16:56:15 -0500 Received: by mail-yb1-f175.google.com with SMTP id h5so15847864ybj.8 for <61121@debbugs.gnu.org>; Mon, 30 Jan 2023 13:56:15 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=cc:to:subject:message-id:date:from:in-reply-to:references :mime-version:from:to:cc:subject:date:message-id:reply-to; bh=EuNfeA7P0JXRKMIWXaERqNv9GgexUcx0GeEQKJWj2w8=; b=EYSnv+rYAmMUVOqyJe94S4L0gflSYiuDNJJPCWECQTc0g6ccRNqTkXe0W9L7fWFsgJ HGbU04wKTogp2Pzy5xLinSK7pKYxPBi/gI9i4LLlRlXQevRON9QwQoGrNgHsev411P4R Iy0r0Te58AJdRQgec4l71ZfGGVPPbT0h4KJhesm13CA+JcSLA9OxA5fF0DVW9w2etjmH SSSyAmnuNIo/22LQv1VGhPAePjx58hTI8Jb4y3QmAfbv1N1Zf3aMKi2zYry2l5jdsQGQ OqHC5F49KsUPRVmEBpzwjRf2usxvvMue8aMGTFDdpK75gVW3rm9NELqEwg6eKtUuhiSD Cg+Q== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=cc:to:subject:message-id:date:from:in-reply-to:references :mime-version:x-gm-message-state:from:to:cc:subject:date:message-id :reply-to; bh=EuNfeA7P0JXRKMIWXaERqNv9GgexUcx0GeEQKJWj2w8=; b=L4RlQ+/7wJ+IPw24g3CYPaeNs0YkJo0MciBzf+ktm+uTf0K+51H6uF3E9sBMNTrLYn SWTTPpNtA114hTnLdhblNOaMjRUjt9wJWMnPSFpJ/UMFQ22InyoMz3v5phKPUFx1Dllq ngh9iQTraOPOHHnD8pkZwSU9bYH9poA7al+XprWHAETedJJAv6HHZ2gBzauGBSzgRax8 Z9kmBJ0GIVOYmzCPb7Eaf1Jsb/hRb3z3kJyexeU/H3OQupStx2jbYEWbL3ncPckYdC6T yluJwaM7gbWDaZ67j55TM1uSfuNxjDt+oLkWU2NJyviESOQgHL7HMX/OYSLlQIwNqM7C IxXQ== X-Gm-Message-State: AO0yUKWFDc22KNqbr7Jg11sMAppRktoJk3hERgMf8WhhIC6iziSyzuks 2v0ZBPIan8jseZ5eRX4XBsbv7VWQCjEIeweDSWI= X-Google-Smtp-Source: AK7set+ICR/jDhfoVMmx2tJxxXTKYvvGWEgog5NphH8/4UiwxPJUq8ANs5aqtTHaqBGACNoDXfKnoFcMx6X4miYbZRU= X-Received: by 2002:a25:9208:0:b0:80b:db23:b8a6 with SMTP id b8-20020a259208000000b0080bdb23b8a6mr2054243ybo.625.1675115769307; Mon, 30 Jan 2023 13:56:09 -0800 (PST) MIME-Version: 1.0 References: <87bkmgky0p.fsf@gmail.com> In-Reply-To: <87bkmgky0p.fsf@gmail.com> From: Theodore Ehrenborg Date: Mon, 30 Jan 2023 21:55:32 +0000 Message-ID: Content-Type: multipart/alternative; boundary="000000000000632ca905f382488a" X-Spam-Score: 1.0 (+) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) --000000000000632ca905f382488a Content-Type: text/plain; charset="UTF-8" Content-Transfer-Encoding: quoted-printable Hi, Thanks for getting back with me. Gentoo appears to have fixed this bug by linking julia/cert.pem to the system's ca-certificates.crt. https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3D26b59330b5222996defa= 4536237e62404bf21168 Is there a way I could rebuild my own slightly modified Julia with a link like that? I understand that there's probably a good reason that Guix's Julia doesn't by default have cert.pem, but I would be pleased with a hacky custom solution if it made Jupyter notebooks work. Thanks, Theodore Den m=C3=A5n 30 jan. 2023 kl 12:47 skrev Simon Tournier : > Hi, > > I confirm this bug. > > On sam., 28 janv. 2023 at 13:45, Theodore Ehrenborg < > theodore.ehrenborg@gmail.com> wrote: > > > [ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a] > > ERROR: LoadError: InitError: SystemError: opening file > > > "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert= .pem": > > No such file or directory > > [...] > > > I saw a very similar bug on Gentoo: > > [...] > > > (https://bugs.gentoo.org/888978) > > Well, that=E2=80=99s because Julia upstream does not take care about pack= agers; > as explicitly mentioned in this comment: > > > https://github.com/JuliaLang/MbedTLS.jl/pull/261#issuecomment-1346886879 > > The Guixer Cayetano Santos fixed upstream the issue for one package. > But as you are noticing it is not done for all. > > I do not know what is the best solution because the issue is coming from > Julia itself. > > Efraim, any suggestion? > > Cheers, > simon > --000000000000632ca905f382488a Content-Type: text/html; charset="UTF-8" Content-Transfer-Encoding: quoted-printable
Hi,

