Your message dated Sat, 06 Jan 2024 16:20:26 +0000 with message-id <e1rm9po-009kld...@fasolo.debian.org> and subject line Bug#1013597: fixed in octave-brain2mesh 0.7.9-3 has caused the Debian Bug report #1013597, regarding octave-brain2mesh: FTBFS: dh_missing: error: missing files, aborting to be marked as done.
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--- Begin Message ---Source: octave-brain2mesh Version: 0.7.9-2 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: lu...@debian.org Usertags: ftbfs-20220624 ftbfs-bookworm Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[1]: Entering directory '/<<PKGBUILDDIR>>' > mkdir inst > cp *.m inst > rm -rf inst/polyline*.m inst/slice*.m inst/closestnode.m inst/layersurf.m > cp LICENSE.txt COPYING > cat > DESCRIPTION << EOF > Name: brain2mesh > Version: 0.7.9 > Date: 2020-27-06 > Title: Fully automated high-quality brain tetrahedral mesh generation toolbox > Author: Qianqian Fang <fan...@gmail.com> > Maintainer: Qianqian Fang <fan...@gmail.com> > Description: The Brain2Mesh toolbox provides a streamlined matlab function > to convert > _a segmented brain volumes and surfaces into a high-quality multi-layered > _tetrahedral brain/full head mesh. Typical inputs include segmentation > _outputs from SPM, FreeSurfer, FSL etc. This tool does not handle the > _segmentation of MRI scans, but examples of how commonly encountered > _segmented datasets can be used to create meshes can be found in the > _package named brain2mesh-demos. > URL: http://mcx.space/brain2mesh > Depends: image, iso2mesh, jsonlab, jnifti, zmat > EOF > cat > INDEX << EOF > brain2mesh >> Brain2Mesh > _brain2mesh > _brain1020 > _label2tpm > _tpm2label > _intriangulation > EOF > cat > NEWS << EOF > = Brain2Mesh - A one-liner brain mesh generator = > > Brain2Mesh ChangeLog (key features marked by *): > > == Brain2Mesh 0.7.9 (codename: Pons -beta), FangQ <q.fang (at) neu.edu> == > > 2020-03-27 [1e20cf2] add surfonly option,allow per layer threshold and > smooth,fix smoothing #12 > 2020-03-02 [fbdb166] add polylinesimplify to remove sharp turns, validated > with nfri toolbox by Pepe Dan's lab > 2020-03-01 [e8bed87] now interactive clicker can handle partial initpoints > 2020-03-01 [98a42a7] first fully tested brain1020, bisect cm/sm by cz > iteratively, add demo > 2020-02-28 [eb9e57e] change license from GPL v2 to GPL v3 > 2020-02-28 [3e88bd8] allow missing seg components > 2020-02-22 [44daa41] post the final citation info > 2020-02-22 [f359abf] simplify demo scripts, test smoothing option > 2020-02-22 [8fd8d6d] normalize tpm, add cfg.imfill, update paper ref, enable > distbound opt > 2020-02-20 [3646ac6] re-enable surface smoothing option, add citation info > 2019-08-21 [eb9ebb7] convert .nii.gz based segmentation to JNIfTI format > .jnii files for portability > 2018-10-14 [2facd27] rewrite the element label mapping step > 2018-10-13 [6ae063d] add dependency check, replace surf2mesh to s2m > 2018-10-13 [5ee7ddc] major code reduction and restructure, replace max_filter > with imdilate > EOF > sed -i 's/^_/ /g' INDEX DESCRIPTION > make[1]: Leaving directory '/<<PKGBUILDDIR>>' > dh_auto_build -O--buildsystem=octave > dh_auto_test -O--buildsystem=octave > create-stamp debian/debhelper-build-stamp > dh_testroot -O--buildsystem=octave > dh_prep -O--buildsystem=octave > dh_installdirs -O--buildsystem=octave > dh_auto_install -O--buildsystem=octave > octave --no-gui --no-history --silent --no-init-file --no-window-system > /usr/share/dh-octave/install-pkg.m > /<<PKGBUILDDIR>>/debian/tmp/usr/share/octave/packages > /<<PKGBUILDDIR>>/debian/tmp/usr/lib/x86_64-linux-gnu/octave/packages > warning: creating installation directory > /<<PKGBUILDDIR>>/debian/tmp/usr/share/octave/packages > warning: called from > install at line 36 column 5 > pkg at line 603 column 9 > /usr/share/dh-octave/install-pkg.m at line 38 column 1 > > For information about changes from previous versions of the brain2mesh > package, run 'news brain2mesh'. > dh_octave_check -O--buildsystem=octave > Checking package... > Checking m files ... > Checking C++ files ... > Summary: 0 tests, 0 passed, 0 known failures, 0 skipped > dh_install -O--buildsystem=octave > dh_installdocs -O--buildsystem=octave > dh_installchangelogs -O--buildsystem=octave > dh_octave_changelogs -O--buildsystem=octave > dh_installexamples -O--buildsystem=octave > dh_octave_examples -O--buildsystem=octave > dh_octave_examples: warning: skipping link from > usr/share/doc/brain2mesh-demos/examples to self > dh_installsystemduser -O--buildsystem=octave > dh_perl -O--buildsystem=octave > dh_link -O--buildsystem=octave > dh_strip_nondeterminism -O--buildsystem=octave > dh_compress -O--buildsystem=octave > dh_fixperms -O--buildsystem=octave > dh_missing -O--buildsystem=octave > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/brain1020.m > exists in debian/tmp but is not installed to anywhere (related file: > "inst/brain1020.m") > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/brain2mesh.m > exists in debian/tmp but is not installed to anywhere (related file: > "inst/brain2mesh.m") > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/doc-cache > exists in debian/tmp but is not installed to anywhere > dh_missing: warning: > usr/share/octave/packages/brain2mesh-0.7.9/intriangulation.m exists in > debian/tmp but is not installed to anywhere (related file: > "inst/intriangulation.m") > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/label2tpm.m > exists in debian/tmp but is not installed to anywhere (related file: > "inst/label2tpm.m") > dh_missing: warning: > usr/share/octave/packages/brain2mesh-0.7.9/packinfo/DESCRIPTION exists in > debian/tmp but is not installed to anywhere > dh_missing: warning: > usr/share/octave/packages/brain2mesh-0.7.9/packinfo/INDEX exists in > debian/tmp but is not installed to anywhere > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/packinfo/NEWS > exists in debian/tmp but is not installed to anywhere (related file: "NEWS") > dh_missing: warning: usr/share/octave/packages/brain2mesh-0.7.9/tpm2label.m > exists in debian/tmp but is not installed to anywhere (related file: > "inst/tpm2label.m") > dh_missing: error: missing files, aborting > > While detecting missing files, dh_missing noted some files with a > similar name to those > that were missing. This error /might/ be resolved by replacing > references to the > missing files with the similarly named ones that dh_missing found - > assuming the content > is identical. > > As an example, you might want to replace: > * inst/brain1020.m > with: > * usr/share/octave/packages/brain2mesh-0.7.9/brain1020.m > in a file in debian/ or as argument to one of the dh_* tools called > from debian/rules. > (Note it is possible the paths are not used verbatim but instead > directories > containing or globs matching them are used instead) > > Alternatively, add the missing file to debian/not-installed if it > cannot and should not > be used. > > The following debhelper tools have reported what they installed (with > files per package) > * dh_install: brain2mesh-demos (0), matlab-brain2mesh (5), > octave-brain2mesh (0) > * dh_installdocs: brain2mesh-demos (0), matlab-brain2mesh (0), > octave-brain2mesh (3) > * dh_installexamples: brain2mesh-demos (4), matlab-brain2mesh (0), > octave-brain2mesh (0) > If the missing files are installed by another tool, please file a bug > against it. > When filing the report, if