debian-med (3.5.1) [PTS] [DDPO]

NEW: VCS has unreleased changes: 3.5.2 > 3.5.1

Git: https://salsa.debian.org/blends-team/med.git
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Branch: master
Path: debian/changelog
Browser: https://salsa.debian.org/blends-team/med
Last scan: 2020-04-09 07:30:18+00
Next scan: 2020-04-16 02:24:00+00

Debian changelog in Git:

debian-med (3.5.2) UNRELEASED; urgency=medium

  * Drop autodocktools since it depends mgltools-pmv which is about to
    be removed
  * Drop all mgltools-* packages since these are unmaintained and there
    is no Python3 port
  * Remove cain from tasks since there is close to no chance to port it
    to Python3

 -- Andreas Tille <tille@debian.org>  Sat, 07 Dec 2019 09:05:02 +0100

This branch is 66 commits ahead of tag debian/3.5.1

Git log:

commit 5988cdad7d561a7daf7c49d1fcb112270b0c69c8
Author: Andreas Tille <tille@debian.org>
Date:   Thu Apr 9 08:58:07 2020 +0200

    Add recan - thanks to Sao I Kuan <saoikuan@gmail.com> for packagning

commit b959b9035e454e750aa616fca002a6bf4482ec44
Author: Andreas Tille <tille@debian.org>
Date:   Wed Apr 8 15:10:19 2020 +0200

    Add arvados, fieldbioinformatics, parasail done by our newcomers :-)

commit 194b0a50b8a2a2250d0de0bc7ca5602b3576bfea
Author: Andreas Tille <tille@debian.org>
Date:   Tue Apr 7 15:46:15 2020 +0200

    Recommends: r-cran-covid19us

commit 9f8debe23ad085b7d2114c28504a1af678b2d121
Author: Andreas Tille <tille@debian.org>
Date:   Tue Apr 7 11:31:41 2020 +0200

    Recommends: libtensorflow-framework2

commit 4309fdb73edc99fe9cbe2dae5dd7b009f3af7218
Author: Andreas Tille <tille@debian.org>
Date:   Mon Apr 6 20:43:23 2020 +0200

    Add r-bioc-mutationalpatterns

commit bffecfdbfc125e103fde21e8d49f5fd95f2aa7a1
Author: Andreas Tille <tille@debian.org>
Date:   Mon Apr 6 20:37:26 2020 +0200

    Recommends: r-cran-covid19

commit 484ab385e6bd74a94db7efb431cd6b463ff8e500
Author: Andreas Tille <tille@debian.org>
Date:   Mon Apr 6 14:01:48 2020 +0200

    Revert "Remove edger from explicit mentioning since we can not guarantee thet the package is up to date.  Last versions are needing locfit which is not distributable."
    
    This reverts commit f77b499723bc7ee0ab87fa9edcfac05a97eb6ece.

commit adbe1ffe42b0b45ad5ba861c993bb8648eb6d220
Author: Andreas Tille <tille@debian.org>
Date:   Mon Apr 6 11:55:53 2020 +0200

    Recommends: blat

commit fb46388081dfadd62269e8e8177b6e97f15b7930
Author: Andreas Tille <tille@debian.org>
Date:   Sat Apr 4 09:27:24 2020 +0200

    Recommends: trinculo

commit 9dd47b6e4b485cbb8345d7d511f43850306df970
Author: Andreas Tille <tille@debian.org>
Date:   Sat Apr 4 07:22:42 2020 +0200

    Add more Covid-19 packages

commit a958f31090de2615d036a5463601baba4e2398e8
Author: Andreas Tille <tille@debian.org>
Date:   Thu Apr 2 11:53:00 2020 +0200

    Recommends: wtdbg2

commit 3ef2ea818d4f8ad2031419103118afcb4618893d
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 30 16:48:29 2020 +0200

