[med-svn] [Git][med-team/community/helper-scripts][master] automatic update
Andreas Tille
gitlab at salsa.debian.org
Sat Apr 18 02:44:40 BST 2020
Andreas Tille pushed to branch master at Debian Med / community / helper-scripts
Commits:
8c9de2ad by Andreas Tille at 2020-04-18T01:44:35+00:00
automatic update
- - - - -
2 changed files:
- debian-med-tests.txt
- outdated_med-packages.txt
Changes:
=====================================
debian-med-tests.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Fri, 17 Apr 2020 13:42:03 +0000
+Last-Update: Sat, 18 Apr 2020 01:42:03 +0000
Source | Vote | Tasks | Tags
-------------------------------+--------+-----------------------------------------------------+----------------------------------------------------------------------
=====================================
outdated_med-packages.txt
=====================================
@@ -1,4 +1,4 @@
-Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
+Last-Update: Sat, 18 Apr 2020 01:42:03 +0000
source | version | upstream_version | uploaders | Last uploader | Last uploaded
-------------------------------+---------------------------------+---------------------------------+-----------------------------------------------------------------------------+----------------------+------------------------
@@ -32,7 +32,6 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
kissplice | 2.4.0-p1 | 2.5.0 | Andreas Tille,David Parsons | Saira Hussain | 2019-08-14 21:04:51+00
kma | 1.2.21 | 1.2.22 | Andreas Tille | Steffen Moeller | 2020-01-17 22:54:10+00
libbioparser-dev | 2.0.1 | 2.1.2 | Andreas Tille | Andreas Tille | 2019-07-15 13:35:45+00
- libgclib | 0.11.4 | 0.11.8 | Andreas Tille,Michael R. Crusoe,Steffen Moeller | Michael R. Crusoe | 2020-02-14 13:04:26+00
libjloda-java | 0.0+git20180523.cbaf6d1 | 0.0+git20200412.bd83097 | Andreas Tille | Andreas Tille | 2018-05-25 21:49:43+00
libmaus2 | 2.0.713 | 2.0.715 | Andreas Tille,Steffen Moeller | Andreas Tille | 2020-03-27 09:34:39+00
libsis-base-java | 18.09~pre1+git20180827.fe4953e | 18.09~pre1+git20180928.45fbd31 | Andreas Tille,Olivier Sallou,Tim Booth | Andreas Tille | 2018-09-26 08:35:30+00
@@ -56,7 +55,7 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
python-pymummer | 0.10.3 | 0.11.0 | Afif Elghraoui | Andreas Tille | 2019-01-07 09:06:07+00
python-treetime | 0.7.1 | 0.7.5 | Andreas Tille | Steffen Moeller | 2020-01-18 20:52:48+00
python-xopen | 0.8.4 | 0.9.0 | Andreas Tille | Steffen Moeller | 2019-11-05 15:34:45+00
- q2templates | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Liubov Chuprikova | 2019-11-14 22:00:17+00
+ q2templates | 2019.10.0 | 2020.2.0 | Liubov Chuprikova | Andreas Tille | 2020-04-17 08:33:47+00
resfinder-db | 0.0+git20191001.149209d | 0.0+git20200408.0322c0d | Andreas Tille | Andreas Tille | 2019-11-16 23:00:12+00
seaview | 4.7 | 5.0.2 | Andreas Tille,Charles Plessy | Andreas Tille | 2018-05-09 13:43:40+00
simka | 1.5.1 | 1.5.2 | Shayan Doust | Andreas Tille | 2020-01-12 18:49:47+00
@@ -68,13 +67,15 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
sumatra | 1.0.34 | 1.0.36 | Andreas Tille,Tim Booth | Andreas Tille | 2020-04-09 12:34:03+00
umis | 1.0.6 | 1.0.7 | Andreas Tille | Andreas Tille | 2020-01-27 07:34:12+00
xmedcon | 0.16.1 | 0.16.2 | Andreas Tille,Roland Marcus Rutschmann | Andreas Tille | 2019-01-25 18:23:59+00
-(66 rows)
+(65 rows)
source | id | severity | title
-------------------------------+--------+-----------+---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
abyss | 920282 | important | abyss fails to build on hurd - googletest EXPECT_DEATH
