Bug#1064291: marked as done (ITP: python-awkward -- manipulate JSON-like data with NumPy-like idioms)
Your message dated Sat, 24 Feb 2024 13:06:34 + with message-id and subject line Bug#1064291: fixed in python-awkward 2.6.1-1 has caused the Debian Bug report #1064291, regarding ITP: python-awkward -- manipulate JSON-like data with NumPy-like idioms 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.) -- 1064291: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1064291 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: debian-med@lists.debian.org X-Debbugs-Cc: debian-de...@lists.debian.org * Package name: python-awkward Version : 2.6.1 Upstream Contact: Jim Pivarski * URL : https://github.com/scikit-hep/awkward * License : BSD-3-clause Programming Lang: Python, C++ Description : manipulate JSON-like data with NumPy-like idioms Awkward Array is a library for nested, variable-sized data, including arbitrary-length lists, records, mixed types, and missing data, using NumPy-like idioms. Arrays are dynamically typed, but operations on them are compiled and fast. Their behavior coincides with NumPy when array dimensions are regular and generalizes when they're not. This is packaged as a dependency for another package under the umbrella of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: python-awkward Source-Version: 2.6.1-1 Done: Sascha Steinbiss We believe that the bug you reported is fixed in the latest version of python-awkward, 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 1064...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Sascha Steinbiss (supplier of updated python-awkward 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, 19 Feb 2024 18:28:57 +0100 Source: python-awkward Binary: python3-awkward python3-awkward-dbgsym Architecture: source amd64 Version: 2.6.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Sascha Steinbiss Description: python3-awkward - manipulate JSON-like data with NumPy-like idioms Closes: 1064291 Changes: python-awkward (2.6.1-1) unstable; urgency=medium . [ Andreas Tille ] * Initial release (Closes: #1064291) Checksums-Sha1: e835fc60616da3330a380ca105e75bbec149cfa5 2366 python-awkward_2.6.1-1.dsc a4ef295e085c7c58ec1f2a28290f13da42132bdc 6040868 python-awkward_2.6.1.orig.tar.gz 91af6573bfdd76139113e93f54143f79b7c3b654 3292 python-awkward_2.6.1-1.debian.tar.xz 277224034e7f5452fb4fc00191f8553dcc25ac75 9409 python-awkward_2.6.1-1_amd64.buildinfo 7f35255f4e0e28de704b43ef7020b035cac46c59 5174496 python3-awkward-dbgsym_2.6.1-1_amd64.deb 2b24ffdfc4f6030fcfaf86d4edc780cf4731fc5a 882204 python3-awkward_2.6.1-1_amd64.deb Checksums-Sha256: d3ea8befdebc2a6e24965ee1fbd235669c7c558c97c1f359f342cb889729ef69 2366 python-awkward_2.6.1-1.dsc 4c17354edae1bf4a5701e2a5b949043b8f358895718712e0720ba1be9dabbce6 6040868 python-awkward_2.6.1.orig.tar.gz 5befc650dc06b79040802fd8da693894918a5162076ebad46fcc45f978a016dd 3292 python-awkward_2.6.1-1.debian.tar.xz 23f92d9578aa35ae164bc4cd72d81a9bb3e3f68ab27d792a7002772c8501f313 9409 python-awkward_2.6.1-1_amd64.buildinfo 557768ad12a871641aeef664829d6b476c2e6620ec51b1608cf553e7676d2db5 5174496 python3-awkward-dbgsym_2.6.1-1_amd64.deb fea0101f0d78ff16ddb3a00d03f11ff493bbac5a24d70b98a87f6fd814fdeee8 882204 python3-awkward_2.6.1-1_amd64.deb Files: a1714dda9f9e9fa20d0584e12e54107a 2366 python optional python-awkward_2.6.1-1.dsc 4985e5efc79105640d5718931eebab33 6040868 python optional python-awkward_2.6.1.orig.tar.gz a1e6d04386e251fe0328470de85897b6 3292 python optional python-awkward_2.6.1-1.debian.tar.xz d205149ace149bf2de2a3b844811d476 9409 python optional python-awkward_2.6.1-1_amd64.buildinfo 378ae2d1514d3afada7cd93760dafe1d 5174496 debug optional python3-awkward-dbgsym_2.6.1-1_amd64.deb ad082dfeacaee9dd9b04bfa6683096dd 882204 python optional python3-awkward_2.6.1-1_amd64.deb -BEGIN PGP SIGNATURE- iQIzBAEBCAAdFiEEWzS6WqtVB+kDQm6F6NN64vCfSHIFAmXTt0MACgkQ6NN64vCf SHLdbxAAnX9oiBgUwB0NCbh6JPSo+JQr/shB6OLdwEp5rqpjkKJyJUzim4secHZ2
Bug#1021934: marked as done (ITP: biojava6-live -- Java API to biological data and applications (version 6))