the tool is not part of debhelper itself, > please reference the > "Logging helpers and dh_missing" section from the "PROGRAMMING" guide > for debhelper (10.6.3+). > (in the debhelper package: /usr/share/doc/debhelper/PROGRAMMING.gz) > Be sure to test with dpkg-buildpackage -A/-B as the results may vary > when only a subset is built > If the omission is intentional or no other helper can take care of this > consider adding the > paths to debian/not-installed. > make: *** [debian/rules:5: binary] Error 25 The full build log is available from: http://qa-logs.debian.net/2022/06/24/octave-brain2mesh_0.7.9-2_unstable.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20220624;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20220624&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please marking it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
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--- Begin Message ---Source: octave-brain2mesh Source-Version: 0.7.9-3 Done: Rafael Laboissière <raf...@debian.org> We believe that the bug you reported is fixed in the latest version of octave-brain2mesh, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 1013...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Rafael Laboissière <raf...@debian.org> (supplier of updated octave-brain2mesh package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Sat, 06 Jan 2024 11:26:45 -0300 Source: octave-brain2mesh Architecture: source Version: 0.7.9-3 Distribution: unstable Urgency: medium Maintainer: Debian Octave Group <team+pkg-octave-t...@tracker.debian.org> Changed-By: Rafael Laboissière <raf...@debian.org> Closes: 1013597 Changes: octave-brain2mesh (0.7.9-3) unstable; urgency=medium . * Team upload . * Build-depend on dh-sequence-octave + d/control: Ditto + d/rules: Drop the --with=octave option from dh call * d/watch: Fix upstream URL * d/control: Bump Standards-Version to 4.6.2 (no changes needed) * d/copyright: + Update Source URL + Update list of copyright years for debian/* files * d/gbp.conf: Use the default merge-mode (replace) for gbp-import-orig * d/octave-brain2mesh.install: New file. Properly install the *.m files into the octave-brain2mesh binary package. (Closes: #1013597) Checksums-Sha1: 7556998a9f715b3ca5c1d388e80e7b76233e0561 2320 octave-brain2mesh_0.7.9-3.dsc 2e7ecdc8c19a601c252eaf9cec525f5e59eaaf1e 4604 octave-brain2mesh_0.7.9-3.debian.tar.xz Checksums-Sha256: a2f7f071f8d2d23bcf53975b69c95326dd3f9d47bd87abbae9d4522d6c6baee1 2320 octave-brain2mesh_0.7.9-3.dsc 3f62e81e2fb8dee660595f41837b552e2b9355bd97206a37252d2bfbd7f198df 4604 octave-brain2mesh_0.7.9-3.debian.tar.xz Files: 7ef08fc26c7d20891760e4e0db33db42 2320 science optional octave-brain2mesh_0.7.9-3.dsc e4f699045cbc189b2d6847dab9dc2f6e 4604 science optional octave-brain2mesh_0.7.9-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCAAwFiEEP0ZDkUmP6HS9tdmPISSqGYN4XJAFAmWZeTwSHHJhZmFlbEBk ZWJpYW4ub3JnAAoJECEkqhmDeFyQEfsP/0GQqiUgtWWLcPUKiVQLDEKBPlSZV980 S8i3mMFNBxsvQC+93vyzMJgVr/xuT9sILDLpgKic0yva+6WzGgPBY3iAGJ+fASsZ s+jx/VO5F3utQtEnG4b+f23uETx4zGFIN75AyYAsAKiUBnpW7qUp+sirH9PlPzmj WSHOofcvaEYMztBs6JW9bMvnsjUpnQ8RNWJX0qCarEKdI5ABAaa5lomwlXQU64B/ 2oaZm1EXrPjnZ4vMV6K+eegCvC2IeV0ERoQNV64MhgVr0CZTtxqNgrPkF0oHZqXK QUKkBCaDtLzqLdU8p1pp6qjcw3V4a7R6uPTtXuBw1RomG6DmRw5y4q50nDWqw2Ns tFj9pKZkDdtVOl7xWT6rLjc0+LymZCBJOm997X3MSKnbod0TRHLysT+MfzpL0KOk ylo15kQNrQWkVvvg3K7OJ/47HmFvzTJJY6PMRU8XfxgYM1UiqPRzw4wbh7WNOeNo gMvsQu/lBvbrYHd47yUdCmalNoN2De6hVFO1EAnWjPzulRkyM4ZOFK6+2i0Ycs+G 05PLV8Esysel4JnvC5cspr/pl7S9v31X1nDUMRo9d7eTWxe1Ff6gfa0YKDn4wcTg 6MaDGc9eNLWUTx3To/DzfblylAqGLFZptAFllLph864LSIuyK1VRfYF9J7/kAgpR qDVpRRHmHfHg =+Ajq -----END PGP SIGNATURE-----
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