From unknown Tue Jun 17 01:43:27 2025 X-Loop: help-debbugs@gnu.org Subject: bug#78010: Installed package content got corrupted in some situations Resent-From: Shyam Saran Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Wed, 23 Apr 2025 10:12:03 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 78010 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: 78010@debbugs.gnu.org X-Debbugs-Original-To: bug-guix@gnu.org Received: via spool by submit@debbugs.gnu.org id=B.174540310629311 (code B ref -1); Wed, 23 Apr 2025 10:12:03 +0000 Received: (at submit) by debbugs.gnu.org; 23 Apr 2025 10:11:46 +0000 Received: from localhost ([127.0.0.1]:53855 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1u7X4z-0007cW-2W for submit@debbugs.gnu.org; Wed, 23 Apr 2025 06:11:45 -0400 Received: from lists.gnu.org ([2001:470:142::17]:47174) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from ) id 1u7X4u-0007bq-KS for submit@debbugs.gnu.org; Wed, 23 Apr 2025 06:11:42 -0400 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 1u7X4o-000787-AN for bug-guix@gnu.org; Wed, 23 Apr 2025 06:11:34 -0400 Received: from mail-oi1-x241.google.com ([2607:f8b0:4864:20::241]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.90_1) (envelope-from ) id 1u7X4k-00036K-NP for bug-guix@gnu.org; Wed, 23 Apr 2025 06:11:34 -0400 Received: by mail-oi1-x241.google.com with SMTP id 5614622812f47-3fcfc85f1f5so1492982b6e.2 for ; Wed, 23 Apr 2025 03:11:29 -0700 (PDT) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=gmail.com; s=20230601; t=1745403089; x=1746007889; darn=gnu.org; h=to:subject:message-id:date:from:mime-version:from:to:cc:subject :date:message-id:reply-to; bh=+7PViR+GsiudKABmlHGSTz+sKc1+LxjpGWmseqZMt1E=; b=XJkkeJ1YnzyEAaM+sqt2iDTGVkZLL1fgN+QtP5eqwoPBQg3NVinY+7g4MmEgp3ftDl QUcXjbH5mIk0/H9ASIHSF9KPfqPHRiQFGOD1PfSd7q8nTstOfltKcHaODYPFZUt8eCuo uiAKFcRs3QaH0XqOZQj2tquk8SQZQBZH9bOFW5N0rDW+MxIQvQvwB5YQ8PiKiV0+9OFw snNT0Va6d27yowxZAA6wPchbyoS4wwrgDhYgfaVIco8HUnYjwEzO5d0akOh2kD0afDVG PC992RJ6RF+1yEUnv0D56GiBqzLFLQ8OqBBs3KDIUSdNeh7CqWsJ8yhKOQizBBn1x7br YT+Q== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20230601; t=1745403089; x=1746007889; h=to:subject:message-id:date:from:mime-version:x-gm-message-state :from:to:cc:subject:date:message-id:reply-to; bh=+7PViR+GsiudKABmlHGSTz+sKc1+LxjpGWmseqZMt1E=; b=KZqXtBQihPSZVyqtuJwuDaKq/kX5Rcwtu46+usUZAl2V1zmZMjIL30WpxehxVQd40G YJhtXV5Rtl72S50Z4/IZEzCZSAp02kVruuN6RPMNvrAyV3I4GgCDODQ0OEDa2ZQNA5aP G6QsWXxI40TJ0DULluw5wz2kAfpHuVriIiDaVuHjFS26wa/9TnBqN1egx1jk+uwPO0yr Qi334L4GwYxgF2RYB5WIfEvuX/EwuuDlmEb9zEFI/4UqrFN8/O28Vq/5nsUiPsk//G5Z DlZcYyLVtD54zhXR7vLRwQYgvalXSyRD/MCfcPA+vJFNRudSRhA23cKv0nbP3qupSZMP fWWA== X-Gm-Message-State: AOJu0Yy4BOm3VD+TOqc0M6rTWzIlEZgXxdMN8UkDYVlgYz5nnpeiO4sr c4ZH+ih161WgjwBHhzARPkAsdzZbgB2i2cfc2P10ADUhliKM13PhDYm+McICpU8+lg0VIIX6QA8 KQwu7cMwfhVk2/oPIbfuslP0HGRQrlyHJ30DN0g== X-Gm-Gg: ASbGncvB0Ph88y/dQscAVh4smpTNCiOSx5avRqllRr/vblXHnNOX4dClQFHh6T/UsRr HlhXOneUvqQ9SvefE8u0mrfcp6v/UxW0SWtUruxGvRP+7xb8IFDUU3BVEFXbwy876boaCoqwoKg sXkYEGWwx/5Mwwt3+60ZPT X-Google-Smtp-Source: AGHT+IFNLIHGd7EsABG6ai7C0GWlghRJZDce2Cx6Wz2qa7/3k3FCRI2T5pDiAOfNQGRxRwGjqy56KsBXvmpwxB/bXqA= X-Received: by 2002:a54:439a:0:b0:401:cd6d:25e2 with SMTP id 5614622812f47-401cd6d2b9bmr6446321b6e.4.1745403088741; Wed, 23 Apr 2025 03:11:28 -0700 (PDT) MIME-Version: 1.0 From: Shyam Saran Date: Wed, 23 Apr 2025 15:41:18 +0530 X-Gm-Features: ATxdqUF0UFJ1LYd4ih1DyvduUPWJ9hVAEon-kH1Zcd-beiKe--jISUcKL2TAtwM Message-ID: Content-Type: multipart/alternative; boundary="000000000000182e1906336f53b9" Received-SPF: pass client-ip=2607:f8b0:4864:20::241; envelope-from=syamsaran12345@gmail.com; helo=mail-oi1-x241.google.com X-Spam_score_int: -17 X-Spam_score: -1.8 X-Spam_bar: - X-Spam_report: (-1.8 / 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_ENVFROM_END_DIGIT=0.25, 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: 1.2 (+) X-Spam-Report: Spam detection software, running on the system "debbugs.gnu.org", has NOT identified this incoming email as spam. 