Your message dated Wed, 07 Dec 2022 18:00:14 +0000 with message-id <E1p2yiM-001ieE-Hy@fasolo.debian.org> and subject line Bug#1024465: fixed in pyfastx 0.8.4-1 has caused the Debian Bug report #1024465, regarding ITP: pyfastx -- fast random access to sequences from FASTA/Q file 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 owner@bugs.debian.org immediately.) -- 1024465: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1024465 Debian Bug Tracking System Contact owner@bugs.debian.org with problems
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- To: Debian Bug Tracking System <submit@bugs.debian.org>
- Subject: ITP: pyfastx -- fast random access to sequences from FASTA/Q file
- From: Étienne Mollier <emollier@emlwks999.eu>
- Date: Sat, 19 Nov 2022 23:58:26 +0100
- Message-id: <Y3lfksARYKNf1K3y@fusion>
Package: wnpp Severity: wishlist Owner: Étienne Mollier <emollier@emlwks999.eu> X-Debbugs-Cc: debian-devel@lists.debian.org X-Debbugs-Cc: debian-med@lists.debian.org * Package name : pyfastx Version : 0.8.4 Upstream Author : Lianming Du * URL : https://github.com/lmdu/pyfastx/ * License : Expat Programming Lang: C, Python3 Description : fast random access to sequences from FASTA/Q file The pyfastx is a lightweight Python C extension that enables users to randomly access to sequences from plain and gzipped FASTA/Q files. This module aims to provide simple APIs for users to extract sequence from FASTA and reads from FASTQ by identifier and index number. The pyfastx will build indexes stored in a sqlite3 database file for random access to avoid consuming excessive amount of memory. In addition, the pyfastx can parse standard (sequence is spread into multiple lines with same length) and nonstandard (sequence is spread into one or more lines with different length) FASTA format. . It features: . * a single file for the Python extension; * lightweight, memory efficient FASTA/Q file parsing; * fast random access to sequences from gzipped FASTA/Q file; * sequences reading from FASTA file line by line; * N50 and L50 calculation of sequences in FASTA file; * GC content and nucleotides composition calculation; * reverse, complement and antisense sequences extraction; * excellent compatibility: support for parsing nonstandard FASTA file; * support for FASTQ quality score conversion; * a command line interface for splitting FASTA/Q file. This package is required for upgrading to augur 18.2.0. It will be maintained in the Debian Med team. The packaging occurs in the Debian Med group on Salsa[1]. [1]: https://salsa.debian.org/med-team/pyfastx Have a nice day, :) -- Étienne Mollier <emollier@emlwks999.eu> Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da Sent from /dev/pts/4, please excuse my verbosity.Attachment: signature.asc
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- To: 1024465-close@bugs.debian.org
- Subject: Bug#1024465: fixed in pyfastx 0.8.4-1
- From: Debian FTP Masters <ftpmaster@ftp-master.debian.org>
- Date: Wed, 07 Dec 2022 18:00:14 +0000
- Message-id: <E1p2yiM-001ieE-Hy@fasolo.debian.org>
- Reply-to: Étienne Mollier <emollier@debian.org>