Thanks for getting back = with me.

Gentoo appears to have fixed this bug by = linking julia/cert.pem to the system's ca-certificates.crt. https://gitweb.gentoo.org/repo/gentoo.git/commit/?id= =3D26b59330b5222996defa4536237e62404bf21168

Is there a way I could rebuild my own slightly modified Julia with a link= like that?

I understand that there's pro= bably a good reason that Guix's Julia doesn't by default have cert.= pem, but I would be pleased with a hacky custom solution if it made Jupyter= notebooks work.

Thanks,
Theodore

Den m=C3=A5n 30 jan. 2023 kl 12:47 skrev Simon Tournier <zimon.toutoune@gmail.com>:
=
Hi,

I confirm this bug.

On sam., 28 janv. 2023 at 13:45, Theodore Ehrenborg <theodore.ehrenborg@gmail.com= > wrote:

> [ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a]
> ERROR: LoadError: InitError: SystemError: opening file
> "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/ju= lia/cert.pem":
> No such file or directory

[...]

> I saw a very similar bug on Gentoo:

[...]

> (https://bugs.gentoo.org/888978)

Well, that=E2=80=99s because Julia upstream does not take care about packag= ers;
as explicitly mentioned in this comment:

=C2=A0 =C2=A0 https://github= .com/JuliaLang/MbedTLS.jl/pull/261#issuecomment-1346886879

The Guixer Cayetano Santos fixed upstream the issue for one package.
But as you are noticing it is not done for all.

I do not know what is the best solution because the issue is coming from Julia itself.

Efraim, any suggestion?

