Movie encode on Redhat Enterprise Linux 8 fails to find libbz2.so

[guillaume.gaullier@…]

Begin forwarded message:

From: Guillaume Gaullier via ChimeraX-users <chimerax-users@…>
Subject: [chimerax-users] movie encode bug on Rocky Linux 8.4
Date: September 29, 2021 at 3:32:52 AM PDT
To: ChimeraX Users Help <chimerax-users@…>
Reply-To: Guillaume Gaullier

Hello,

This time I am reporting what looks almost certainly like a bug.

Using ChimeraX version 1.2.5 on Rocky Linux 8.4 (installed from the RHEL/CentOS 8 RPM package), I get the following error in the Log when trying to use the movie encode command (I attached a copy of the full error message in the Log):

/usr/libexec/UCSF-ChimeraX/bin/ffmpeg: error while loading shared libraries: libbz2.so.1.0: cannot open shared object file: No such file or directory

Turns out I definitely have libbz2 on my system, but not under the filename ChimeraX (or ffmpeg bundled with ChimeraX) is looking for:

$ ls -l /usr/lib64/ | grep libbz2
lrwxrwxrwx. 1 root root 11 Apr 7 03:44 libbz2.so -> libbz2.so.1
lrwxrwxrwx. 1 root root 15 Apr 7 03:44 libbz2.so.1 -> libbz2.so.1.0.6
-rwxr-xr-x. 1 root root 73008 Apr 7 03:44 libbz2.so.1.0.6

If I create a symlink to libbz2.so.1.0.6 and name it libbz2.so.1.0, my movie encode command finishes fine and produces a movie file. So it was easy to work around this problem, but obviously it would be a lot better if it worked out of the box and the user did not have to mess with system files as root.

Thank you in advance,

Guillaume

[Greg Couch]

Thanks for the report. I see that we're using the same ffmpeg binary for all Linux systems. Which was a mistake.

[guillaume.gaullier@…]

As Tom requested this info in the discussion on chimerax-users: I installed ChimeraX using the RPM package for CentOS/RHEL 8 (as far as I understand, Rocky should be identical, so this RPM package should be adequate for my system).
I hope this helps,

Guillaume


On 29 Sep 2021, at 23:12, ChimeraX <ChimeraX-bugs-admin@cgl.ucsf.edu<mailto:ChimeraX-bugs-admin@cgl.ucsf.edu>> wrote:

#5314: Movie encode on Redhat Enterprise Linux 8 fails to find libbz2.so
-------------------------------------------+------------------------
         Reporter:  guillaume.gaullier@…  |      Owner:  Greg Couch
             Type:  defect                |     Status:  assigned
         Priority:  moderate              |  Milestone:  1.3
        Component:  Platform              |    Version:
       Resolution:                        |   Keywords:
       Blocked By:                        |   Blocking:
Notify when closed:                        |   Platform:  all
          Project:  ChimeraX              |
-------------------------------------------+------------------------
Changes (by Greg Couch):

* milestone:   => 1.3


Comment:

Thanks for the report.  I see that we're using the same ffmpeg binary for
all Linux systems.  Which was a mistake.

--
Ticket URL: <https://www.rbvi.ucsf.edu/trac/ChimeraX/ticket/5314#comment:1>
ChimeraX <https://www.rbvi.ucsf.edu/chimerax/>
ChimeraX Issue Tracker









När du har kontakt med oss på Uppsala universitet med e-post så innebär det att vi behandlar dina personuppgifter. För att läsa mer om hur vi gör det kan du läsa här: http://www.uu.se/om-uu/dataskydd-personuppgifter/

E-mailing Uppsala University means that we will process your personal data. For more information on how this is performed, please read here: http://www.uu.se/en/about-uu/data-protection-policy

[Greg Couch]

Fixed by compiling ffmpeg separately for CentOS. Ubuntu has ffmpeg in its repository.