Your message dated Sun, 18 Jun 2017 21:05:43 +0000 with message-id <e1dmhob-0009dd...@fasolo.debian.org> and subject line Bug#865006: fixed in bcftools 1.4.1-1 has caused the Debian Bug report #865006, regarding bcftools FTBFS with htslib 1.4.1-2: [E::hts_idx_push] Region 536870912..536870913 cannot be stored in a tbi index. Try using a csi index with min_shift = 14, n_lvls >= 6 to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 865006: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=865006 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: bcftools Version: 1.3.1-1 Severity: serious Tags: buster sid https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/bcftools.html https://buildd.debian.org/status/fetch.php?pkg=bcftools&arch=mips&ver=1.3.1-1&stamp=1497794613&raw=0 ... test_tabix: /build/1st/bcftools-1.3.1/bcftools view -H /tmp/nSKFihjHTO/merge.a.bcf 1:3000151-3000151 .. ok [E::hts_idx_push] Region 536870912..536870913 cannot be stored in a tbi index. Try using a csi index with min_shift = 14, n_lvls >= 6 tbx_index_build failed: /tmp/nSKFihjHTO/large_chrom_tbi_limit.vcf.gz The command failed: /usr/bin/tabix -f -p vcf /tmp/nSKFihjHTO/large_chrom_tbi_limit.vcf.gz at ./test/test.pl line 259. main::error("The command failed: /usr/bin/tabix -f -p vcf /tmp/nSKFihjHTO/"..., "") called at ./test/test.pl line 315 main::cmd("/usr/bin/tabix -f -p vcf /tmp/nSKFihjHTO/large_chrom_tbi_limi"...) called at ./test/test.pl line 406 main::bgzip_tabix(HASH(0x564bf0d26f48), "file", "large_chrom_tbi_limit", "suffix", "vcf", "args", "-p vcf") called at ./test/test.pl line 414 main::bgzip_tabix_vcf(HASH(0x564bf0d26f48), "large_chrom_tbi_limit") called at ./test/test.pl line 423 main::test_tabix(HASH(0x564bf0d26f48), "in", "large_chrom_tbi_limit", "reg", "chr11:1-536870912", "out", "large_chrom_tbi_limit.20.1.536870912.out") called at ./test/test.pl line 39 Makefile:102: recipe for target 'test' failed make[1]: *** [test] Error 1 make[1]: Leaving directory '/build/1st/bcftools-1.3.1' dh_auto_test: make -j16 test returned exit code 2 debian/rules:11: recipe for target 'build' failed make: *** [build] Error 2
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--- Begin Message ---Source: bcftools Source-Version: 1.4.1-1 We believe that the bug you reported is fixed in the latest version of bcftools, 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 865...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated bcftools 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: Sun, 18 Jun 2017 21:41:36 +0200 Source: bcftools Binary: bcftools Architecture: source amd64 Version: 1.4.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: bcftools - genomic variant calling and manipulation of VCF/BCF files Closes: 865006 Changes: bcftools (1.4.1-1) unstable; urgency=medium . * Team upload * New upstream version Closes: #865006 * debhelper 10 Checksums-Sha1: ba3846f8c638cc88395b06c0b7f9713d12974a5b 2110 bcftools_1.4.1-1.dsc 9becb949f1208c074a4d65a72d07cae2326d5c70 2243057 bcftools_1.4.1.orig.tar.gz 9a78543d739f4a7efb21e84042c671744048fb70 6056 bcftools_1.4.1-1.debian.tar.xz 2afe0e13b64c8e0246591c7f659f28c5a706c191 1185892 bcftools-dbgsym_1.4.1-1_amd64.deb 7c238424699557f77ffefd1fe6b5fbe1f803aec9 6452 bcftools_1.4.1-1_amd64.buildinfo 622c6ff38d84ac741371aa5fca5086a3015da502 474004 bcftools_1.4.1-1_amd64.deb Checksums-Sha256: 6aecbb8b2c6114a3e74c6100226d5b0347a58c2ec13b5f61fcc147af611f4f00 2110 bcftools_1.4.1-1.dsc 2f01e079efd03f3ff900d55ff394746741947c2492058bb2bf5c5f914ab744b1 2243057 bcftools_1.4.1.orig.tar.gz 554a93b19e6ef50a1dd7b008230c608ea2340cb88b12fac8865fa42ed89a1384 6056 bcftools_1.4.1-1.debian.tar.xz ab22f1678f9514bc922889e4d7bb1551ef83f2ae76aa03c2d70c93e33ddc86ad 1185892 bcftools-dbgsym_1.4.1-1_amd64.deb ea69778983da9578af19428d0ce406ac3aaaa8d22d2328acc56376f5fcd38df8 6452 bcftools_1.4.1-1_amd64.buildinfo 4b3938e9e81940e227111242460d253ea2528d925623e4fa6cfced38ad428605 474004 bcftools_1.4.1-1_amd64.deb Files: 52ba605a46950540edb68726b62ad531 2110 science optional bcftools_1.4.1-1.dsc 976b894d72f548e504e0cf484a1304b5 2243057 science optional bcftools_1.4.1.orig.tar.gz 12c92f239612a159e31a74563c543d49 6056 science optional bcftools_1.4.1-1.debian.tar.xz 660f0d537bbde279fc967f00ba01a22d 1185892 debug extra bcftools-dbgsym_1.4.1-1_amd64.deb 49ec1920a431342e7d5e9e03413f78cf 6452 science optional bcftools_1.4.1-1_amd64.buildinfo 1d8da9a6dccb148d434d2df7477fff52 474004 science optional bcftools_1.4.1-1_amd64.deb -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAllG2VQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFR2A/8DGPQOT2xXujJagcTnp+afw2zoHMpY+Jn +HhezJinwzUtmurhWU1v9Kmio60H0K4LspIiqfbTEebvqNi8LiXnaZBf2DXfVW8c qN9hujQZ3swcAtJGBLsjzozgT0yyfml7EVLJe28v6KfEukRMNdtpHGxn9DlnAWnq obIWmteLe7Jcr8ltkev757IQW2Ht97nqinZ1Wap7BHUZFykm8emtlyRQkQaHSzSV od8K5t6NunVs39Ro0n9pO0oblspPP6DuQKPsCl5Bz9a0e3JyrIFcF/GSXMWLvCpa 1alL1fuhUtC5BdrcZfbT1P4rxAII08Lj2M955aXVYZB0vXMQi1kS8lDjJtM9rGYM ee8N6eUe6Z8lOUPmfg1s84LWpEalRjOKJEBfMCaYdE3cTYRb6fkl1n+mBBOoLYCp 2h8t2Rm9k/z7j1Yfup/NSJXUwSIGx/EXq8qcJ8GSD40pQaiuvq71C1MfkcTUNPVF cXUYvApkZfc35moKeRNNDqhDwwf4GtaM1z7yx2CqVteY7QIEAKtlrXkZmYxpNdq7 1CbGIzwtkUI3nFym5hs/JoPhfTxXmS6PjckzV+Z+CvN/cGpHhAqJTGfGfO/hyE39 2B+AHkVYmNE6TsXS6nDHC3oX2GJhqGsbcWhZC/Sn0UWFt+1ydDySS2pvXFfdKeCi R9scIQBDYXQ= =UdEW -----END PGP SIGNATURE-----
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