Cheers,
simon
--000000000000632ca905f382488a-- From unknown Sun Aug 17 22:12:11 2025 X-Loop: help-debbugs@gnu.org Subject: bug#61121: Cannot import IJulia in Julia Resent-From: Simon Tournier Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Tue, 31 Jan 2023 11:37:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 61121 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: Theodore Ehrenborg Cc: 61121@debbugs.gnu.org, Efraim Flashner Received: via spool by 61121-submit@debbugs.gnu.org id=B61121.167516501220440 (code B ref 61121); Tue, 31 Jan 2023 11:37:02 +0000 Received: (at 61121) by debbugs.gnu.org; 31 Jan 2023 11:36:52 +0000 Received: from localhost ([127.0.0.1]:51735 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMowW-0005Jc-9R for submit@debbugs.gnu.org; Tue, 31 Jan 2023 06:36:52 -0500 Received: from mail-wr1-f49.google.com ([209.85.221.49]:34654) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pMow7-0005Ia-C4 for 61121@debbugs.gnu.org; Tue, 31 Jan 2023 06:36:27 -0500 Received: by mail-wr1-f49.google.com with SMTP id t18so13934956wro.1 for <61121@debbugs.gnu.org>; Tue, 31 Jan 2023 03:36:27 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:references :in-reply-to:subject:cc:to:from:from:to:cc:subject:date:message-id :reply-to; bh=73nE1OGN3cX8ujLhtyZhE/AevLnmpiTTMXVsEBTy/BM=; b=loL4I57hbHysPnlGByzpeZhkjZh6/g3eFo9XBwh0NFahtgySQ5gznZIie7sKhSjYx5 Cl11FZsYwKz56jgSG4oB3iZ1lprDMwzvqjUSZ5B3RfBFn+3vZdvcWWhlPiCi29NYODFI Kwo+j4aL4wA0wuqFbXv6ou5B8ZoFC2kAwau374xJ6EoWuXXyH0DmnHXwliTi7VMefDTx 0xqiqJTJSuocOQMOaFy0BtWSdxj0Wtd4e71qaRgJDhC2gQaQ4L3KqhyYUCBDBUiRcDCt ItkYCCJZjEkJ1Z+LWQ0PC9uv+W0nM/tmArEtF0wtKcwuD5LI5P0jpLzqzLIKMD9CrDWP aWEw== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20210112; h=content-transfer-encoding:mime-version:message-id:date:references :in-reply-to:subject:cc:to:from:x-gm-message-state:from:to:cc :subject:date:message-id:reply-to; bh=73nE1OGN3cX8ujLhtyZhE/AevLnmpiTTMXVsEBTy/BM=; b=VLg7LMoq3hpn/Q0ZKM6fpnBGYjFEY+cGXbXivVDB450YBnqLVfNt0wQjjtuUNnsxpW XmxnpnLMVC25nbo35tRB9zLGuU/9qJ4UuloHaTgiqDFPvOWfMMeTl/dFo/FAPj1LmJu0 P+OxlcUg9JLh/isgawRFR+s+PoDMVbD0j30S+A9EboJH84PQ98s3vjMoYCxHABG2DBou zP0f3dkpROiFQbX6KOmFPT/1zxYoGzJE/RHvgRvFVB+R2yptOQtu9bh75ORanaaO2mt2 jUwZyuEM7ExhsQpdMn+uHyGWTnEZ+K/WWKHjz0ugfU0KneDEssSL1isrJbBgzFfdhxzb MH5g== X-Gm-Message-State: AO0yUKXICZTxxr2dwH8ZpspOfSWQXtUTzRrZ0cYmiZC69HQMD/psmGZU /c33BmGRctwgfqpsZ+l8plSA23exgTI= X-Google-Smtp-Source: AK7set/ZENXQwy5nYEN+BfYBNNU9N1cF3HF8788B9mJdZKd07i46nv0L8z9r8Dyjsql+K7bnc8N8AA== X-Received: by 2002:adf:e609:0:b0:2bf:d7bc:cd15 with SMTP id p9-20020adfe609000000b002bfd7bccd15mr2223524wrm.4.1675164981892; Tue, 31 Jan 2023 03:36:21 -0800 (PST) Received: from lili ([2a01:e0a:59b:9120:65d2:2476:f637:db1e]) by smtp.gmail.com with ESMTPSA id b14-20020a05600010ce00b0029e1aa67fd2sm14591650wrx.115.2023.01.31.03.36.21 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 31 Jan 2023 03:36:21 -0800 (PST) From: Simon Tournier In-Reply-To: References: <87bkmgky0p.fsf@gmail.com> Date: Tue, 31 Jan 2023 12:34:16 +0100 Message-ID: <86o7qfuedj.fsf@gmail.com> MIME-Version: 1.0 Content-Type: text/plain; charset=utf-8 Content-Transfer-Encoding: quoted-printable X-Spam-Score: 0.0 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Hi, On Mon, 30 Jan 2023 at 