+ adun.app | 956981 | normal | adun.app: ftbfs with GCC-10
amide | 901677 | normal | amide: Window is too wide and not resizable
+ amide | 956997 | normal | amide: ftbfs with GCC-10
arb | 916406 | important | libarb-dev: Missing symbols in static libraries
arb | 918015 | wishlist | [INTL:sv] Swedish strings for arb debconf
arb | 926017 | minor | arb: Typo in package description: "website links unreachable, description outdated"
@@ -90,7 +91,9 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
biojava4-live | 843712 | normal | biojava4-live: FTBFS (failing tests)
biojava-live | 659824 | minor | biojava-live: New version available
biomaj3 | 950914 | minor | python3-biomaj3: Depends on python-influxdb wich ftbs, patch to remove dependency
+ bowtie2 | 957054 | normal | bowtie2: ftbfs with GCC-10
bwa | 942447 | normal | Build bwa on ppc64el
+ bwa | 957059 | normal | bwa: ftbfs with GCC-10
camp | 900181 | normal | camp: FTBFS on 32bit big endian: check metaclass->function("f4").call(object, camp::Args(1, 4, 15)).to<unsigned long>() == 20 has failed
clonalorigin | 884475 | wishlist | clonalorigin: FTBFS on alpha: tests time out
clustalo | 956324 | serious | "clustalo: Bus error on mipsel"
@@ -113,6 +116,7 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
dcmtk | 913585 | normal | warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'Sint32' {aka 'int'} [-Wformat=]
dcmtk | 935879 | normal | Update to use CharLS 2.0
deepnano | 921566 | important | deepnano: autopkgtest times out since 2019-01-11
+ dialign-t | 957131 | normal | dialign-t: ftbfs with GCC-10
dicom3tools | 559313 | normal | dicom3tools: dciodvfy aborts on valid RT Dose Storage file
dicom3tools | 631101 | wishlist | dicom3tools: dcdump stops on extra 0,0 tag
dicom3tools | 704146 | wishlist | Error - Undefined value length of other byte/word element is illegal in non-encapsulated transfer syntax
@@ -128,12 +132,17 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
falcon | 902132 | serious | falcon: FTBFS since python-networkx version 2.1-1; fails in test suite
falcon | 936503 | serious | falcon: Python2 removal in sid/bullseye
fastlink | 909713 | minor | fastlink: Please provide autopkgtest
+ fastlink | 957194 | normal | fastlink: ftbfs with GCC-10
+ fermi-lite | 957198 | normal | fermi-lite: ftbfs with GCC-10
+ fis-gtm | 957206 | normal | fis-gtm: ftbfs with GCC-10
garli | 907905 | normal | garli: FTBFS randomly (failing tests)
gatb-core | 929564 | normal | gatb-core-testdata: broken symlink: /usr/share/doc/gatb-core/test/gatb-core-cppunit -> ../../../../lib/gatb-core/gatb-core-cppunit
+ gatb-core | 957254 | normal | gatb-core: ftbfs with GCC-10
gdcm | 731435 | normal | warning: iteration 55823u invokes undefined behavior [-Waggressive-loop-optimizations]
gdcm | 749783 | normal | gdcm: Conflicting declarations of jpeg_memory_mgr may lead to invalid function calls
gdcm | 826048 | wishlist | Faulty CMake file impairs compiling against GDCM
gemma | 952190 | serious | gemma: FTBFS: dh_auto_test: error: make -j1 check returned exit code 2
+ genometools | 957268 | normal | genometools: ftbfs with GCC-10
gentle | 732691 | normal | Pressing "alignment or Ctrl+G" only results in a dialog with a cancel button
ghmm | 936609 | serious | ghmm: Python2 removal in sid/bullseye
gmap | 956549 | wishlist | gmap: please make the build reproducible
@@ -150,37 +159,65 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
insighttoolkit4 | 943677 | normal | please package insighttoolkit5 (5.0 and 5.1 beta 1 are out)
insighttoolkit4 | 944179 | important | insighttoolkit4: non-standard gcc/g++ used for build (gcc-8)
