[Debian-med-packaging] Bug#1121383: dssp: FTBFS: The following tests FAILED: 1 - unit-test-dssp (Failed)

[Santiago Vila]

Package: src:dssp
Version: 4.5.6-1
Severity: serious
Tags: ftbfs forky sid

Dear maintainer:

During a rebuild of all packages in unstable, this package failed to build.

Below you will find the last part of the build log (probably the most
relevant part, but not necessarily). If required, the full build log
is available here:

https://people.debian.org/~sanvila/build-logs/202511/

[ Note: There has been a recent upload for libcifpp, one of the build-depends,
  so I'm adding Maarten L. Hekkelman in X-debbugs-Cc ]

About the archive rebuild: The build was made on virtual machines from AWS,
using sbuild and a reduced chroot with only build-essential packages.

If you cannot reproduce the bug please contact me privately, as I
am willing to provide ssh access to a virtual machine where the bug is
fully reproducible.

If this is really a bug in one of the build-depends, please use
reassign and add an affects on src:dssp, so that this is still
visible in the BTS web page for this package.

Thanks.

--------------------------------------------------------------------------------
[...]
  OTHER        OTHER11       ? GLU A 118 ? GLU A 118 ? GLU A 118 GLU A 118 ? ?
  ? 
  STRN         STRN9         ? LEU A 119 ? ALA A 125 ? LEU A 119 ALA A 125 ? ?
  ? 
  TURN_TY1_P   TURN_TY1_P8   ? ASP A 126 ? ASP A 127 ? ASP A 126 ASP A 127 ? ?
  ? 
  STRN         STRN10        ? VAL A 128 ? ARG A 136 ? VAL A 128 ARG A 136 ? ?
  ? 
  OTHER        OTHER12       ? GLU A 137 ? GLU A 137 ? GLU A 137 GLU A 137 ? ?
  ? 
  # 


Configuration error:

The attempt to retrieve compound information for "PRO" failed.

This information is searched for in a CCD file called components.cif or
components.cif.gz which should be located in one of the following directories:

"/<<PKGBUILDDIR>>/test/../libdssp/mmcif_pdbx/"
"/var/cache/libcifpp"
"/usr/share/libcifpp"

(Note that you can add a directory to the search paths by setting the 
LIBCIFPP_DATA_DIR environmental variable)

On Linux an optional cron script might have been installed that automatically updates
components.cif and mmCIF dictionary files. This script only works when the file
libcifpp.conf contains an uncommented line with the text:

update=true

If you do not have a working cron script, you can manually update the files
in /var/cache/libcifpp using the following commands:

curl -o /var/cache/libcifpp/components.cif https://files.wwpdb.org/pub/pdb/data/monomers/components.cif
curl -o /var/cache/libcifpp/mmcif_pdbx.dic https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_pdbx_v50.dic
curl -o /var/cache/libcifpp/mmcif_ma.dic https://mmcif.wwpdb.org/dictionaries/ascii/mmcif_ma.dic

No compound factory objects are created since none of the data sources is found.
Unknown compound: PRO
Unknown compound: ASN
Unknown compound: PHE
Unknown compound: SER
Unknown compound: GLY
Unknown compound: TRP
Unknown compound: LYS
Unknown compound: ILE
Unknown compound: ARG
Unknown compound: GLU
Unknown compound: LEU
Unknown compound: VAL
Unknown compound: MET
Unknown compound: ALA
Unknown compound: GLN
Unknown compound: ASP
Unknown compound: THR
Unknown compound: TYR
Unknown compound: CYS
Unknown compound: REA
Unknown compound: HOH
===============================================================================
test cases:    6 |    5 passed | 1 failed
assertions: 1273 | 1272 passed | 1 failed



0% tests passed, 1 tests failed out of 1

Total Test time (real) =   0.64 sec

The following tests FAILED:
	  1 - unit-test-dssp (Failed)
Errors while running CTest
make[1]: *** [Makefile:94: test] Error 8
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j2 test ARGS\+=--verbose ARGS\+=-j2 returned exit code 2
make: *** [debian/rules:15: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------