21:55, Theodore Ehrenborg wrote: > Gentoo appears to have fixed this bug by linking julia/cert.pem to the > system's ca-certificates.crt. > https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3D26b59330b5222996de= fa4536237e62404bf21168 This trick is not possible, IIUC. > Is there a way I could rebuild my own slightly modified Julia with a link > like that? Maybe, by adding the package nss-certs as propagated-inputs in the definition of julia. > I understand that there's probably a good reason that Guix's Julia doesn't > by default have cert.pem, but I would be pleased with a hacky custom > solution if it made Jupyter notebooks work. The reason is security. ;-) It=E2=80=99s Julia that does poorly here. As pointed with the upstream package MbedTLS.jl, the fix should come from Julia itself; therefore, it could be worth to open an issue, if it is not already the case. ;-) >From my understanding, the culprit is this [1]: --8<---------------cut here---------------start------------->8--- function __init__() global artifact_dir =3D dirname(Sys.BINDIR) global cacert =3D normpath(Sys.BINDIR, Base.DATAROOTDIR, "julia", "cert= .pem") end --8<---------------cut here---------------end--------------->8--- And it is not clear for me if NetworkOptions.jl [2] provides the option of not, and I am missing why Julia itself does not depend on it. 1: https://github.com/JuliaLang/julia/blob/master/stdlib/MozillaCACerts_jll= /src/MozillaCACerts_jll.jl#L20 2: https://github.com/JuliaLang/NetworkOptions.jl Efraim, do you think it would be possible to patch Julia to point to some certificates via bundled_ca_roots or ca_roots_path? Well, somehow turn back these tests: --8<---------------cut here---------------start------------->8--- ;; julia embeds a certificate, we are not doing that (substitute* "stdlib/MozillaCACerts_jll/test/runtests.jl" (("@test isfile\\(MozillaCACerts_jll.cacert\\)") "@test_broken isfile(MozillaCACerts_jll.cacert)")) ;; since certificate is not present some tests are failing in = network option (substitute* "usr/share/julia/stdlib/v1.8/NetworkOptions/test/= runtests.jl" (("@test isfile\\(bundled_ca_roots\\(\\)\\)") "@test_broken isfile(bundled_ca_roots())") (("@test ispath\\(ca_roots_path\\(\\)\\)") "@test_broken ispath(ca_roots_path())") (("@test ca_roots_path\\(\\) \\!=3D bundled_ca_roots\\(\\)") "@test_broken ca_roots_path() !=3D bundled_ca_roots()")) --8<---------------cut here---------------end--------------->8--- Cheers, simon From unknown Sun Aug 17 22:12:11 2025 X-Loop: help-debbugs@gnu.org Subject: bug#61121: Cannot import IJulia in Julia Resent-From: Efraim Flashner Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Thu, 09 Feb 2023 09:31:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 61121 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: Simon Tournier Cc: 61121@debbugs.gnu.org, Theodore Ehrenborg Received: via spool by 61121-submit@debbugs.gnu.org id=B61121.16759350055377 (code B ref 61121); 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Thu, 09 Feb 2023 01:29:54 -0800 (PST) Date: Thu, 9 Feb 2023 11:29:53 +0200 From: Efraim Flashner Message-ID: Mail-Followup-To: Efraim Flashner , Simon Tournier , Theodore Ehrenborg , 61121@debbugs.gnu.org References: <87bkmgky0p.fsf@gmail.com> <86o7qfuedj.fsf@gmail.com> MIME-Version: 