Your message dated Wed, 11 Jan 2023 19:00:10 + with message-id and subject line Bug#1021934: fixed in biojava6-live 6.0.5+dfsg-1 has caused the Debian Bug report #1021934, regarding ITP: biojava6-live -- Java API to biological data and applications (version 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.) -- 1021934: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1021934 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: biojava6-live Version : 6.0.5 Upstream Author : BioJava Developers * URL : https://biojava.org * License : LGPL-2.1 Programming Lang: Java Description : Java API to biological data and applications (version 6) This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It includes objects for manipulating sequences, file parsers, server support, access to BioSQL and Ensembl databases, and powerful analysis and statistical routines including a dynamic programming toolkit. Important changes in the API at each major version have made it necesssary to have a new source package for every major version of the library. In the Debian-med team, we have already started seeing packages depending on biojava 6 and it would be a very valuable addition to have it into Debian. The package will be team-maintained by the Debian-med team. --- End Message --- --- Begin Message --- Source: biojava6-live Source-Version: 6.0.5+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of biojava6-live, 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 1021...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated biojava6-live 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: SHA512 Format: 1.8 Date: Fri, 21 Oct 2022 07:28:41 +0200 Source: biojava6-live Binary: libbiojava6-java libbiojava6-java-doc Architecture: source all Version: 6.0.5+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libbiojava6-java - Java API to biological data and applications (version 6) libbiojava6-java-doc - [Biology] Documentation for BioJava 6 Closes: 1021934 Changes: biojava6-live (6.0.5+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #1021934) Checksums-Sha1: 167548352f8d99f326c34bc19616e862c81cc60d biojava6-live_6.0.5+dfsg-1.dsc 7016114b4e93972f0011b051033c52b88f47dfa4 716817 biojava6-live_6.0.5+dfsg.orig-forester.tar.gz 8c9e87252aa79ae087f053f04169ccc519d78553 12099 biojava6-live_6.0.5+dfsg.orig-jcolorbrewer.tar.gz c925567b7f4fb1000430d0113ab2a04c33884ee2 17820236 biojava6-live_6.0.5+dfsg.orig.tar.gz 501ab1a3e0750fb6386c58ffa993620fb30abd29 26384 biojava6-live_6.0.5+dfsg-1.debian.tar.xz 2e1119916340cbae771845f8f519b9f5a1fdb1e8 17809 biojava6-live_6.0.5+dfsg-1_amd64.buildinfo 188d7a3751a56e9992fa90724f4b22d4208e00e8 2555764 libbiojava6-java-doc_6.0.5+dfsg-1_all.deb 4c6e4f56b05ef4060a57e770575a86ce83655e5e 5303544 libbiojava6-java_6.0.5+dfsg-1_all.deb Checksums-Sha256: aa6a1aea757ee1021359ccdfc320821505523ef52d00ec826ae8add727143020 biojava6-live_6.0.5+dfsg-1.dsc c62105605104c93848056ea2726220552ac7460b5024eb98e163afe20d8247d6 716817 biojava6-live_6.0.5+dfsg.orig-forester.tar.gz d6548c423ad6202bc8f75eaa8b5839654a34591dfde51c129829ea14b3feeb8a 12099 biojava6-live_6.0.5+dfsg.orig-jcolorbrewer.tar.gz b7a6aa3e0edf5c4ea18a6a7eaa688172c5bf504d174875f3df08ad2448e47107 17820236 biojava6-live_6.0.5+dfsg.orig.tar.gz 0b5d2fe42f5f4701c4c5e2e0e3adae44be07374f0229568194f39462e7b2d105 26384 biojava6-live_6.0.5+dfsg-1.debian.tar.xz 7c9471ecd3136a88f1feb0c0eef31c1551a6e1079a82c526cd74049c63ad5c41 17809 biojava6-live_6.0.5+dfsg-1_amd64.buildinfo
Bug#1022258: marked as done (ITP: libmjson-java -- lean JSON Library for Java with a compact API)
