From unknown Sun Aug 10 16:51:05 2025 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.509 (Entity 5.509) Content-Type: text/plain; charset=utf-8 From: bug#42434 <42434@debbugs.gnu.org> To: bug#42434 <42434@debbugs.gnu.org> Subject: Status: Shell can't find basic system tools after massive garbage collection Reply-To: bug#42434 <42434@debbugs.gnu.org> Date: Sun, 10 Aug 2025 23:51:05 +0000 retitle 42434 Shell can't find basic system tools after massive garbage col= lection reassign 42434 guix submitter 42434 Alexandru-Sergiu Marton severity 42434 normal thanks From debbugs-submit-bounces@debbugs.gnu.org Sun Jul 19 16:09:21 2020 Received: (at submit) by debbugs.gnu.org; 19 Jul 2020 20:09:21 +0000 Received: from localhost ([127.0.0.1]:33112 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jxFce-00044F-QL for submit@debbugs.gnu.org; Sun, 19 Jul 2020 16:09:20 -0400 Received: from lists.gnu.org ([209.51.188.17]:53542) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jxFcd-000447-J9 for submit@debbugs.gnu.org; Sun, 19 Jul 2020 16:09:20 -0400 Received: from eggs.gnu.org ([2001:470:142:3::10]:40588) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jxFcd-0002Zh-Ec for bug-guix@gnu.org; Sun, 19 Jul 2020 16:09:19 -0400 Received: from mout01.posteo.de ([185.67.36.65]:54651) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from ) id 1jxFca-0002wv-Tw for bug-guix@gnu.org; Sun, 19 Jul 2020 16:09:18 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout01.posteo.de (Postfix) with ESMTPS id C0C8416005C for ; Sun, 19 Jul 2020 22:09:11 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.ro; s=2017; t=1595189351; bh=MKr6gR4TEIMUh5lZPgGy2S8AaxWHxpYS4Pa64y93LdI=; h=From:To:Subject:Date:From; b=K93dYlgbzzelrD2mf5VisfbIpgKz1s0shRyDifXZOwOezBPlzDqBJXlUFivqMnuNh BK6CaOA+bLm0ljXiAxZz4i9sLHypR9ySDQsw6yVEEMtfirHG/EAHFWSkI0RP8K0tBQ q22XR7Jd/ZJA/18XFOwB6zNNQJ+DmpvtVuuMDYt4VeV2sQv6DHKuNa+8TIwUNvfp+S 2oaR3BOqZcb/jaQ2qC+IQd8RNDp6l7ouFQGpPx0XiywJBsKZnsKq99dkenIAKFPfVU mPMNKWGyXbeB7qenpdB1tLxEaxg+ktS/B56DyL9lw3iNKwLMqN1MvqNejMmygfi04F KaagCe9FJs1sg== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4B8wtH1HV5z6tmB for ; Sun, 19 Jul 2020 22:09:10 +0200 (CEST) From: Alexandru-Sergiu Marton To: bug-guix@gnu.org Subject: Shell can't find basic system tools after massive garbage collection Date: Sun, 19 Jul 2020 23:09:09 +0300 Message-ID: <87eep7jmhm.fsf@posteo.ro> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/26.3 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain Received-SPF: pass client-ip=185.67.36.65; envelope-from=brown121407@posteo.ro; helo=mout01.posteo.de X-detected-operating-system: by eggs.gnu.org: First seen = 2020/07/19 16:09:12 X-ACL-Warn: Detected OS = Linux 3.11 and newer X-Spam_score_int: -43 X-Spam_score: -4.4 X-Spam_bar: ---- X-Spam_report: (-4.4 / 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, RCVD_IN_DNSWL_MED=-2.3, RCVD_IN_MSPIKE_H4=-0.01, RCVD_IN_MSPIKE_WL=-0.01, SPF_HELO_NONE=0.001, SPF_PASS=-0.001, URIBL_BLOCKED=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 (--) Hi, I run Guix System on my laptop and I wanted to free some space so I ran all the cleaning stuff I could think of: --8<---------------cut here---------------start------------->8--- guix package --delete-generations guix gc --delete-generations sudo guix system delete-generations --8<---------------cut here---------------end--------------->8--- After running them all, I had troubles using some of the most basic tools, like ls or rm. Other programs seemed fine (make, gcc, guix) as I could compile my builds of dwm and st. After I ran `guix system reconfigure` and I made sure my profile contains all the software I need at the latest version by running `guix package -m` on my manifest, everything went back to normal -- I could use ls and rm again. Sadly, I didn't gather more information as I didn't experiment much with the broken system because I freaked out and tried to fix it as fast as possible. I don't know what to make of this. Brett Gilio suggested it may have been a bad symlink job. Cheers, Sergiu From debbugs-submit-bounces@debbugs.gnu.org Fri Jul 24 19:02:30 2020 Received: (at 42434) by debbugs.gnu.org; 24 Jul 2020 23:02:30 +0000 Received: from localhost ([127.0.0.1]:48931 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jz6hy-0001XE-IH for submit@debbugs.gnu.org; Fri, 24 Jul 2020 19:02:30 -0400 Received: from eggs.gnu.org ([209.51.188.92]:53440) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1jz6hw-0001X2-LB for 42434@debbugs.gnu.org; Fri, 24 Jul 2020 19:02:29 -0400 Received: from fencepost.gnu.org ([2001:470:142:3::e]:34922) by eggs.gnu.org with esmtp (Exim 4.90_1) (envelope-from ) id 1jz6hq-0005wK-2I; Fri, 24 Jul 2020 19:02:22 -0400 Received: from [2605:6000:1a0d:48fb::e9] (port=59238 helo=lenovo-t430) by fencepost.gnu.org