insighttoolkit4 | 956834 | serious | insighttoolkit4: installs Python 3.8 extensions in the folder for Python 3.7
+ insighttoolkit4 | 957360 | normal | insighttoolkit4: ftbfs with GCC-10
ismrmrd | 863168 | important | ismrmrd FTBFS on armhf: 1 failure is detected in the test module "ISMRMRD Unit Tests"
jellyfish1 | 875328 | wishlist | jellyfish1: FTBFS: __sync_val_compare_and_swap_8 undefined
khmer | 851830 | minor | arm64 has flaky tests
kineticstools | 936797 | serious | kineticstools: Python2 removal in sid/bullseye
kissplice | 936798 | serious | kissplice: Python2 removal in sid/bullseye
+ kma | 957408 | normal | kma: ftbfs with GCC-10
kmc | 954270 | important | kmc: arm64 autopkgtest time out
+ lagan | 957415 | normal | lagan: ftbfs with GCC-10
+ libbpp-core | 957423 | normal | libbpp-core: ftbfs with GCC-10
+ libbpp-phyl | 957425 | normal | libbpp-phyl: ftbfs with GCC-10
+ libbpp-popgen | 957427 | normal | libbpp-popgen: ftbfs with GCC-10
+ libbpp-qt | 957429 | normal | libbpp-qt: ftbfs with GCC-10
+ libbpp-raa | 957426 | normal | libbpp-raa: ftbfs with GCC-10
+ libbpp-seq | 957428 | normal | libbpp-seq: ftbfs with GCC-10
+ libbpp-seq-omics | 957431 | normal | libbpp-seq-omics: ftbfs with GCC-10
+ libfastahack | 957438 | normal | libfastahack: ftbfs with GCC-10
+ libgenome | 957442 | normal | libgenome: ftbfs with GCC-10
libgtextutils | 925745 | serious | libgtextutils: ftbfs with GCC-9
libhmsbeagle | 950367 | normal | confuses DEB_HOST_MULTIARCH and DEB_HOST_GNU_TYPE
libjung-free-java | 884379 | minor | libjung-free-java: New version available
liblemon | 925749 | serious | liblemon: ftbfs with GCC-9
liblemon | 936888 | normal | liblemon: Python2 removal in sid/bullseye
libmaus2 | 934619 | serious | libmaus2 FTBFS (mostly 32bit): error: no matching function for call
+ libncl | 957452 | normal | libncl: ftbfs with GCC-10
+ libquazip | 957472 | normal | libquazip: ftbfs with GCC-10
+ librcsb-core-wrapper | 957471 | normal | librcsb-core-wrapper: ftbfs with GCC-10
librostlab-blast | 832138 | wishlist | librostlab-blast: The package should compile without forcing the older -std=c++03
librostlab-blast | 851472 | normal | librostlab-blast: autopkg test suite failure
libsis-base-java | 929530 | important | libsis-base-java: unaligned access on armhf
libsis-jhdf5-java | 842815 | serious | libsis-jhdf5-java: FTBFS: java.lang.NoClassDefFoundError: Could not initialize class ch.systemsx.cisd.hdf5.CharacterEncoding
libsis-jhdf5-java | 846735 | serious | libsis-jhdf5-java: FTBFS: java.lang.NoClassDefFoundError: Could not initialize class ch.systemsx.cisd.hdf5.CharacterEncoding
+ libsmithwaterman | 957476 | normal | libsmithwaterman: ftbfs with GCC-10
+ libssw | 957481 | normal | libssw: ftbfs with GCC-10
libundead | 859667 | important | "Will be removed once new version of libbiod is available"
- macs | 949204 | serious | macs FTBFS on most architectures. test failures
+ libzstd | 957487 | normal | libzstd: ftbfs with GCC-10
macs | 953323 | serious | src:macs: fails to migrate to testing for too long
macsyfinder | 933928 | normal | macsyfinder: Port to Python3 needed
macsyfinder | 936977 | serious | macsyfinder: Python2 removal in sid/bullseye
+ mafft | 957512 | normal | mafft: ftbfs with GCC-10
+ mapsembler2 | 957519 | normal | mapsembler2: ftbfs with GCC-10
+ mcl | 957525 | normal | mcl: ftbfs with GCC-10
medicalterms | 602423 | important | hunspell-de-med: german dictionary unusable
mencal | 607008 | normal | mencal: with l10n, calendar header formatting not aligned with column content