Your message dated Sun, 30 Oct 2022 19:00:11 + with message-id and subject line Bug#1022258: fixed in libmjson-java 1.4.0-1 has caused the Debian Bug report #1022258, regarding ITP: libmjson-java -- lean JSON Library for Java with a compact API 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.) -- 1022258: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1022258 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: libmjson-java Version : 1.4.0 Upstream Author : Miami-Dade County * URL : https://bolerio.github.io/mjson/ * License : Apache-2.0 Programming Lang: Java Description : lean JSON Library for Java with a compact API mJson is an extremely lightweight Java JSON library with a very concise API. Unlike other JSON libraries, it focuses on manipulating JSON structures in Java without necessarily mapping them to/from strongly typed Java objects. Because of its tiny size, it is well-suited for any application aiming at a small footprint such as mobile applications. mjson is needed as a dependency of htsjdk, which is an important software in the Debian-med ecosystem. --- End Message --- --- Begin Message --- Source: libmjson-java Source-Version: 1.4.0-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of libmjson-java, 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 1022...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated libmjson-java 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: SHA512 Format: 1.8 Date: Mon, 24 Oct 2022 07:38:04 +0200 Source: libmjson-java Binary: libmjson-java Architecture: source all Version: 1.4.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libmjson-java - lean JSON Library for Java with a compact API Closes: 1022258 Changes: libmjson-java (1.4.0-1) unstable; urgency=medium . * Initial release (Closes: #1022258) Checksums-Sha1: e86046ddd53862fa3a7a977b13bf8a67c0ade874 2002 libmjson-java_1.4.0-1.dsc a4fb57c5f692303829620808074c397a22774184 47045 libmjson-java_1.4.0.orig.tar.gz 86bc81c2bece54c571bb5f489cecb09e8f195f90 3608 libmjson-java_1.4.0-1.debian.tar.xz e103f4571e0eb38e217792e884caaad792c4c009 60172 libmjson-java_1.4.0-1_all.deb 62b81dffd481ab18cf2153c52b6d848f04c97ca4 11570 libmjson-java_1.4.0-1_amd64.buildinfo Checksums-Sha256: 1811f245a36707f51f9325c0976800ff3f0a8d5bb86abfa6e6e254c8b43c5b2a 2002 libmjson-java_1.4.0-1.dsc 0588da6ac6949be206951e18c1d05eb7b610346af7a1677abe2ac3d260a635f4 47045 libmjson-java_1.4.0.orig.tar.gz 7e0ce0ab0912e9b13fc649ef696fc532bd79997c5db5bfc77bc19206682465bc 3608 libmjson-java_1.4.0-1.debian.tar.xz 24eb270e0b02a0b18ee51508ea9fc4e5d808ce616b1d8a91049e01c71e1d5ec8 60172 libmjson-java_1.4.0-1_all.deb 68317dbbe05a0bd44c4f6f69c439598003fe0d99691b7d383f66b4714b724517 11570 libmjson-java_1.4.0-1_amd64.buildinfo Files: e2d45bd32f069498e3885d661e3fce96 2002 java optional libmjson-java_1.4.0-1.dsc e6cef47d03f098b301735eed14d6cb0b 47045 java optional libmjson-java_1.4.0.orig.tar.gz 62189446021d0aaff3cd2d1c31b5ad21 3608 java optional libmjson-java_1.4.0-1.debian.tar.xz 932f8ae27336a7486e3b61890e80057f 60172 java optional libmjson-java_1.4.0-1_all.deb 3adba5b6859bc3d7017ae18927c5450e 11570 java optional libmjson-java_1.4.0-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmNWKK8ACgkQYAMWptwn dHaB7w//WjfaK9Iuw0ehtGFWl/p7fUMX7T8BwcTO9XLXjVUOF0lNp07UBECM2afU U7fDF1o/NENjKUN1slAxkhiC+vOzuMZIzGPGbBzzVjmf97W9ZNYB0z9jwK6zSeUq RmuLV4+qLlxVz7pkeoSAgY3g0lp9F+wMhc+Mora1dvQMMvVQ5aqFoDYizFa3Gggv 7+PyAsj0Dzq4NeAzZXH0AXAbtO3wQpjEfVJxdTbGPWDeFapyBNonxUw8V5Emp5ZY 38NGN/FDZXRpJ8BOvC1Z/pF+O96k2zxZmHpdpK2ZLg19BDQIPa4KGUbd0fBDLv6c 1xMQ7ilrmdFI2dm7iFIQAR88OUm2P9PRFhl3UuxwERxHuCb+NwlN8LtwOrotavKu U/z2q3Smgb6FQ8tqRsdysE/0LmiBo5vBjV5EL31Jpmccj5YaSPGmC9y1p4Bx0k8V lV/wA2IGhkg3Q
Bug#1016046: marked as done (ITP: genomicsdb -- sparse array storage library for genomics)
Your message dated Sat, 10 Sep 2022 18:04:11 + with message-id and subject line Bug#1016046: fixed in genomicsdb 1.4.3-1 has caused the Debian Bug report #1016046, regarding ITP: genomicsdb -- sparse array storage library for genomics 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.) -- 1016046: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1016046 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: genomicsdb Version : 1.4.3 Upstream Author : Intel Health and Lifesciences * URL : https://www.genomicsdb.org/ * License : Expat Programming Lang: C++, Java Description : sparse array storage library for genomics GenomicsDB is built on top of a htslib fork and an internal array storage