[Debian-med-packaging] Bug#1063191: libcifpp-data: Incorrect URL in update-libcifpp-data script

[Rick Bernard]

Package: libcifpp-data
Version: 5.0.7.1-3
Severity: important
Tags: patch

Dear Maintainer,

*** Reporter, please consider answering these questions, where appropriate ***

   * What led up to the situation?
   Installing libcifpp-data via "apt install".  The incorrect URL causes apt to
hang for a long period of time before returrning to a prompt.  As a result, the
file supposed to be loaced in /var/cache/libcifpp/components.cif fails to
download.  The Stable version of this package was showing timeout errors when
attempting to connect to https://ftp.wwpdb.org.  The correct URL that is
published by wwpdb.org is https://files.wwpdb.org for downloading via HTTP.
This will happen durring install via apt when you are prompted Package
configuration about setting up weekly downloads of these data files from
wwpdb.org.

   * What exactly did you do (or not do) that was effective (or
     ineffective)?
    Editing the file /etc/cron.weekly/update-libcifpp-data and changing the URL
for the components.cif download from https://ftp.wwpdb.org to
https://files.wwpdb.org leaving all subpaths the same resolves the issue.  This
also helps with the stable version of this package and fixes dpkg and apt when
running "dpkg --configure -a"

   * What was the outcome of this action?
     Resolves the package install and fixes apt/dpkg package management system.

   * What outcome did you expect instead?
    The expected outcome is that "apt install" will successfully install the
package and be able to run the download scripts successfully.

*** End of the template - remove these template lines ***


-- System Information:
Debian Release: 12.4
  APT prefers stable
  APT policy: (990, 'stable'), (500, 'stable-security'), (500, 'testing')
Architecture: amd64 (x86_64)
Foreign Architectures: i386

Kernel: Linux 6.1.0-17-amd64 (SMP w/12 CPU threads; PREEMPT)
Locale: LANG=en_US.UTF-8, LC_CTYPE=en_US.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 libcifpp-data depends on:
ii  debconf [debconf-2.0]  1.5.82

libcifpp-data recommends no packages.

libcifpp-data suggests no packages.

-- debconf information:
* libcifpp/update: true
-------------- next part --------------
--- update-libcifpp-data.orig	2024-02-05 11:13:15.964579981 -0500
+++ update-libcifpp-data	2024-02-05 11:24:35.219320601 -0500
@@ -60,7 +60,7 @@
 
 # Update the dictionaries
 
-update_dictionary "/var/cache/libcifpp/components.cif" "https://ftp.wwpdb.org/pub/pdb/data/monomers/components.cif.gz"
+update_dictionary "/var/cache/libcifpp/components.cif" "https://files.wwpdb.org/pub/pdb/data/monomers/components.cif.gz"
 update_dictionary "/var/cache/libcifpp/mmcif_pdbx.dic" "https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic.gz"
 update_dictionary "/var/cache/libcifpp/mmcif_ma.dic" "https://github.com/ihmwg/ModelCIF/raw/master/dist/mmcif_ma.dic"