metaphlan2-data | 839925 | important | metaphlan2-data: postinst deletes shipped file: /var/lib/metaphlan2-data/markers.fasta
+ mia | 957536 | normal | mia: ftbfs with GCC-10
+ mialmpick | 957538 | normal | mialmpick: ftbfs with GCC-10
+ minc-tools | 957542 | normal | minc-tools: ftbfs with GCC-10
mipe | 890788 | minor | mipe: Please provide autopkgtest
+ mlv-smile | 957551 | normal | mlv-smile: ftbfs with GCC-10
+ mmseqs2 | 957552 | normal | mmseqs2: ftbfs with GCC-10
+ mrbayes | 957564 | normal | mrbayes: ftbfs with GCC-10
mriconvert | 617342 | normal | 32-bit multiframe image conversion ignores frames
+ mrs | 957567 | normal | mrs: ftbfs with GCC-10
mummer | 956751 | normal | mummerplot incompatible with Debian's version of gnuplot
ncbi-blast+ | 891197 | normal | Please switch to pcre2
ncbi-blast+ | 956848 | normal | ncbi-blast+-legacy: Please provide /usr/bin/blastpgp.pl (including .pl extension)
ncbi-blast+ | 956850 | normal | ncbi-blast+: Please provide /usr/bin/legacy_blast
+ ncbi-blast+ | 957581 | normal | ncbi-blast+: ftbfs with GCC-10
ncbi-tools6 | 225651 | wishlist | ncbi-tools-x11: want Cn3D++
ncbi-vdb | 952623 | serious | sra-sdk: FTBFS: ld: /usr/lib/x86_64-linux-gnu/libncbi-vdb.so: undefined reference to `vdb_mbedtls_entropy_init'
ncbi-vdb | 952627 | serious | libncbi-vdb2 uses undefined symbols
@@ -196,16 +233,23 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
orthanc-webviewer | 828949 | minor | orthanc-webviewer: "better" suggestion for cache location
paleomix | 933750 | normal | paleomix: Port to Python3 needed
paleomix | 937232 | serious | paleomix: Python2 removal in sid/bullseye
+ paml | 957659 | normal | paml: ftbfs with GCC-10
pbbam | 829741 | important | pbbam: FTBFS (32-bit): pbmerge assertion failure
pbgenomicconsensus | 937255 | serious | pbgenomicconsensus: Python2 removal in sid/bullseye
phast | 911983 | important | phast FTBFS on architectures where char is unsigned
phast | 951660 | serious | src:phast: fails to migrate to testing for too long
+ phylip | 957681 | normal | phylip: ftbfs with GCC-10
+ phyml | 957679 | normal | phyml: ftbfs with GCC-10
+ phyx | 957683 | normal | phyx: ftbfs with GCC-10
pixelmed | 706130 | normal | Add support for MammographyCADSR
pixelmed | 706132 | normal | javax.xml.transform.TransformerConfigurationException: Impossible de compiler la feuille de style
pixelmed | 706143 | normal | Missing DoseUtilityLogOfReportMultiple.png
pixelmed | 716971 | normal | pixelmed-java: Incorrect handling of C-ECHO-RQ
pixelmed | 728569 | normal | Add PixelMed SCP
+ poa | 957696 | normal | poa: ftbfs with GCC-10
praat | 919490 | normal | praat FTCBFS: many reasons
+ praat | 957704 | normal | praat: ftbfs with GCC-10
+ prime-phylo | 957708 | normal | prime-phylo: ftbfs with GCC-10
profnet | 905206 | serious | profnet: autopkgtest regression
profphd | 897605 | normal | profphd failure in stretch
profphd | 942064 | grave | profphd: autopkgtest failure
@@ -235,18 +279,26 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
qiime | 950842 | serious | autopkg tests fail with Python 3.8
qrisk2 | 912118 | normal | qrisk2: 2017 upstream release
qrisk2 | 912119 | normal | qrisk2: please provide qrisk3
+ racon | 957747 | normal | racon: ftbfs with GCC-10
+ rampler | 957748 | normal | rampler: ftbfs with GCC-10
rapmap | 909766 | important | Use Debian packaged spdlog instead of code copy of old version
+ raster3d | 957749 | normal | raster3d: ftbfs with GCC-10
relion | 952003 | serious | relion: FTBFS: src/mpi.cpp:56:23: error: call to ‘MPI_Errhandler_set’ declared with attribute error: MPI_Errhandler_set was removed in MPI-3.0. Use MPI_Comm_set_errhandler instead.