system for importing, querying and transforming variant data. Variant data is sparse by nature (sparse relative to the whole genome) and using sparse array data stores is a perfect fit for storing such data. The GenomicsDB stores variant data in a 2D array where: - Each column corresponds to a genomic position (chromosome + position); - Each row corresponds to a sample in a VCF (or CallSet in the GA4GH terminology); - Each cell contains data for a given sample/CallSet at a given position; data is stored in the form of cell attributes; - Cells are stored in column major order - this makes accessing cells with the same column index (i.e. data for a given genomic position over all samples) fast. - Variant interval/gVCF interval data is stored in a cell at the start of the interval. The END is stored as a cell attribute. For variant intervals (such as deletions and gVCF REF blocks), an additional cell is stored at the END value of the variant interval. When queried for a given genomic position, the query library performs an efficient sweep to determine all intervals that intersect with the queried position. There is a C++ library and a Java library, we plan to ship both of them. This library is needed as a dependency of gatk, which is a packaging target of the Debian-med team. --- End Message --- --- Begin Message --- Source: genomicsdb Source-Version: 1.4.3-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of genomicsdb, 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 1016...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated genomicsdb 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: SHA512 Format: 1.8 Date: Thu, 28 Jul 2022 17:35:09 +0200 Source: genomicsdb Binary: genomicsdb-tools genomicsdb-tools-dbgsym libgenomicsdb-dev libgenomicsdb-java libgenomicsdb-jni libgenomicsdb-jni-dbgsym libgenomicsdb0 libgenomicsdb0-dbgsym Architecture: source amd64 all Version: 1.4.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: genomicsdb-tools - sparse array storage library for genomics (tools) libgenomicsdb-dev - sparse array storage library for genomics (development files) libgenomicsdb-java - sparse array storage library for genomics (Java library) libgenomicsdb-jni - sparse array storage library for genomics (Java native bindings) libgenomicsdb0 - sparse array storage library for genomics (shared libraries) Closes: 1016046 Changes: genomicsdb (1.4.3-1) unstable; urgency=medium . * Initial release (Closes: #1016046) Checksums-Sha1: 984b389d7e0c06c3e7ab333d3efabb8ac86c9ea8 3378 genomicsdb_1.4.3-1.dsc 7ea1900a53e268033361ac191fcccb2950345bad 1515241 genomicsdb_1.4.3.orig-genomicsdb-htslib.tar.gz 2b63b388a1a5cbd3441e0ac2fb1ad38483fa9bec 1063796 genomicsdb_1.4.3.orig-genomicsdb-tiledb.tar.gz b307be22081c6b48f009048dbccc997148a5 6589775 genomicsdb_1.4.3.orig.tar.gz 456d13ed0ff0afeb4fd8b2b24f023acaec44ff0d 25472 genomicsdb_1.4.3-1.debian.tar.xz 944b5f9ad3d65cf1650217578c15686347e7049e 102219156 genomicsdb-tools-dbgsym_1.4.3-1_amd64.deb
Bug#1014344: marked as done (ITP: gatk-bwamem -- interface to call Heng Li's bwa mem aligner from Java code)
Your message dated Fri, 22 Jul 2022 19:10:10 + with message-id and subject line Bug#1014344: fixed in gatk-bwamem 1.0.4+dfsg2-1 has caused the Debian Bug report #1014344, regarding ITP: gatk-bwamem -- interface to call Heng Li's bwa mem aligner from Java code 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.) -- 1014344: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1014344 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: gatk-bwamem Version : 1.0.4 Upstream Author : Broad Institute * URL : https://github.com/broadinstitute/gatk-bwamem-jni/ * License : BSD-3-Clause Programming Lang: Java Description : interface to call Heng Li's bwa mem aligner from Java code BWA (Burrows-Wheeler Aligner) is a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It is written in C. gatk-bwamem provides a Java library and a shared library to allow one to use BWA from Java code. --- End Message --- --- Begin Message --- Source: gatk-bwamem Source-Version: 1.0.4+dfsg2-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of gatk-bwamem, 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 1014...