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Content preview: Installed package content got corrupted in some situations like with /gnu/ on lvm disk when disk full which later resized online with lvresize $ df /gnu Filesystem Size Used Avail Use% Mounted on /dev/mapper/VGguix-gnu 116G 115G 0G 100% /gnu Content analysis details: (1.2 points, 10.0 required) pts rule name description ---- ---------------------- -------------------------------------------------- 1.0 SPF_SOFTFAIL SPF: sender does not match SPF record (softfail) -0.0 SPF_HELO_PASS SPF: HELO matches SPF record 0.2 FREEMAIL_ENVFROM_END_DIGIT Envelope-from freemail username ends in digit (syamsaran12345[at]gmail.com) 0.0 FREEMAIL_FROM Sender email is commonly abused enduser mail provider (syamsaran12345[at]gmail.com) -0.0 RCVD_IN_DNSWL_NONE RBL: Sender listed at https://www.dnswl.org/, no trust [2001:470:142:0:0:0:0:17 listed in] [list.dnswl.org] 0.0 HTML_MESSAGE BODY: HTML included in message 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: 0.2 (/) --000000000000182e1906336f53b9 Content-Type: text/plain; charset="UTF-8" Installed package content got corrupted in some situations like with /gnu/ on lvm disk when disk full which later resized online with lvresize $ df /gnu Filesystem Size Used Avail Use% Mounted on /dev/mapper/VGguix-gnu 116G 115G 0G 100% /gnu which later fixed by below command online, while guix upgrade/install is going $ LVPART=/dev/mapper/VGguix-gnu $ sudo fsck -n $LVPART $ sudo lvresize -L +10G $LVPART $ sudo resize2fs $LVPART $ sudo fsck -n $LVPART For example /gnu/store/lysmrhh9i44aawwx406829lw581jizq6-qtbase-5.15.15/lib/libQt5Concurrent.so.5.15.15 file content become zero as during installation space become full due to less disk space space. and sudo guix gc --verify=repair,contents also not fixed these issues and when I has reinstalled whole guixsd os again things started working Similar case now happened for /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so $ md5sum /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so 9543d63a0c2bf7396bd138e0ceb090fa /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so And here is not way to reinstall it as many other packages are depending on it $ guix gc -D /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1 finding garbage collector roots... guix gc: error: cannot delete path `/gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1' since it is still alive This force me to reinstall whole GuixSD So the grantee that package content will be same is broken in case of disk full error ( followed by recover by increasing space online.) * Either this should not happen at first place, if content error happen then abort install operation (means after install ensure if install is really as expected.) * Or here were some kind of repair-ability to get out of this problem as $ sudo guix gc --verify=repair,contents also not help here Regards and Thanks, -- /shyam --000000000000182e1906336f53b9 Content-Type: text/html; charset="UTF-8" Content-Transfer-Encoding: quoted-printable