Source: pyfastx Source-Version: 0.8.4-1 Done: Étienne Mollier <emollier@debian.org> We believe that the bug you reported is fixed in the latest version of pyfastx, 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 1024465@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Étienne Mollier <emollier@debian.org> (supplier of updated pyfastx 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 ftpmaster@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Sun, 20 Nov 2022 16:58:50 +0100 Binary: pyfastx python3-pyfastx python3-pyfastx-dbgsym Source: pyfastx Architecture: amd64 source Version: 0.8.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> Changed-By: Étienne Mollier <emollier@debian.org> Closes: 1024465 Description: pyfastx - fast random access to sequences from FASTA/Q file - command python3-pyfastx - fast random access to sequences from FASTA/Q file - python3 modul Changes: pyfastx (0.8.4-1) unstable; urgency=medium . * Initial release (Closes: #1024465) Checksums-Sha1: ddcd26f9bacded69307303a5480821fddafc4d78 2259 pyfastx_0.8.4-1.dsc 4d6622673ecae2c2f29b7d063b009f42c3510bb0 299324 pyfastx_0.8.4.orig.tar.xz 54f1e56e2a8febe3f92f697bd4d003b54dc22ed4 6568 pyfastx_0.8.4-1.debian.tar.xz 423222777415d067f83148c915ac786f1b2a8410 7779 pyfastx_0.8.4-1_amd64.buildinfo 23141eb89d24721ead7e79a355be00c67f450ebe 126428 pyfastx_0.8.4-1_amd64.deb eb2c461e45b7b59ef144e36cc55a2a4649a6fe17 216092 python3-pyfastx-dbgsym_0.8.4-1_amd64.deb c20c4abdc910fea2940085ac7dab4ac2ff8570db 52096 python3-pyfastx_0.8.4-1_amd64.deb Checksums-Sha256: 0b0eced94ac79a6c91e601013b0763d16e8f381868968d9b2272585dbc280f1b 2259 pyfastx_0.8.4-1.dsc 08e7d04055efbff3df722e2f4753260cc90a5a84c7ed4579bd782816d312a168 299324 pyfastx_0.8.4.orig.tar.xz d477510e5fcae1294f26ce8753ef2e59076b6d7a787d6a5063df7e4162db174c 6568 pyfastx_0.8.4-1.debian.tar.xz 9d5dc5e87dc852daf809c65ded4883d5648de5725393e4e6447d21cd2761caa9 7779 pyfastx_0.8.4-1_amd64.buildinfo 28050680170b7c0a268fb6e0c078131c5500c0075c9f6091746687a015e1c4c5 126428 pyfastx_0.8.4-1_amd64.deb 303d0efb99128eb8c0326980e5b6429723bc091f36aae89f75becae0fffac6c7 216092 python3-pyfastx-dbgsym_0.8.4-1_amd64.deb d66dae1228b25b59c7dc5a339a81869b6221c2fdcb2db211648a29da35cdd2da 52096 python3-pyfastx_0.8.4-1_amd64.deb Files: 15de05b1a43b66fd4a4713b1f712471b 2259 science optional pyfastx_0.8.4-1.dsc 490ab0021895a9ccb3bc2ed6bdef5ca0 299324 science optional pyfastx_0.8.4.orig.tar.xz 9bca5961de0906b7deb3140621225afc 6568 science optional pyfastx_0.8.4-1.debian.tar.xz 2a5fc82f4b8c30c34794e50623178c0a 7779 science optional pyfastx_0.8.4-1_amd64.buildinfo cd8db9da88bc814f5f66a6007561abfd 126428 science optional pyfastx_0.8.4-1_amd64.deb b556f968367a6b89fc51c9b2863c2211 216092 debug optional python3-pyfastx-dbgsym_0.8.4-1_amd64.deb 4a7f57e95d574e20c7ef36f9f5abef48 52096 python optional python3-pyfastx_0.8.4-1_amd64.deb -----BEGIN PGP SIGNATURE----- iQJIBAEBCgAyFiEEj5GyJ8fW8rGUjII2eTz2fo8NEdoFAmN6ZxQUHGVtb2xsaWVy QGRlYmlhbi5vcmcACgkQeTz2fo8NEdoA3Q//S75K9gxtiz0T1mmEZDpTv+fokkSm ZYZBq7nOturXQyKvFau7fjBLHORoaas63GaSRm0WU7KNBj/p4N2FaBkGJxGtSksf 2CK4x+2sa05ZO5LE/pvR5cVIDY/Xbalkd/4hz1dAKRXLlwcNGXwY/LoeBzbki/4D tuHNAt9exqA9C9IfziEb7hzuRQeo5ZhVcmfHIvXrDlemp2OxVVcjM1qi2NPmMmcn lO/4qhyn0VfnLdWk/j8LBExqhtGknYYo1JDTIRqqS07UIIls2d8XS947RzsXq7Yq 9v07rdTb1eN9POUevKdV86qPBMDsQpTUv+yWePLgKuLhxVAkztaMAvMvE75yD9+f F/UmGZRS65GRjPqpkJ2dR3p/NKa9vMBhMHPiRiWJElaNyctGusF8SElfXN3QtVxl 7KGT1EeIwDHiblfBNaBonURypz99ZpWjER01DiHbFKLwhrc4cl9MVCGLk7ax4D0i cZR//dBDt0CTrsg1ZX0bHtDFQG0/G9Xz0ZKykVnTeFLBrpvgC1G518sES/5RazX/ 8R4EROSwLiHpeNa/H50Nix3Rk0jL8b9Pfyo8er2BngN+LBe7D3dNww7dnxaLQxDW thWQbFtqzuETHnM1g+C07lvcCArBX4uVOTi/nGRwm6uvb6ePq7gpU+0wsUI7SXEw JowYHBXjizuJGDc= =js9h -----END PGP SIGNATURE-----
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