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated gatk-bwamem 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: SHA512 Format: 1.8 Date: Wed, 06 Jul 2022 12:28:41 +0200 Source: gatk-bwamem Binary: libgatk-bwamem-java libgatk-bwamem-jni libgatk-bwamem-jni-dbgsym Architecture: source all amd64 Version: 1.0.4+dfsg2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libgatk-bwamem-java - interface to call Heng Li's bwa mem aligner from Java code libgatk-bwamem-jni - interface to call Heng Li's bwa mem aligner from Java code (jni) Closes: 1014344 Changes: gatk-bwamem (1.0.4+dfsg2-1) unstable; urgency=medium . * Initial release (Closes: #1014344) Checksums-Sha1: ff1bd4b1140d6a06e280668bc71dc52f1cbf3984 2498 gatk-bwamem_1.0.4+dfsg2-1.dsc 514dfb2510d7c8d5d5f90707dc3f47dfeae7287b 144424 gatk-bwamem_1.0.4+dfsg2.orig-bwa-apache2.tar.xz c27d5ad7ee506407448891b75f3d155bd795dd47 21360 gatk-bwamem_1.0.4+dfsg2.orig.tar.xz f244f57a24e9d496013c9970c161e17b22967174 10152 gatk-bwamem_1.0.4+dfsg2-1.debian.tar.xz 7b8ba12cb821a417b4c02422908742f7f0b09674 11767 gatk-bwamem_1.0.4+dfsg2-1_amd64.buildinfo 8d37594fe2658466fea181366c6b3ac75b55c8b1 23312 libgatk-bwamem-java_1.0.4+dfsg2-1_all.deb b5733304134dbcd5eb4b3688961692d720ed3227 212976 libgatk-bwamem-jni-dbgsym_1.0.4+dfsg2-1_amd64.deb 2fa6e551d5f3f955dda61b73b5d36338bd5da0b4 91064 libgatk-bwamem-jni_1.0.4+dfsg2-1_amd64.deb Checksums-Sha256: 8f777c6858d9e618f9254bf03b35402fc4375115b37bb9631bbe1886a1c0c074 2498 gatk-bwamem_1.0.4+dfsg2-1.dsc 954d5d5aae624ce0faa4c9c3d30e91490dd93ce41b2205d84042c3391d35093a 144424 gatk-bwamem_1.0.4+dfsg2.orig-bwa-apache2.tar.xz 767c56d136ab24f1fc0511b4a5dcf927ba0028fa140c61e97da10dd57291d798 21360 gatk-bwamem_1.0.4+dfsg2.orig.tar.xz 4edb11ffa809fb686bf049cfee2f99870e8f375b82592abee8b29ce4bfb318fc 10152 gatk-bwamem_1.0.4+dfsg2-1.debian.tar.xz b31cf3dd3ea7798109383d75b419fad5f6a283331dd9a9c2f2eb30b8472a00f9 11767 gatk-bwamem_1.0.4+dfsg2-1_amd64.buildinfo 7e80c2da0b09880014a044dea85114340f15459726990a7a1e84e3786399b7bf 23312 libgatk-bwamem-java_1.0.4+dfsg2-1_all.deb 5c648400edb5a773fe4c50fe11ca4773dea3e09a2b7ba0421b146a2863200a41 212976 libgatk-bwamem-jni-dbgsym_1.0.4+dfsg2-1_amd64.deb 8ca64e1ac61fad40624a44d1586a491370a3f634b5acdef7dacc55eea8d3ea51 91064 libgatk-bwamem-jni_1.0.4+dfsg2-1_amd64.deb Files: f09f03abc7ae4599c553b4aece527743 2498 java optional gatk-bwamem_1.0.4+dfsg2-1.dsc d0b90d3400ed4ccc469367c4dfbd9bca 144424 java optional gatk-bwamem_1.0.4+dfsg2.orig-bwa-apache2.tar.xz ed2b395e5416b1bf2b6902acedd61c80 21360 java optional gatk-bwamem_1.0.4+dfsg2
Bug#1008304: marked as done (ITP: libhttp-nio-java -- http/s file system provider for Java NIO.2)
Your message dated Wed, 06 Apr 2022 18:06:58 + with message-id and subject line Bug#1008304: fixed in libhttp-nio-java 0.1.0-rc1+dfsg-1 has caused the Debian Bug report #1008304, regarding ITP: libhttp-nio-java -- http/s file system provider for Java NIO.2 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.) -- 1008304: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1008304 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: http-nio Version : 0.1.0 Upstream Author : Daniel Gomez-Sanchez * URL : https://github.com/lbergelson/http-nio * License : BSD-3-Clause Programming Lang: Java Description : http/s file system provider for Java NIO.2 This package provides a http or https file system that can be used in conjunction with Java NIO.2. This lightweight library provides a few classes related to file systems and paths. It is provided by the developers of gatk, which is a long-term packaging target of Debian-med team. I am packaging it as a reverse dependency of gatk. For this reason, it will be team-maintained inside Debian-med team. --- End Message --- --- Begin Message --- Source: libhttp-nio-java Source-Version: 0.1.0-rc1+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of libhttp-nio-java, 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 1008...