Installed package content got corrupt= ed in some situations like
with /gnu/ on lvm disk when disk full which = later resized online with lvresize

$ df /gnu
Filesystem =C2=A0 =C2=A0 =C2=A0 = =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0Size =C2=A0Us= ed Avail Use% Mounted on
/dev/mapper/VGguix-gnu =C2=A0116G =C2=A0115G=C2= =A0 0G=C2=A0 100% /gnu

whi= ch later fixed by below command online, while guix upgrade/install is going=
$ LVPART=3D/dev/mapper/VGguix-gnu
$ sudo fsck -n $LVPART
$ sudo lvresize -L +1= 0G $LVPART
$ sudo resize2fs $LVPART
$ sudo fsck -n $LVPART




For example
/gnu/store/lysmrhh9i44aaww= x406829lw581jizq6-qtbase-5.15.15/lib/libQt5Concurrent.so.5.15.15
file content become zero as during installation space become fu= ll due to less disk space space.
and
sudo guix gc =C2=A0--verify=3Drepair,contents
also not fixed these issues
and when= I has reinstalled whole guixsd os again things started working
<= br>

Similar case now happened for
/= gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscomm= on.so
$ md5sum /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1= .56.1/lib/gvfs/libgvfscommon.so
9543d63a0c2bf7396bd138e0ceb090fa =C2=A0/= gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscomm= on.so


And here is not way to reinstall it as many oth= er packages are depending on it
$ guix gc -D =C2=A0/gnu/store/i7z= 4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2= =A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0
finding garbage collector roots.= .. =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 = =C2=A0 =C2=A0
guix gc: error: cannot delete path `/gnu/store/i7z4r54cic4= g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1' since it is still alive

This = force me to reinstall whole GuixSD

So the grantee that pa= ckage content will be same is broken in case of disk full error ( followed = by=C2=A0 recover by increasing space online.)

* Ei= ther this should not happen at first place, if content error happen then ab= ort install operation
=C2=A0(means after install ensure if instal= l is really as expected.)
* Or here were some kind of repair-abil= ity to get out of this problem as
=C2=A0=C2=A0 $ sudo guix gc =C2=A0--verify=3Drepair,contents
=C2= =A0also not help here


Regards and Thanks,
--
=
/shyam




--000000000000182e1906336f53b9-- From unknown Tue Jun 17 01:43:27 2025 X-Loop: help-debbugs@gnu.org Subject: bug#78010: Installed package content got corrupted in some situations Resent-From: Shyam Saran Original-Sender: "Debbugs-submit" Resent-CC: bug-guix@gnu.org Resent-Date: Wed, 23 Apr 2025 18:07:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 78010 X-GNU-PR-Package: guix X-GNU-PR-Keywords: To: 78010@debbugs.gnu.org Received: via spool by 78010-submit@debbugs.gnu.org id=B78010.174543161329604 (code B ref 78010); Wed, 23 Apr 2025 18:07:02 +0000 Received: (at 78010) by debbugs.gnu.org; 23 Apr 2025 18:06:53 +0000 Received: from localhost ([127.0.0.1]:58757 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1u7eUl-0007h8-Q8 for submit@debbugs.gnu.org; Wed, 23 Apr 2025 14:06:53 -0400 Received: from mail-oo1-xc44.google.com ([2607:f8b0:4864:20::c44]:52461) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_GCM_SHA256:128) (Exim 4.84_2) (envelope-from ) id 1u7eUf-0007ex-5S for 78010@debbugs.gnu.org; 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Wed, 23 Apr 2025 11:06:38 -0700 (PDT) MIME-Version: 1.0 References: In-Reply-To: From: Shyam Saran Date: Wed, 23 Apr 2025 23:36:26 +0530 X-Gm-Features: ATxdqUHuZhJ1TzNilpFbySgAioZjH2IkfPqn-3CBq8xqtvNdX2-vXqLuoYw6E0Y Message-ID: Content-Type: multipart/alternative; boundary="0000000000006a2a17063375f6e4" 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 (/) --0000000000006a2a17063375f6e4 Content-Type: text/plain; charset="UTF-8" May be these two both * Either this should not happen at first place, if content error happen then abort install operation (means after install ensure if install is really as expected.) * Or here were some kind of repair-ability to get out of this problem as $ sudo guix gc --verify=repair,contents also not help here solution required As it may be possible before installation directory were synced to disk it may have correct content and after it were tried to be synced to disk it got corrupted So after install solution of repair-ability also require On Wed, 23 Apr 2025 at 15:41, Shyam Saran wrote: > > Installed package content got corrupted in some situations like > with /gnu/ on lvm disk when disk full which later resized online with > lvresize > > $ df /gnu > Filesystem Size Used Avail Use% Mounted on > /dev/mapper/VGguix-gnu 116G 115G 0G 100% /gnu > > which later fixed by below command online, while guix upgrade/install is > going > $ LVPART=/dev/mapper/VGguix-gnu > $ sudo fsck -n $LVPART > $ sudo lvresize -L +10G $LVPART > $ sudo resize2fs $LVPART > $ sudo fsck -n $LVPART > > > > > For example > > /gnu/store/lysmrhh9i44aawwx406829lw581jizq6-qtbase-5.15.15/lib/libQt5Concurrent.so.5.15.15 > file content become zero as during installation space become full due to > less disk space space. > and > sudo guix gc --verify=repair,contents > also not fixed these issues > and when I has reinstalled whole guixsd os again things started working > > > Similar case now happened for > > /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so > $ md5sum > /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so > 9543d63a0c2bf7396bd138e0ceb090fa > /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so > > > And here is not way to reinstall it as many other packages are depending > on it > $ guix gc -D /gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1 > > finding garbage collector roots... > guix gc: error: cannot delete path > `/gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1' since it is still > alive > > This force me to reinstall whole GuixSD > > So the grantee that package content will be same is broken in case of disk > full error ( followed by recover by increasing space online.) > > * Either this should not happen at first place, if content error happen > then abort install operation > (means after install ensure if install is really as expected.) > * Or here were some kind of repair-ability to get out of this problem as > $ sudo guix gc --verify=repair,contents > also not help here > > > Regards and Thanks, > -- > /shyam > > > > > --0000000000006a2a17063375f6e4 Content-Type: text/html; charset="UTF-8" Content-Transfer-Encoding: quoted-printable