1.0 Content-Type: multipart/signed; micalg=pgp-sha256; protocol="application/pgp-signature"; boundary="W5mt5F0TvO9kpALK" Content-Disposition: inline In-Reply-To: <86o7qfuedj.fsf@gmail.com> X-PGP-Key-ID: 0x41AAE7DCCA3D8351 X-PGP-Key: https://flashner.co.il/~efraim/efraim_flashner.asc X-PGP-Fingerprint: A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 X-Spam-Score: 0.3 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -0.7 (/) --W5mt5F0TvO9kpALK Content-Type: text/plain; charset=utf-8 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable On Tue, Jan 31, 2023 at 12:34:16PM +0100, Simon Tournier wrote: > Hi, >=20 > On Mon, 30 Jan 2023 at 21:55, Theodore Ehrenborg wrote: >=20 > > Gentoo appears to have fixed this bug by linking julia/cert.pem to the > > system's ca-certificates.crt. > > https://gitweb.gentoo.org/repo/gentoo.git/commit/?id=3D26b59330b5222996= defa4536237e62404bf21168 >=20 > This trick is not possible, IIUC. >=20 > > Is there a way I could rebuild my own slightly modified Julia with a li= nk > > like that? >=20 > Maybe, by adding the package nss-certs as propagated-inputs in the > definition of julia. By itself I don't think this would do anything. > > I understand that there's probably a good reason that Guix's Julia does= n't > > by default have cert.pem, but I would be pleased with a hacky custom > > solution if it made Jupyter notebooks work. >=20 > The reason is security. ;-) It=E2=80=99s Julia that does poorly here. >=20 > As pointed with the upstream package MbedTLS.jl, the fix should come > from Julia itself; therefore, it could be worth to open an issue, if it > is not already the case. ;-) >=20 > From my understanding, the culprit is this [1]: >=20 > --8<---------------cut here---------------start------------->8--- > function __init__() > global artifact_dir =3D dirname(Sys.BINDIR) > global cacert =3D normpath(Sys.BINDIR, Base.DATAROOTDIR, "julia", "ce= rt.pem") > end > --8<---------------cut here---------------end--------------->8--- >=20 > And it is not clear for me if NetworkOptions.jl [2] provides the option > of not, and I am missing why Julia itself does not depend on it. >=20 > 1: https://github.com/JuliaLang/julia/blob/master/stdlib/MozillaCACerts_j= ll/src/MozillaCACerts_jll.jl#L20 > 2: https://github.com/JuliaLang/NetworkOptions.jl >=20 >=20 > Efraim, do you think it would be possible to patch Julia to point to > some certificates via bundled_ca_roots or ca_roots_path? In the initial patch for julia-1.8.1 I think there was a substitution to hardcode /etc/ssl/something instead for 'global cacert' but I took that out since we don't like hardcoding that. GIT_SSL_CAINFO=3D/home/efraim/.guix-home/profile/etc/ssl/certs/ca-certifica= tes.crt SSL_CERT_DIR=3D/run/current-system/profile/etc/ssl/certs CURL_CA_BUNDLE=3D/home/efraim/.guix-home/profile/etc/ssl/certs/ca-certifica= tes.crt SSL_CERT_FILE=3D/run/current-system/profile/etc/ssl/certs/ca-certificates.c= rt I think it would be fine to tell Julia to look at SSL_CERT_FILE as the cacert so it can be overridden as desired, and then we can add a (native-?)search-path to Julia for SSL_CERT_FILE. Does anyone know offhand how to get the environment variable? If not I'll grep the sources and then look online. > Well, somehow turn back these