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated libhttp-nio-java 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: SHA512 Format: 1.8 Date: Fri, 01 Apr 2022 18:28:28 +0200 Source: libhttp-nio-java Binary: libhttp-nio-java Architecture: source all Version: 0.1.0-rc1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libhttp-nio-java - http/s file system provider for Java NIO.2 Closes: 1008304 Changes: libhttp-nio-java (0.1.0-rc1+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #1008304) Checksums-Sha1: 6ec02c18f6b7bb549dcb752be1ab9e4df75d3f4e 2194 libhttp-nio-java_0.1.0-rc1+dfsg-1.dsc b8a0eede87c3cfe898cfad62c2cd4d8414875ee1 25312 libhttp-nio-java_0.1.0-rc1+dfsg.orig.tar.xz edfae135849df7bd531a424a284e789d19334ffe 6948 libhttp-nio-java_0.1.0-rc1+dfsg-1.debian.tar.xz 49785689002aadb2b52ab24487a840c3258d1ab9 25920 libhttp-nio-java_0.1.0-rc1+dfsg-1_all.deb fceab05135e826507b0dfbef19d160b445d2cfc6 13494 libhttp-nio-java_0.1.0-rc1+dfsg-1_amd64.buildinfo Checksums-Sha256: e452c2b3417d9ff88e0b3cd80ab456f38198309cdd06c04edab4f634f69305bd 2194 libhttp-nio-java_0.1.0-rc1+dfsg-1.dsc 59ebea43e095c4a68c46438cf757e5d97d33659c8c9307a9f4cca9687a5e038d 25312 libhttp-nio-java_0.1.0-rc1+dfsg.orig.tar.xz 7cea675cb94e2f1ef71f58de017cb8c2ad28cdfb6cea121b9064ff052ad3db90 6948 libhttp-nio-java_0.1.0-rc1+dfsg-1.debian.tar.xz 62a0fcb538f6c0b31b8ff09bcc7df0ae820f803211b0942480f5716715506616 25920 libhttp-nio-java_0.1.0-rc1+dfsg-1_all.deb 56bca22f93a5daf6bc18afafc50f193427d60ce1265d414f119ceb5725c5bc28 13494 libhttp-nio-java_0.1.0-rc1+dfsg-1_amd64.buildinfo Files: 53671dde8d7db3a4aa7939d1b441e6af 2194 java optional libhttp-nio-java_0.1.0-rc1+dfsg-1.dsc 01043225885eb2958da93efdb7b51328 25312 java optional libhttp-nio-java_0.1.0-rc1+dfsg.orig.tar.xz b7b3487d54e0147a1d03c24ef2e0d068 6948 java optional libhttp-nio-java_0.1.0-rc1+dfsg-1.debian.tar.xz f4b4b9d7abc0056c6541d0ea739d84be 25920 java optional libhttp-nio-java_0.1.0-rc1+dfsg-1_all.deb 08d2f25be8b11878eab5dd0a1b46ff56 13494 java optional libhttp-nio-java_0.1.0-rc1+dfsg-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmJHMG0ACgkQYAMWptwn dHYsoxAApZV2TyaA4LUgrAAjz/mCPJ0OpfmYEq1EqpZNkfM3sGubbHdwmsDW4JXj ymePdly8jRqpLRjFM0uKxL8ky9HKzkaHT1Gl90sgnlgyXQMhPc0Pu2CXK/JUgENc Pc12K5odti13zGxba8FBc6LuPgpP9MT/os8Uq8c4OpVgJ/d5qg648Pu3fXxFyqST Di7jY4BULMbLPUK/uZVz8U8Yvby2RXXJb9wqDJ4bBjsF4otK4HoJouKb6cZCr8lR
Bug#1008128: marked as done (ITP: gatk-fermilite -- interface to call Heng Li's fermi-lite assembler from Java code)
Your message dated Tue, 05 Apr 2022 18:00:13 + with message-id and subject line Bug#1008128: fixed in gatk-fermilite 1.2.1+dfsg-1 has caused the Debian Bug report #1008128, regarding ITP: gatk-fermilite -- interface to call Heng Li's fermi-lite assembler from Java code 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.) -- 1008128: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1008128 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: gatk-fermilite Version : 1.2.1 Upstream Author : Broad Institute * URL : https://github.com/broadinstitute/gatk-fermilite-jni * License : BSD-3-clause Programming Lang: Java, C Description : interface to call Heng Li's fermi-lite assembler from Java code Fml-asm (fermi-lite assembler) is a command-line tool for assembling Illumina short reads in regions from 100bp to 10 million bp in size, based on the fermi-lite library. gatk-fermilite provides a Java library and a shared library to allow one to use fermilite from Java code. The package will be team-maintained inside Debian-med team. It is needed as a dependency of the packaging target gatk. --- End Message --- --- Begin Message --- Source: gatk-fermilite Source-Version: 1.2.1+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of gatk-fermilite, 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 1008...