with esmtpsa (TLS1.2:RSA_AES_256_CBC_SHA1:256) (Exim 4.82) (envelope-from ) id 1jz6hp-00038c-Cl; Fri, 24 Jul 2020 19:02:21 -0400 From: Brett Gilio To: Alexandru-Sergiu Marton Subject: Re: bug#42434: Shell can't find basic system tools after massive garbage collection References: <87eep7jmhm.fsf@posteo.ro> Date: Fri, 24 Jul 2020 18:02:32 -0500 In-Reply-To: <87eep7jmhm.fsf@posteo.ro> (Alexandru-Sergiu Marton's message of "Sun, 19 Jul 2020 23:09:09 +0300") Message-ID: <87wo2sectz.fsf@gnu.org> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/26.3 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 42434 Cc: 42434@debbugs.gnu.org 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: -3.3 (---) Alexandru-Sergiu Marton writes: > Hi, > > I run Guix System on my laptop and I wanted to free some space so I ran > all the cleaning stuff I could think of: > > guix package --delete-generations > guix gc --delete-generations > sudo guix system delete-generations > > After running them all, I had troubles using some of the most basic > tools, like ls or rm. Other programs seemed fine (make, gcc, guix) as I > could compile my builds of dwm and st. > > After I ran `guix system reconfigure` and I made sure my profile > contains all the software I need at the latest version by running `guix > package -m` on my manifest, everything went back to normal -- I could > use ls and rm again. > > Sadly, I didn't gather more information as I didn't experiment much with > the broken system because I freaked out and tried to fix it as fast as > possible. > > I don't know what to make of this. Brett Gilio suggested it may have > been a bad symlink job. > > Cheers, > Sergiu I haven't investigated this myself, but on more thought it may also have to do with some outdated environment variables. Did you happen to reboot your computer or restart your X/Wayland session anytime after deleting the old generations and running the garbage collector? Brett Gilio From debbugs-submit-bounces@debbugs.gnu.org Sun Aug 02 02:38:12 2020 Received: (at 42434-done) by debbugs.gnu.org; 2 Aug 2020 06:38:12 +0000 Received: from localhost ([127.0.0.1]:41512 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1k27dM-0001LR-LN for submit@debbugs.gnu.org; Sun, 02 Aug 2020 02:38:12 -0400 Received: from mout01.posteo.de ([185.67.36.65]:49809) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1k27dJ-0001L8-8v for 42434-done@debbugs.gnu.org; Sun, 02 Aug 2020 02:38:11 -0400 Received: from submission (posteo.de [89.146.220.130]) by mout01.posteo.de (Postfix) with ESMTPS id B0A7616005F for <42434-done@debbugs.gnu.org>; Sun, 2 Aug 2020 08:38:02 +0200 (CEST) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/simple; d=posteo.ro; s=2017; t=1596350282; bh=cvdtDrr1hM7xoAzs7kIFAOQrRaFUry3llp+zwvYdze8=; h=From:To:Cc:Subject:Date:From; b=qtgKoUizOAXebgW8gd4lf7+HND4D9Gk4FORWZXd/UBZNP/bgBnZn4NCroWqHcM9CM WACF4Ssr08cx43EEqb/xbhAe9nEOc3m6ghpo/m8l2OrV+h71aLXb8S3977lpgW4da9 o1R2msRbI7qQzR1qYsFCJ/MOleGEenyDbVfJ/Ejuh4AqJdw7Rqtzdotof8z2mFf2u+ z3xgAdfKn+siLy3QT+RZLiRz8fTyxpcAs9UFof0xPHJvTkM/le0HG1As8tM3QY9o/G dDJ9gzxA+LLsuj32cLlOoai3LPrmUw+W1BDUHcn0zDTZQ7C+V1GqRnR2R9c8VePAIT nN5CwqSQ0Z7vg== Received: from customer (localhost [127.0.0.1]) by submission (posteo.de) with ESMTPSA id 4BKBCt0Qlgz9rxX; Sun, 2 Aug 2020 08:38:01 +0200 (CEST) From: Alexandru-Sergiu Marton To: Brett Gilio Subject: Re: bug#42434: Shell can't find basic system tools after massive garbage collection References: <87eep7jmhm.fsf@posteo.ro> <87wo2sectz.fsf@gnu.org> Date: Sun, 02 Aug 2020 12:38:02 +0300 In-Reply-To: <87wo2sectz.fsf@gnu.org> (Brett Gilio's message of "Fri, 24 Jul 2020 18:02:32 -0500") Message-ID: <877duh9ymd.fsf@posteo.ro> User-Agent: Gnus/5.13 (Gnus v5.13) Emacs/26.3 (gnu/linux) MIME-Version: 1.0 Content-Type: text/plain X-Spam-Score: -2.3 (--) X-Debbugs-Envelope-To: 42434-done Cc: 42434-done@debbugs.gnu.org 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: -3.3 (---) Hi, Brett Gilio writes: > I haven't investigated this myself, but on more thought it may also have > to do with some outdated environment variables. Did you happen to reboot > your computer or restart your X/Wayland session anytime after deleting > the old generations and running the garbage collector? > > Brett Gilio I ran those commands again on two of my machines that run Guix System and the problem no longer exists. Closing. Cheers, Sergiu From unknown Sun Aug 10 16:51:05 2025 Received: (at fakecontrol) by fakecontrolmessage; To: internal_control@debbugs.gnu.org From: Debbugs Internal Request Subject: Internal Control Message-Id: bug archived. Date: Sun, 30 Aug 2020 11:24:05 +0000 User-Agent: Fakemail v42.6.9 # This is a fake control message. # # The action: # bug archived. thanks # This fakemail brought to you by your local debbugs # administrator