[Debian-med-packaging] Bug#1115951: tombo: resquiggle.py breaks pypy3

Patrice Duroux patrice.duroux at gmail.com
Mon Sep 22 13:03:25 BST 2025


Package: tombo
Version: 1.5.1-7+b2
Severity: wishlist

Dear Maintainer,

Not sure if this have to be addressed to tombo or pypy3 but
here is what 'apt install pypy3' gives:

...
Paramétrage de pypy3 (7.3.19+dfsg-2) ...
running pypy3 rtupdate hooks for 7.3
Failed to byte-compile /usr/lib/python3/dist-packages/tombo/resquiggle.py:   File "/usr/lib/python3/dist-packages/tombo/resquiggle.py", line 311
    global r
    ^^^^^^^^
SyntaxError: name 'r' is assigned to before global declaration

running pypy3 post-rtupdate hooks for 7.3
...


This is the only error shown among all the other python relatives installed on this system.

Regards,
Patrice

-- System Information:
Debian Release: 13.1
  APT prefers stable-updates
  APT policy: (500, 'stable-updates'), (500, 'stable-security'), (500, 'proposed-updates'), (500, 'oldstable-updates'), (500, 'oldstable-security'), (500, 'oldstable-proposed-updates'), (500, 'stable'), (500, 'oldstable')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 6.12.33+deb12-amd64 (SMP w/176 CPU threads; PREEMPT)
Kernel taint flags: TAINT_PROPRIETARY_MODULE, TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE
Locale: LANG=fr_FR.UTF-8, LC_CTYPE=fr_FR.UTF-8 (charmap=UTF-8), LANGUAGE not set
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled

Versions of packages tombo depends on:
ii  libc6                                2.41-12
ii  python3                              3.13.5-1
ii  python3-h5py                         3.13.0-1
ii  python3-mappy                        2.27+dfsg-1+b3
ii  python3-numpy [python3-numpy2-abi0]  1:2.2.4+ds-1
ii  python3-packaging                    25.0-1
ii  python3-scipy                        1.15.3-1
ii  python3-tqdm                         4.67.1-5

Versions of packages tombo recommends:
ii  python3-pyfaidx  0.8.1.3-2
ii  python3-rpy2     3.5.17-2

tombo suggests no packages.

-- no debconf information


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