Re: htslib_1.9-1_amd64.changes ACCEPTED into experimental
Quick update on pysam - it needs FAI_FASTA declared which only comes
with libhts-dev 1.9.
I have uploaded it to experimental.
Cheers,
Steffen
On 7/29/18 5:28 PM, Steffen Möller wrote:
> ;) Well spotted. Done.
>
> I also tested pysam in its _very_ new version 1.5.0.1 which built
> flawlessly against htslib 1.9. There are quite some additional
> rdependencies, though:
>
> $ apt-cache rdepends libhts2
> Reverse Depends:
> bio-eagle
> samtools
> trinityrnaseq
> stacks
> sambamba
> rsem
> rna-star
> reapr
> qtltools
> python3-pysam
> python-pysam
> pbdagcon
> pbbamtools
> libpbbam
> nanopolish
> libvcflib-tools
> libtabixpp0
> freebayes
> fastqtl
> crac
> blasr
> bcftools
> augustus
>
> My plan was to rebuild pysam 1.5.0.1 with version 1.7 of htslib which
> they officially (so the readme says) support and upload that to main.
> Nanopolish also has a new upstream version, so I will test that against
> 1.9, too. Should that also pass tests then I tend to think we should
> move htslib 1.9 from experimental to unstable. We should then possibly
> block its transition to testing until all (most) its reverse
> dependencies test successfully against it.
>
> Best,
>
> Steffen
>
>
> On 7/29/18 1:13 AM, Andreas Tille wrote:
>> Thanks. Please push your changes, Andreas. > > On Sat, Jul 28, 2018 at 06:49:14PM +0000, Debian FTP Masters wrote:
>>>>>>> Accepted: >>
>> Format: 1.8
>> Date: Thu, 26 Jul 2018 18:54:12 +0200
>> Source: htslib
>> Binary: libhts2 libhts-dev libhts-private-dev htslib-test tabix
>> Architecture: source all amd64
>> Version: 1.9-1
>> Distribution: experimental
>> Urgency: medium
>> Maintainer: Debian Med Packaging Team
>> <debian-med-packaging@lists.alioth.debian.org>
>> Changed-By: Steffen Moeller <moeller@debian.org>
>> Description:
>> htslib-test - Test data for HTSlib
>> libhts-dev - development files for the HTSlib
>> libhts-private-dev - private development files for the HTSlib (use
>> with care)
>> libhts2 - C library for high-throughput sequencing data formats
>> tabix - generic indexer for TAB-delimited genome position files
>> Changes:
>> htslib (1.9-1) experimental; urgency=medium
>> .
>> * Team upload.
>> .
>> * New upstream version. Some symbols were added, others were removed:
>> - cram_to_bam was removed
>> - fai_build_core was removed
>> * Updated symbols list
>> * Introduced -flto
>> Checksums-Sha1:
>> b6836603611fa12f7f4f3d49f94ff7efd75be22e 2308 htslib_1.9-1.dsc
>> 0bf3cb05883a38ea4da10711e833b007df723cc1 1285580 htslib_1.9.orig.tar.gz
>> cac4c952709f984a1883cb46801164810b7966f3 13664 htslib_1.9-1.debian.tar.xz
>> 0308c4a4b208732c16cf3fd2bfbc7b46e6657a5a 915596 htslib-test_1.9-1_all.deb
>> aac61634077426e2e82ea26cddc3900feb27eaee 8287