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated gatk-fermilite 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: SHA512 Format: 1.8 Date: Fri, 25 Mar 2022 21:43:37 +0100 Source: gatk-fermilite Binary: libgatk-fermilite-java libgatk-fermilite-jni libgatk-fermilite-jni-dbgsym Architecture: source all amd64 Version: 1.2.1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libgatk-fermilite-java - interface to call Heng Li's fermi-lite assembler from Java code libgatk-fermilite-jni - interface to call Heng Li's fermi-lite assembler from Java code ( Closes: 1008128 Changes: gatk-fermilite (1.2.1+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #1008128) Checksums-Sha1: 6567afc6ca03af777ed743e633f22ef9d4cc28a2 2209 gatk-fermilite_1.2.1+dfsg-1.dsc 23608342ed1796d5e329645e6dcd8dcadbe4a3cd 12080 gatk-fermilite_1.2.1+dfsg.orig.tar.xz e0824a4359577685210fc9c4d93830cc345d9ef2 7432 gatk-fermilite_1.2.1+dfsg-1.debian.tar.xz 7a0938d235be49838952f30a096df2da2152898f 11706 gatk-fermilite_1.2.1+dfsg-1_amd64.buildinfo f9756d6383b7d9f87133858cd66785faa2aa71cc 11996 libgatk-fermilite-java_1.2.1+dfsg-1_all.deb 818c65da9d893440238f262180c72f5b6536e80d 12876 libgatk-fermilite-jni-dbgsym_1.2.1+dfsg-1_amd64.deb 5b8d95b80b66587e4bddec99336b15fbeef4e825 4704 libgatk-fermilite-jni_1.2.1+dfsg-1_amd64.deb Checksums-Sha256: 65442ef1a9755ee84ba435871825fd832cb6a2c4ef854c83bbeacf84d2dc37fa 2209 gatk-fermilite_1.2.1+dfsg-1.dsc c451f5e2a09a0472ec44d6707974086e6bbf8e5c02f35b619d2fc7bf5a503ab2 12080 gatk-fermilite_1.2.1+dfsg.orig.tar.xz b419e1f12fae3086c3a511a2c2e186f1d99bba6c73352f13fc07929575b77541 7432 gatk-fermilite_1.2.1+dfsg-1.debian.tar.xz 7691cc4947e6165870d0261ce3b066d1a6703094418b10ff2a0fbb58ce842d79 11706 gatk-fermilite_1.2.1+dfsg-1_amd64.buildinfo cd3555283cefdea1dd6806800aaf848da9e1d02a97ad0444a2e4f76a3b019775 11996 libgatk-fermilite-java_1.2.1+dfsg-1_all.deb 6fa9e5b0e926f232d55967d94086f3cabfeb9e1d7ac8f2a5597caaa12f94d43e 12876 libgatk-fermilite-jni-dbgsym_1.2.1+dfsg-1_amd64.deb 0acbe4cbdecd6d075db26d6d325f09d1ff1b2fa54969bb2c9ffe801546644dbd 4704 libgatk-fermilite-jni_1.2.1+dfsg-1_amd64.deb Files: 9f3c6936c9c3269b2bd8c25b03faf405 2209 java optional gatk-fermilite_1.2.1+dfsg-1.dsc ccac31ec944a7bb326f0dcbd5e667cf7 12080 java optional gatk-fermilite_1.2.1+dfsg.orig.tar.xz aa9ad090abfc68501acdc2f1efb341ed 7432 java optional gatk-fermilite_1.2.1+dfsg-1.debian.tar.xz
Processed: retitle 1008304 to ITP: libhttp-nio-java -- http/s file system provider for Java NIO.2
Processing commands for cont...@bugs.debian.org: > retitle 1008304 ITP: libhttp-nio-java -- http/s file system provider for Java > NIO.2 Bug #1008304 [wnpp] ITP: http-nio -- http/s file system provider for Java NIO.2 Changed Bug title to 'ITP: libhttp-nio-java -- http/s file system provider for Java NIO.2' from 'ITP: http-nio -- http/s file system provider for Java NIO.2'. > thanks Stopping processing here. Please contact me if you need assistance. -- 1008304: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1008304 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#1006834: marked as done (ITP: aeonbits-owner -- API to handle application configuration through Java properties file)
Your message dated Sat, 12 Mar 2022 10:00:09 + with message-id and subject line Bug#1006834: fixed in aeonbits-owner 1.0.12+ds-1 has caused the Debian Bug report #1006834, regarding ITP: aeonbits-owner -- API to handle application configuration through Java properties 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 ow...@bugs.debian.org immediately.) -- 1006834: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1006834 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: aeonbits-owner Version : 1.0.12 Upstream Author : Luigi R. Viggiano * URL : http://owner.aeonbits.org/ * License : BSD-3-clause Programming Lang: Java Description : API to handle application configuration through Java properties file OWNER was written because the code dealing with the configuration is frequently repetitive, redundant, it’s made of static classes, singletons, long list of methods just doing conversion from a string property to a named method returning a Java primitive or a basic Java object. OWNER solves the problem providing