May be= these two both


* Either this = should not happen at first place, if content error happen then abort instal= l operation
=C2=A0(means after install ensure if install is reall= y as expected.)
* Or here were some kind of repair-ability to get= out of this problem as
=C2=A0=C2=A0 $ sudo guix gc = =C2=A0--verify=3Drepair,contents
=C2=A0also not help here


solution required
As it may be p= ossible before installation directory were synced to disk
it may = have correct content and after it were tried to be synced to disk it got co= rrupted

So after install solution of repair-abili= ty also require




=



On Wed, 23 Apr 202= 5 at 15:41, Shyam Saran <sya= msaran12345@gmail.com> wrote:

Installed package content got corrupted = in some situations like
with /gnu/ on lvm disk when disk full which lat= er resized online with lvresize

$ df /gnu
Filesystem =C2=A0 =C2=A0 =C2=A0 = =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0Size =C2=A0Us= ed Avail Use% Mounted on
/dev/mapper/VGguix-gnu =C2=A0116G =C2=A0115G=C2= =A0 0G=C2=A0 100% /gnu

which later fixed by below command online, while gu= ix upgrade/install is going
$ LVPART=3D/dev/mapper/VGguix-gnu
$ sudo fsck = -n $LVPART
$ sudo lvresize -L +10G $LVPART
$ sudo resize2fs $LVPART
$ sudo fsck -= n $LVPART




For example
/gnu/store/lysmrhh9i44aawwx406829lw581ji= zq6-qtbase-5.15.15/lib/libQt5Concurrent.so.5.15.15
file content become zero a= s during installation space become full due to less disk space space.
=
and sudo guix gc =C2=A0--verify=3Drepair,contents
also not fixed th= ese issues
and when I has reinstalled whole guixsd os again things starte= d working


Similar case now happened= for
/gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1= /lib/gvfs/libgvfscommon.so
$ md5sum /gnu/store/i7z4r54cic4g5s15b1= q9k1w5a6kvwadw-gvfs-1.56.1/lib/gvfs/libgvfscommon.so
9543d63a0c2bf7396bd= 138e0ceb090fa =C2=A0/gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1= /lib/gvfs/libgvfscommon.so


And here is not way to rei= nstall it as many other packages are depending on it
$ guix gc -D= =C2=A0/gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1 =C2=A0 =C2= =A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0
finding gar= bage collector roots... =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 = =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0
guix gc: error: cannot delete path `/= gnu/store/i7z4r54cic4g5s15b1q9k1w5a6kvwadw-gvfs-1.56.1' since it is sti= ll alive

This force me to reinstall whole GuixSD

S= o the grantee that package content will be same is broken in case of disk f= ull error ( followed by=C2=A0 recover by increasing space online.)

* Either this should not happen at first place, if content= error happen then abort install operation
=C2=A0(means after ins= tall ensure if install is really as expected.)
* Or here were som= e kind of repair-ability to get out of this problem as
=C2=A0=C2= =A0 $ sudo guix gc =C2=A0--verify=3Drepair,contents
= =C2=A0also not help here


Regards and Thanks,
--
/shyam




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