>> htslib_1.9-1_amd64.buildinfo
>> b3a2526b8cd55f04f31355de9d50b7174661d2a1 4295748
>> libhts-dev_1.9-1_amd64.deb
>> bb8ca6d00fbd9e6626450da5f4bc2e78bfe8bc7a 41272
>> libhts-private-dev_1.9-1_all.deb
>> 394dad423f318720fe9d0f690178c2b0c920cd33 216280
>> libhts2-dbgsym_1.9-1_amd64.deb
>> a5c34245493dfcbb22a3be829fc1dec6cee758b2 305372 libhts2_1.9-1_amd64.deb
>> dac0c156812eeb80928607ab157565ad84a91453 509288
>> tabix-dbgsym_1.9-1_amd64.deb
>> 39114cde924723c28521cd87b27065a92deed5cf 295764 tabix_1.9-1_amd64.deb
>> Checksums-Sha256:
>> 6a0bd8be0403549734bd3caec0ddeb656aa7ddf085d227417dafdb9ba3a9ed02 2308
>> htslib_1.9-1.dsc
>> d2e3cde77b8f874b37453c63390cd992901266336e9f70e871ef42402510467f
>> 1285580 htslib_1.9.orig.tar.gz
>> 1404fcd3edb1e2d3e45909e4a79a9442724c1d0c3186f77845181f5b36ba6b0c
>> 13664 htslib_1.9-1.debian.tar.xz
>> 1494fead8f0dd92200b44e79a558a841a68e21051c935cfb6079ecf313bd4549
>> 915596 htslib-test_1.9-1_all.deb
>> 8497faa7840b427f2797dc0210785c7a5afd8f11c12327fef32d7839d93e1941 8287
>> htslib_1.9-1_amd64.buildinfo
>> d1f2651d900d3f619f99f804144ba4bbde3833239086c0b81a709398539e0dc7
>> 4295748 libhts-dev_1.9-1_amd64.deb
>> d02f2a8f764cb2a3d2fed21faa88ff540258cc646c793a15e58830a9eefa0970
>> 41272 libhts-private-dev_1.9-1_all.deb
>> bd3df9e69b840cb9fb4321aa84c909a979b1fec8ac1fd90a48e6455bf497e4eb
>> 216280 libhts2-dbgsym_1.9-1_amd64.deb
>> 106afc805850075e2463ffb1d201accf1e775b4fa0c49073c672efaa0104a24f
>> 305372 libhts2_1.9-1_amd64.deb
>> b174f4844aaa65cf462176fea691950af8a3cb40774824c32f493c717a7d3a46
>> 509288 tabix-dbgsym_1.9-1_amd64.deb
>> 6475264cd40ca6e5495a983460ccf42c488e4e332eaa1bf2e86b10858408b9e0
>> 295764 tabix_1.9-1_amd64.deb
>> Files:
>> afeb3aaae8e52b288834bdf5e13885b9 2308 science optional htslib_1.9-1.dsc
>> deca473ddbf6227de3734fcf4e18f82f 1285580 science optional
>> htslib_1.9.orig.tar.gz
>> 39422ff3a617d1f86fec4fa7008c0b9c 13664 science optional
>> htslib_1.9-1.debian.tar.xz
>> e21552808286a07a9ab1a832557a0375 915596 science optional
>> htslib-test_1.9-1_all.deb
>> e852bcdc6f7424a1a8c31468e0c24043 8287 science optional
>> htslib_1.9-1_amd64.buildinfo
>> fe4750ebdb01aa1c53b65d795fb9619f 4295748 libdevel optional
>> libhts-dev_1.9-1_amd64.deb
>> 71447abc33630cf39fc7c40e458d2752 41272 libdevel optional
>> libhts-private-dev_1.9-1_all.deb
>> c3d685cf66bafdace6dd48bdc5488e29 216280 debug optional
>> libhts2-dbgsym_1.9-1_amd64.deb
>> aef13da00d69ba9f22a515de772979ef 305372 libs optional
>> libhts2_1.9-1_amd64.deb
>> afc2e9e6bc3160e58144d1b14b341ad3 509288 debug optional
>> tabix-dbgsym_1.9-1_amd64.deb
>> 9d1bda0d5f7b9fce2fffa33677371cb9 295764 science optional
>> tabix_1.9-1_amd64.deb
>>
>>>>>>> Thank you for your contribution to Debian. >> >>
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