    Recommends vadr

commit 7d278383db3f7ba9c5e15108e068ab71a2884db2
Author: Steffen Möller <moeller@debian.org>
Date:   Mon Mar 30 16:19:18 2020 +0000

    Update bio-dev - added a few packages I found locally
    
    r-cran-shazam, r-cran-sitmo, r-cran-deseq,r-bioc-enrichedheatmap,
    r-cran-fastcluster,

commit cbabb689a713b36f138a5f74656687e23baa20e0
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 30 14:09:11 2020 +0200

    Add covid-19 doc

commit b187ee9128b65d8cb64fe1590cb0050471319bb0
Author: Andreas Tille <tille@debian.org>
Date:   Sat Mar 28 22:32:39 2020 +0100

    https://gitlab.com/fevermap/fevermap

commit a62744244b61d4775ef8faca6c914b1d3a5af289
Author: Andreas Tille <tille@debian.org>
Date:   Thu Mar 26 11:49:48 2020 +0100

    Cleanup some of Ben's suggestions

commit c3764038d88a6206ded38603bc0c68a153c8cb15
Author: Steffen Möller <moeller@debian.org>
Date:   Thu Mar 26 02:05:40 2020 +0000

    Update bio - added dnapi

commit 8e0a9e117884ac1f32c892ebdc5e6efa374fd53f
Author: Andreas Tille <tille@debian.org>
Date:   Wed Mar 25 12:15:06 2020 +0100

    Avoid duplicated entry

commit d0f0590c89304a95e8a36d07c5bc4f8222dbad43
Author: Andreas Tille <tille@debian.org>
Date:   Wed Mar 25 10:37:04 2020 +0100

    s/python-pynn/python3-pynn/

commit b0229eafc61f9a32fa892fc2847b0a818dfb9aa3
Author: Andreas Tille <tille@debian.org>
Date:   Wed Mar 25 10:22:50 2020 +0100

    Add extract of epi task

commit 3e8075e331a90c494fbf1dfaa4bb6acc2cdd1815
Author: Andreas Tille <tille@debian.org>
Date:   Wed Mar 25 10:19:25 2020 +0100

    https://lists.debian.org/debian-med/2020/03/msg00142.html - thanks to Ben Tris <benattris@gezapig.nl> for the input

commit 3bfcfaaba358408a95a70e19e54f4984ec53da26
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 20:07:12 2020 +0100

    Its actually chime that needs streamlit

commit 8539116bad6232c636534dd7804f6511b14ffc0b
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 14:28:42 2020 +0100

    Add streamlit and r-bioc-pwmenrich

commit 982b1b4d4632f043b76b3e566b714c626d6d548a
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 11:50:20 2020 +0100

    Do not blur our list that might become long potentially with "lower relevance" packages

commit b3d27df085ae8ddc69a0c61226fde818659b3e93
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 11:37:44 2020 +0100

    Comment for auspice

commit 01a35a8b5e02aedfeb6fa5c9bc5ce84f6556a615
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 11:12:40 2020 +0100

    Replace '#' by X-Mark

commit e8309f5bd67a7747954630ff8abe40f72bc34d90
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 09:45:21 2020 +0100

    Hint to https://www.bioinformatics.babraham.ac.uk/projects/index.html

commit d3d242a1039c71360036c15c9a1de5011ac24fe1
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 09:41:09 2020 +0100

    Create some sections by using simple comments, add fastqc

commit dc23f29287c999b38b1319ab84629d4cf31c64bd
Author: Andreas Tille <tille@debian.org>
Date:   Tue Mar 24 09:13:29 2020 +0100

    Add some imaging packages recommended by Sébastien Jodogne

commit d244add093f9c61f5d61dd3f4beb6ebef3c173fc
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 22:07:30 2020 +0100

    Add more R-packages

commit 978c6ac737addd24b328d5e2dd2728eb5d788953
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 21:36:45 2020 +0100