tests: >=20 > --8<---------------cut here---------------start------------->8--- > ;; julia embeds a certificate, we are not doing that > (substitute* "stdlib/MozillaCACerts_jll/test/runtests.jl" > (("@test isfile\\(MozillaCACerts_jll.cacert\\)") > "@test_broken isfile(MozillaCACerts_jll.cacert)")) > ;; since certificate is not present some tests are failing i= n network option > (substitute* "usr/share/julia/stdlib/v1.8/NetworkOptions/tes= t/runtests.jl" > (("@test isfile\\(bundled_ca_roots\\(\\)\\)") > "@test_broken isfile(bundled_ca_roots())") > (("@test ispath\\(ca_roots_path\\(\\)\\)") > "@test_broken ispath(ca_roots_path())") > (("@test ca_roots_path\\(\\) \\!=3D bundled_ca_roots\\(\\)= ") > "@test_broken ca_roots_path() !=3D bundled_ca_roots()")) > --8<---------------cut here---------------end--------------->8--- That one might be a little harder, I'd rather not add nss-certs to the build just for the test suite, but I'll see how it goes. Or at least update the comment afterward. >=20 > Cheers, > simon --=20 Efraim Flashner =D7=90=D7=A4=D7=A8=D7=99=D7=9D = =D7=A4=D7=9C=D7=A9=D7=A0=D7=A8 GPG key =3D A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 Confidentiality cannot be guaranteed on emails sent or received unencrypted --W5mt5F0TvO9kpALK Content-Type: application/pgp-signature; name="signature.asc" -----BEGIN PGP SIGNATURE----- iQIzBAABCAAdFiEEoov0DD5VE3JmLRT3Qarn3Mo9g1EFAmPkvRAACgkQQarn3Mo9 g1H42g/+NBbSto/YVvqnqo1gX6zgFglkzfca4ROj4qznOnZ9ho16YHD+Y2r9tQO2 shkJUzx3XfR4S3Tn8gSwHVzLttk25hcDxDwYcjsiq15qPzfdtmlOubhDQ9PcHKxZ V51m6hyzwONDxH7mvgbBs1s+R/Sj3UQ6weS5zZ7KodB7wo2XMrfGPGckc+0lz8HO o+72HsQjuqKrFrdiiLkQ9rqAz8OE/4nVYRRSUSmICLOT/1EDHfMY9T1Ka3QZte1S YSAyLfey1/s5LFPo0jOcJxNVRAtfC8aqt1m4iOXo7Dpp+jbO8lZLVkloZflHxNjx oLuwfmri2z/WSCz61Crlk+q9mgwSE2/gDKpzonyi7+F5fzH2wNH5uKy6M124/kUE TXA5MBUcj+zAReMC0sctkzwHgIrAx8aSF6Cw1RgpY7GHCaOn9YqtoGYefntN5eDX +3nCuCssy5RMyXnNaVM+XZUvP1jTSbc6X+418pxKBZBA80H/mt2quLlALRIFFZ9G Mz2KHNf0QyW2Ome0Wj65Q7uYeTc3l4ncZVaK5hTFVn29kNWPnJGJXQTqEJ6htNTZ vrDLOdtYa/JDSQ7DppbbC4+piYBj9NgMolx0qEYPwOwLbxmYjtQaMtRfSYLd6SJ/ SA7o6HUhOOIuCQjGKhbWzc+NZS5Vg2L/FASwc7clheUr/lH99rY= =9cwu -----END PGP SIGNATURE----- --W5mt5F0TvO9kpALK-- From unknown Sun Aug 17 22:12:11 2025 MIME-Version: 1.0 X-Mailer: MIME-tools 5.505 (Entity 5.505) X-Loop: help-debbugs@gnu.org From: help-debbugs@gnu.org (GNU bug Tracking System) To: Theodore Ehrenborg Subject: bug#61121: closed (Re: bug#61121: Cannot import IJulia in Julia) Message-ID: References: X-Gnu-PR-Message: they-closed 61121 X-Gnu-PR-Package: guix Reply-To: 61121@debbugs.gnu.org Date: Thu, 09 Feb 2023 14:54:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1675954442-25551-1" This is a multi-part message in MIME format... ------------=_1675954442-25551-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #61121: Cannot import IJulia in Julia which was filed against the guix package, has been closed. The explanation is attached below, along with your original report. If you require more details, please reply to 61121@debbugs.gnu.org. --=20 61121: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D61121 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1675954442-25551-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 61121-done) by debbugs.gnu.org; 9 Feb 2023 14:53:12 +0000 Received: from localhost ([127.0.0.1]:58114 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pQ8IR-0006cr-KF for submit@debbugs.gnu.org; Thu, 09 Feb 2023 09:53:11 -0500 Received: from mail-ej1-f44.google.com ([209.85.218.44]:46703) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1pQ8IQ-0006cd-4E for 61121-done@debbugs.gnu.org; Thu, 09 Feb 2023 09:53:10 -0500 Received: by mail-ej1-f44.google.com with SMTP id p26so7013505ejx.13 for <61121-done@debbugs.gnu.org>; Thu, 09 Feb 2023 06:53:10 -0800 (PST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; 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Thu, 09 Feb 2023 06:53:04 -0800 (PST) Received: from localhost ([2a02:ed3:911:6200:b62e:99ff:fef0:7bc0]) by smtp.gmail.com with ESMTPSA id p11-20020a1709066a8b00b0087f68a2681bsm975998ejr.96.2023.02.09.06.53.02 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Thu, 09 Feb 2023 06:53:03 -0800 (PST) Date: Thu, 9 Feb 2023 16:53:01 +0200 From: Efraim Flashner To: Simon Tournier Subject: Re: bug#61121: Cannot import IJulia in Julia Message-ID: Mail-Followup-To: Efraim Flashner , Simon Tournier , Theodore Ehrenborg , 61121-done@debbugs.gnu.org References: <87bkmgky0p.fsf@gmail.com> <86o7qfuedj.fsf@gmail.com> MIME-Version: 1.0 Content-Type: multipart/signed; micalg=pgp-sha256; protocol="application/pgp-signature"; boundary="eh/CUv0BbL+Ao3ps" Content-Disposition: inline In-Reply-To: <86o7qfuedj.fsf@gmail.com> X-PGP-Key-ID: 0x41AAE7DCCA3D8351 X-PGP-Key: https://flashner.co.il/~efraim/efraim_flashner.asc X-PGP-Fingerprint: A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 X-Spam-Score: 0.2 (/) X-Debbugs-Envelope-To: 61121-done Cc: 61121-done@debbugs.gnu.org, Theodore Ehrenborg X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -0.8 (/) --eh/CUv0BbL+Ao3ps Content-Type: text/plain; charset=utf-8 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable On Tue, Jan 31, 2023 at 12:34:16PM +0100, Simon Tournier wrote: >=20 > --8<---------------cut here---------------start------------->8--- > function __init__() > global artifact_dir =3D dirname(Sys.BINDIR) > global cacert =3D normpath(Sys.BINDIR, Base.DATAROOTDIR, "julia", "ce= rt.pem") > end > --8<---------------cut here---------------end--------------->8--- I've changed this line to: global cacert =3D get(ENV, \"SSL_CERT_FILE\", "\"/etc/ssl/certs/ca-certific= ates.crt\") and then tested it with the example at the beginning of the bug report. > Well, somehow turn back these tests: >=20 > --8<---------------cut here---------------start------------->8--- > ;; julia embeds a certificate, we are not doing that > (substitute* "stdlib/MozillaCACerts_jll/test/runtests.jl" > (("@test isfile\\(MozillaCACerts_jll.cacert\\)") > "@test_broken isfile(MozillaCACerts_jll.cacert)")) > ;; since certificate is not present some tests are failing i= n network option > (substitute* "usr/share/julia/stdlib/v1.8/NetworkOptions/tes= t/runtests.jl" > (("@test isfile\\(bundled_ca_roots\\(\\)\\)") > "@test_broken isfile(bundled_ca_roots())") > (("@test ispath\\(ca_roots_path\\(\\)\\)") > "@test_broken ispath(ca_roots_path())") > (("@test ca_roots_path\\(\\) \\!=3D bundled_ca_roots\\(\\)= ") > "@test_broken ca_roots_path() !