Your message dated Thu, 05 Sep 2019 10:00:12 +0000 with message-id <e1i5oym-000ia6...@fasolo.debian.org> and subject line Bug#933975: fixed in trim-galore 0.6.4-1 has caused the Debian Bug report #933975, regarding ITP: trim-galore -- automate quality and adapter trimming for DNA sequencing 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.) -- 933975: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=933975 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: wnpp Severity: wishlist Subject: ITP: trim-galore -- automate quality and adapter trimming for DNA sequencing Package: wnpp Owner: Steffen Moeller <moel...@debian.org> Severity: wishlist * Package name : trim-galore Version : 0.6.4 Upstream Author : Felix Krueger * URL : https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ * License : GPL-3.0+ Programming Lang: (C, C++, C#, Perl, Python, etc.) Description : automate quality and adapter trimming for DNA sequencing Trim Galore! is a wrapper script to automate quality and adapter trimming as well as quality control, with some added functionality to remove biased methylation positions for RRBS sequence files (for directional, non-directional (or paired-end) sequencing). It's main features are: * For adapter trimming, Trim Galore! uses the first 13 bp of Illumina standard adapters ('AGATCGGAAGAGC') by default (suitable for both ends of paired-end libraries), but accepts other adapter sequence, too * For MspI-digested RRBS libraries, Trim Galore! performs quality and adapter trimming in two subsequent steps. This allows it to remove 2 additional bases that contain a cytosine which was artificially introduced in the end-repair step during the library preparation * For any kind of FastQ file other than MspI-digested RRBS, Trim Galore! can perform single-pass adapter- and quality trimming * The Phred quality of basecalls and the stringency for adapter removal can be specified individually * Trim Galore! can remove sequences if they become too short during the trimming process. For paired-end files Trim Galore! removes entire sequence pairs if one (or both) of the two reads became shorter than the set length cutoff. Reads of a read-pair that are longer than a given threshold but for which the partner read has become too short can optionally be written out to single-end files. This ensures that the information of a read pair is not lost entirely if only one read is of good quality * Trim Galore! can trim paired-end files by 1 additional bp from the 3' end of all reads to avoid problems with invalid alignments with Bowtie 1 * Trim Galore! accepts and produces standard or gzip compressed FastQ files * FastQC can optionally be run on the resulting output files once trimming has completed Remark: This package is maintained by Steffen Moeller at https://salsa.debian.org/med-team/trim-galore
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--- Begin Message ---Source: trim-galore Source-Version: 0.6.4-1 We believe that the bug you reported is fixed in the latest version of trim-galore, 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 933...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Steffen Moeller <moel...@debian.org> (supplier of updated trim-galore 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: Mon, 05 Aug 2019 15:26:15 +0200 Source: trim-galore Binary: trim-galore Architecture: source all Version: 0.6.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Steffen Moeller <moel...@debian.org> Description: trim-galore - automate quality and adapter trimming for DNA sequencing Closes: 933975 Changes: trim-galore (0.6.4-1) unstable; urgency=medium . * Initial release (Closes: #933975) . TODO: Write test script Deal with documentation Checksums-Sha1: 6199be1c67ad98fd2e2856cd888508790fad3313 2006 trim-galore_0.6.4-1.dsc 4dbace01e516788a53fc37fc6e6cd4b562b2db3a 26827580 trim-galore_0.6.4.orig.tar.gz 3b7c5adbe312707901d86456173b507ed89d363d 2412 trim-galore_0.6.4-1.debian.tar.xz d75fb1f575a869ec4b0a20637fbb652ad2235ffa 34748 trim-galore_0.6.4-1_all.deb 4a6e69031ab112b730b1209cdb67169e30db7c8c 5760 trim-galore_0.6.4-1_amd64.buildinfo Checksums-Sha256: 72e809d5696e3d261110bd1573c2b2df688ef08b48e2b9685d1b2816f5703a70 2006 trim-galore_0.6.4-1.dsc eb57e18203d8a1dce1397b930a348a9969eebaa758b8a7304d04c22f216cea2d 26827580 trim-galore_0.6.4.orig.tar.gz 5497aaa304d8f8ed80ba0fae077b0ad370af874c43a478fb828b1ca7b3c8f08b 2412 trim-galore_0.6.4-1.debian.tar.xz 012364a701f13983c5de6a3dcfd8a44c1450b6ef62a04ed1f170c961475e7fce 34748 trim-galore_0.6.4-1_all.deb 0b29a858691c9ddc3c33a0f90e679957e3af0d35e31f312ad516ea098524b2c4 5760 trim-galore_0.6.4-1_amd64.buildinfo Files: 37d184f1b1daf8ad7d3293cac074bb8b 2006 science optional trim-galore_0.6.4-1.dsc 3beb267468ab1ef0fc7f652fd81fd59f 26827580 science optional trim-galore_0.6.4.orig.tar.gz 135230b6595eccf0d9d239de7aa502ba 2412 science optional trim-galore_0.6.4-1.debian.tar.xz 0a0b69b48a181e8666aaf35c05edddcc 34748 science optional trim-galore_0.6.4-1_all.deb f8d9b3560ad858099090e7b58bb5c8fa 5760 science optional trim-galore_0.6.4-1_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJHBAEBCAAxFiEEhMGXeonn7+0+XKYuL9i+2sAg7tEFAl1Icf4THG1vZWxsZXJA ZGViaWFuLm9yZwAKCRAv2L7awCDu0fqtD/9X2hcBgjp0no5bXI56OKUBCnNl++tM ICBwk/x3Cbvctvh9+WQ+/7GNkjuYpziRyuiA6rucJDgftAgidCl9w5TjSkS/lOcV +YmwqwMd7iubRsvQlc3peFJCawPyrF5cciG8he6TsZHMmpk3yKP5mERovn5Mtwcn 8sGacuWnH5RRMAl0gvbmHE9FigVRzFH0hLJXIFLvDv+DJKzj+Jdp8VG83vCql+t+ 52emi+IKVtgK1uViNPW8u2ou0vf4X4BvwauZpdkoyWW/epkFxSNYpvAA/XYioRrC zZf24DI0W/m/LwiUnChqDjYXTOTO7k0U4xC4xYCdq3mYPdyeQwkZvGMjwr9OIR4i Ebn/NSSP9hvs/LMzNJgQB30l73CcL8A+JB9we+3rTFhOLS9FcNoVHVyxJxVkUsKe dXX/QNp97haua48Vhkg1nX+QUntakYR6sI6DJ6AZFmdbfQ5w7+YwzFhGLqtetZrr bWkY5KWLDAmSEwWd7jQy8a4ZIVzLSDaMDr96JEvfKjCK6gH6bkqPaGf/QwlaDBA6 4suF5djERrO6nSo9KXStsH+t4Cz+1gCh3rits4so3EFmUGOWB6RHDhwcDcRjzAvp fqG1Suql25Bl2HhQBAOUH5JWo4ElExWjb89TLQVP3NjtUN1kxBKmhwqHhh3LDXtG WBKdoGkQMSYOzw== =3rKZ -----END PGP SIGNATURE-----
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