    Add r-bioc-rcpi

commit 558e6884b9ce04eb03da139ec2105335c140630e
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 21:16:22 2020 +0100

    Added chip-seq

commit c9885721518c3ef1f3f788d6ad8419b083d0c366
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 20:42:41 2020 +0100

    Add auspice

commit a12049f900f9a84c3a094eb0743e9ad11098ff5f
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 14:23:25 2020 +0100

    Add sormas as comment

commit 88954e93a8f6de8d409e0f88fd86aa54cc8cbe6a
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 23 07:46:52 2020 +0100

    Add comments about ventilators - no idea whether this is something for us - asking authors might help

commit b235720c6f3d6f4c2860571934a7ed97871896bb
Author: Andreas Tille <tille@debian.org>
Date:   Sat Mar 21 07:35:25 2020 +0100

    Previous discription triggered broken layout

commit de63602ed72d2d09a87103a75721ada95e672dc6
Author: Andreas Tille <tille@debian.org>
Date:   Sat Mar 21 00:00:38 2020 +0100

    python3-pyxid is now available

commit 73a7e2c80537ad2eb3d1a1782ee0cf084a2f318c
Author: Andreas Tille <tille@debian.org>
Date:   Fri Mar 20 16:30:10 2020 +0100

    Recommends: augur

commit 1fa5f5571ac46766f34361c3772277caf6c96234
Author: Andreas Tille <tille@debian.org>
Date:   Fri Mar 20 15:25:08 2020 +0100

    Add nextstrain-ncov

commit 0afb38168e828281c956aff9e600ef7a01a5570a
Author: Andreas Tille <tille@debian.org>
Date:   Fri Mar 20 11:33:54 2020 +0100

    Recommends: streamlit

commit af2aa938be8268f8d936531919539fa0fdbbf17c
Author: Andreas Tille <tille@debian.org>
Date:   Fri Mar 20 09:37:27 2020 +0100

    Add chime as first COVID-19 related package

commit 8e94738094f2e0e49cbd03d337f3b1ebe92c7b11
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Mar 17 12:10:45 2020 +0000

    bio-dev - minimap 1.x is deprecated, added 2.x

commit f0b4962737c42cb7243ed607e07830b53915a643
Author: Andreas Tille <tille@debian.org>
Date:   Mon Mar 16 10:39:19 2020 +0100

    Create covid-19 task

commit 504c0b1e6a6b8f39212ac7b99ef3296e9c613113
Author: Andreas Tille <tille@debian.org>
Date:   Sun Mar 1 22:23:58 2020 +0100

    smalr and cfflib are removed due to Python2 removal

commit 7fa73130180b1ae21cc7a8087af2bebc29787c70
Author: Andreas Tille <tille@debian.org>
Date:   Thu Feb 27 15:36:06 2020 +0100

    Drop packages that are up for removal since they are incompatible with latest pbcore and pbcommand

commit 0a81d22b36e2b8c00c34d3c49430e703ddb5e78a
Author: Steffen Möller <moeller@debian.org>
Date:   Wed Feb 26 14:04:36 2020 +0000

    Update bio - added tinyalign

commit 29c4566a4fcb3bfee6a80be1c903f76b1ed9427b
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Feb 25 16:51:48 2020 +0000

    Update bio - added bustools

commit 5829573c8034758438d972ec99282ed5883896de
Author: Andreas Tille <tille@debian.org>
Date:   Wed Feb 19 16:02:47 2020 +0100

    giira was removed since it need tophat

commit 86a849fd567ab8eb30171a9ab179965f8a13c338
Author: Andreas Tille <tille@debian.org>
Date:   Mon Feb 17 13:23:40 2020 +0100

    Added some new packages prepared by Michael Crusoe

commit ea1f86896216e7df8305bf3643d6285bd46cba52
Author: Steffen Möller <moeller@debian.org>
Date:   Mon Feb 3 08:53:58 2020 +0000