=3D bundled_ca_roots()")) > --8<---------------cut here---------------end--------------->8--- I wasn't able to turn these tests back on though. --=20 Efraim Flashner =D7=90=D7=A4=D7=A8=D7=99=D7=9D = =D7=A4=D7=9C=D7=A9=D7=A0=D7=A8 GPG key =3D A28B F40C 3E55 1372 662D 14F7 41AA E7DC CA3D 8351 Confidentiality cannot be guaranteed on emails sent or received unencrypted --eh/CUv0BbL+Ao3ps Content-Type: application/pgp-signature; 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Sat, 28 Jan 2023 05:45:43 -0800 (PST) MIME-Version: 1.0 From: Theodore Ehrenborg Date: Sat, 28 Jan 2023 13:45:00 +0000 Message-ID: Subject: Cannot import IJulia in Julia To: bug-guix@gnu.org Content-Type: multipart/alternative; boundary="000000000000cb79fd05f35332e8" Received-SPF: pass client-ip=2607:f8b0:4864:20::1133; envelope-from=theodore.ehrenborg@gmail.com; helo=mail-yw1-x1133.google.com X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, FREEMAIL_FROM=0.001, HTML_MESSAGE=0.001, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-Debbugs-Envelope-To: submit X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) --000000000000cb79fd05f35332e8 Content-Type: text/plain; charset="UTF-8" Hi Guix, I would like to run a Jupyter notebook using Julia, so I need to install the IJulia backend: guix install julia julia # Enter julia REPL ] # To go into the julia pkg REPL add IJulia # Now type backspace to go to julia REPL using IJulia This produces the error: [ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a] ERROR: LoadError: InitError: SystemError: opening file "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert.pem": No such file or directory The full error message is here: https://pastebin.com/qC8yyHXT I saw a very similar bug on Gentoo: Without this file (which can be a symbolic link to `/etc/ssl/certs/ca-certificates.crt`) many Julia 1.8.3 packages, e.g. `HTTP`, do not work. This is what happens: julia> import HTTP [ Info: Precompiling HTTP [cd3eb016-35fb-5094-929b-558a96fad6f3] ERROR: LoadError: InitError: SystemError: opening file "/usr/share/julia/cert.pem": (https://bugs.gentoo.org/888978) Any help would be greatly appreciated. Best regards, Theodore Ehrenborg --000000000000cb79fd05f35332e8 Content-Type: text/html; charset="UTF-8"

Hi Guix,

I would like to run a Jupyter notebook using Julia, so I need to install the IJulia backend: 

guix install julia
julia # Enter julia REPL
] # To go into the julia pkg REPL
add IJulia
# Now type backspace to go to julia REPL
using IJulia

This produces the error: 

[ Info: Precompiling IJulia [7073ff75-c697-5162-941a-fcdaad2a7d2a]
ERROR: LoadError: InitError: SystemError: opening file "/gnu/store/npj8z0g9nx14wl22yphqfs2c5w4qk5jk-julia-1.8.3/share/julia/cert.pem": No such file or directory

The full error message is here: https://pastebin.com/qC8yyHXT

I saw a very similar bug on Gentoo: 

Without this file (which can be a symbolic link to `/etc/ssl/certs/ca-certificates.crt`) many Julia 1.8.3 packages, e.g. `HTTP`, do not work.
This is what happens:

julia> import HTTP
[ Info: Precompiling HTTP [cd3eb016-35fb-5094-929b-558a96fad6f3]
ERROR: LoadError: InitError: SystemError: opening file "/usr/share/julia/cert.pem":

(https://bugs.gentoo.org/888978)

Any help would be greatly appreciated.

Best regards,
Theodore Ehrenborg

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