+ roguenarok | 957768 | normal | roguenarok: ftbfs with GCC-10
+ saint | 957772 | normal | saint: ftbfs with GCC-10
salmon | 952102 | serious | salmon: FTBFS: SalmonAlevin.cpp:780:6: error: ‘class rapmap::utils::MappingConfig’ has no member named ‘maxSlack’
sambamba | 938431 | normal | sambamba: Python2 removal in sid/bullseye
sambamba | 948919 | serious | sambamba FTBFS: undefined reference to 'cram_to_bam'
+ seaview | 957783 | normal | seaview: ftbfs with GCC-10
seqan2 | 892222 | normal | seqan2: FTBFS on hppa: app_test_seqan_tcoffee fails on 2trx.mlcs.fasta
seqan2 | 917851 | important | seqan2 2.4.0+dfsg-9: FTBFS, alignment problem
sight | 954711 | wishlist | FTBFS with Boost 1.71
+ sigma-align | 957793 | normal | sigma-align: ftbfs with GCC-10
simka | 954273 | important | simka: arm64 autopkgtest time out
simpleitk | 949355 | serious | simpleitk FTBFS: test failures
snakemake | 943956 | wishlist | snakemake: please make the build reproducible
snap | 927011 | minor | snap: Package info contains a 404 url
+ snap | 957820 | normal | snap: ftbfs with GCC-10
snap-aligner | 848589 | normal | snap-aligner: Build requires 188 GB of memory (fortunately not used, just allocated)
sofa-framework | 588278 | minor | sofa-tutorials: Sofa tutorials config file tutorial.pro uses SOFA_DIR=../.. that is incorrect
sofa-framework | 639986 | normal | sofa-apps: the menu Help in the sofa GUI do not show any enabled menu point e.g about, ...
@@ -254,18 +306,20 @@ Last-Update: Fri, 17 Apr 2020 13:42:04 +0000
sofa-framework | 875184 | serious | [sofa-framework] Future Qt4 removal from Buster
spades | 853113 | normal | spades: Fails to build with unhelpful error message in a "low" memory machine
spdlog | 953855 | normal | libspdlog-dev: tries to include file that doesn't exist
+ spoa | 957836 | normal | spoa: ftbfs with GCC-10
sra-sdk | 943231 | normal | sra-sdk: Python2 removal in sid/bullseye
+ subread | 957846 | normal | subread: ftbfs with GCC-10
+ sweed | 957851 | normal | sweed: ftbfs with GCC-10
tree-puzzle | 806214 | normal | tree-puzzle: Package fails test suite
tree-puzzle | 890790 | minor | tree-puzzle: Please provide autopkgtest
tree-puzzle | 951984 | serious | tree-puzzle: FTBFS: mpi.h:322:57: error: static assertion failed: "MPI_Address was removed in MPI-3.0. Use MPI_Get_address instead."
treeviewx | 846481 | minor | src:treeviewx: Please remove statically linked code copy of libncl
trinculo | 956945 | normal | trinculo FTCBFS: uses the build architecture compiler
- uc-echo | 953898 | serious | uc-echo: arm64 autopkgtest failure: NeighborJoinParam [...] failed to execute.
unanimity | 938751 | serious | unanimity: Python2 removal in sid/bullseye
unanimity | 939506 | serious | unanimity ftbfs in unstable
- wise | 956279 | normal | wise FTCBFS: uses the build architecture compiler
+ vg | 957911 | normal | vg: ftbfs with GCC-10
xmedcon | 671828 | normal | xmedcon: Cannot open file with YBR photometric interpretation
xmedcon | 779707 | normal | Errors when reading dicomdir file: "No images found" / "Loading: DICM Error reading file"
xmedcon | 924017 | normal | desktop entry
-(194 rows)
+(249 rows)
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/8c9de2adbd46d816c08e2e32e0483dfa45dfbdce
--
View it on GitLab: https://salsa.debian.org/med-team/community/helper-scripts/-/commit/8c9de2adbd46d816c08e2e32e0483dfa45dfbdce
You're receiving this email because of your account on salsa.debian.org.
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20200418/46b92d50/attachment-0001.html>
More information about the debian-med-commit
mailing list