    Update bio-dev - added ref to python3-tinyalign

commit 39eec86c3e68d6e55b7a00fe40d0a3b2688c01f4
Author: Steffen Möller <moeller@debian.org>
Date:   Sat Feb 1 17:26:42 2020 +0000

    Update bio-dev - added org.hs.eg.db et al

commit 6aa745b1cfa7380cec653ab10c058e156e83f7b1
Author: Steffen Möller <moeller@debian.org>
Date:   Sat Feb 1 17:25:40 2020 +0000

    Update bio - r-bioc-org.hs.eg.db et al.

commit 81d7193748591624ece2724942854d86ce45471c
Author: Andreas Tille <tille@debian.org>
Date:   Sun Jan 26 08:48:09 2020 +0100

    Drop all mgltools-* packages since these are unmaintained and there is no Python3 port

commit 2e4e99dbf363e16a6d5e33aa6ae52fa89ed9a896
Author: Andreas Tille <tille@debian.org>
Date:   Sun Jan 26 08:46:26 2020 +0100

    Remove cain from tasks since there is close to no chance to port it to Python3

commit c31e853bbe3e815bd08e00dd4d720af2f7ec44c1
Author: Andreas Tille <tille@debian.org>
Date:   Wed Jan 22 13:45:14 2020 +0100

    Replace transitional package python3-dicom by python3-pydicom

commit d2ebed8c408f309b97e7979a3d8ce95c0391814e
Author: Andreas Tille <tille@debian.org>
Date:   Fri Jan 17 09:09:16 2020 +0100

    Do not advertise sleepyhead any more since it will be removed from Debian (in favour of oscar)

commit f52132aaeab4a749ea3aca071d57cc096cba9b75
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Jan 21 01:14:59 2020 +0000

    Update bio-dev - added r-cran-amap r-bioc-ctc r-cran-parmigene r-cran-rsgcc

commit bd36efe79151fd1ecea10507ae5a8a50efdd9057
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Jan 21 01:13:00 2020 +0000

    Update bio - added r-cran-amap r-bioc-ctc r-cran-parmigene r-cran-rsgcc

commit cf5e6e2fc1ba82f905ed8c0867f2d61fb704c84f
Author: Steffen Möller <moeller@debian.org>
Date:   Mon Jan 20 18:26:23 2020 +0000

    Update bio-dev with biwt and minerva CRAN packages

commit 4d61c76b9d11ba342cec955e85cf25c4b73381a7
Author: Steffen Möller <moeller@debian.org>
Date:   Mon Jan 20 18:25:10 2020 +0000

    Update bio - added biwt and minerva CRAN packages

commit 2d03e389914e006905ea5d299309bad8167159a6
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Jan 14 12:46:18 2020 +0000

    Update bio-dev added r-bioc-nanostringqcpro

commit 2b708bed45e07efa388f6f5cf4fb2631b1791b24
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Jan 14 12:40:37 2020 +0000

    Update bio-dev - added r-cran-nmf

commit 966d792ba6ff0546fd67c68891d4461c8888b9e9
Author: Steffen Möller <moeller@debian.org>
Date:   Tue Jan 14 10:10:37 2020 +0000

    Update bio-dev - added r-cran-robustrankaggreg

commit 0ea329d69c5ecd324e88eb1f14557680cab8a2f4
Author: Andreas Tille <tille@debian.org>
Date:   Sun Jan 12 11:39:47 2020 +0100

    Recommends: thesias

commit 2bddbdf50ec53a5e9a2e62812b455bd08ebdfa5a
Author: Andreas Tille <tille@debian.org>
Date:   Thu Jan 2 12:17:59 2020 +0100

    Add genomethreader and vmatch

commit 7b1c5d3d515417afe6191c892194249d98d28a3c
Author: Andreas Tille <tille@debian.org>
Date:   Sat Dec 7 09:06:21 2019 +0100

    Drop autodocktools since it depends mgltools-pmv which is about to be removed