an interface object that - is easy to mock, easy to pass to other objects (via dependency injection); - declaratively maps the configuration without any redundancy; - can easily expand the loading logic in order to have multiple configuration files, multiple level of overriding (global configuration, user-level, defaults, etc); - doesn’t need to have an actual properties file backing the configuration, if one uses @DefaultValue. - provides a lot of features, like hot reloading, variables expansion, etc; - leaves one free to do everything one is already doing with java.util.Properties; - does support a super powerful type conversion, which includes arrays, collections, many standard Java objects, and even the possibility to plug one's own conversion logic. The package is needed as a dependency of gatk, which is a packaging target of Debian-med team. It will be maintained in this team. --- End Message --- --- Begin Message --- Source: aeonbits-owner Source-Version: 1.0.12+ds-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of aeonbits-owner, 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 1006...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated aeonbits-owner 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: SHA512 Format: 1.8 Date: Wed, 09 Mar 2022 10:23:03 +0100 Source: aeonbits-owner Binary: libaeonbits-owner-java Architecture: source all Version: 1.0.12+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libaeonbits-owner-java - API to handle application configuration through Java properties f Closes: 1006834 Changes: aeonbits-owner (1.0.12+ds-1) unstable; urgency=medium . * Initial release (Closes: #1006834) Checksums-Sha1: 7f4a5207040cddabb525b3c4b5bb7164a488008e 2298 aeonbits-owner_1.0.12+ds-1.dsc 50b38d3df3e42d86451a51a057d6ddb69bfd31d9 231268 aeonbits-owner_1.0.12+ds.orig.tar.xz 3acd4fca0e0663ebe1f4ed24b5643f051325a6ca 4556 aeonbits-owner_1.0.12+ds-1.debian.tar.xz 49b178556ccb66047f55cb18165742c8809b158e 14155 aeonbits-owner_1.0.12+ds-1_amd64.buildinfo 40fbc7d7a6fa7c27120f4057cbfa9024c98e5700 92724 libaeonbits-owner-java_1.0.12+ds-1_all.deb Checksums-Sha256: 284b268259a05549940f11b927d3b55684fe38967854ca461f5fb5c75b770728 2298 aeonbits-owner_1.0.12+ds-1.dsc 71326527ba9ee2b6a897833d0ffecc7d58743c07c703cee4fb3940a42718ddf6 231268 aeonbits-owner_1.0.12+ds.orig.tar.xz b8720202b5f4869bc61d47d683b169701195f118062a9c94a73cce62ecaf5f43 4556 aeonbits-owner_1.0.12+ds-1.debian.tar.xz 0b0b572efb02cf102a80321bf64d47a6d9277f95eebb332ae49af4abfbedf648 14155 aeonbits-owner_1.0.12+ds-1_amd64.buildinfo 7268766c5b196c21fd4536bbf988ccbab0250ba763a1858be1d86a159a43c3f9 92724 libaeonbits-owner-java_1.0.12+ds-1_all.deb Files: 5eb2c1ca60711146a63329d9cfec89fc 2298 java optional aeonbits
Bug#1006501: marked as done (ITP: snpsift -- tool to annotate and manipulate genome variants)
Your message dated Sun, 27 Feb 2022 11:00:16 + with message-id and subject line Bug#1006501: fixed in snpsift 5.1+dfsg2-1 has caused the Debian Bug report #1006501, regarding ITP: snpsift -- tool to annotate and manipulate genome variants 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.) -- 1006501: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1006501 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: snpsift Version : 5.1 Upstream Author : Pablo Cingolani * URL : https://pcingola.github.io/SnpEff/ss_introduction/ * License : Expat Programming Lang: Java Description : tool to annotate and manipulate genome variants SnpSift is a toolbox that allows one to filter and manipulate annotated files. Once the genomic variants have been annotated, one needs to filter them out in order to find the "interesting / relevant variants". Given the large data files, this is not a trivial task (e.g. one cannot load all the variants into XLS spreadsheet). SnpSift helps to perform this VCF file manipulation and filtering required at this stage in data processing pipelines. The package will be team-maintained by Debian-med team. --- End Message --- --- Begin Message --- Source: snpsift Source-Version: 5.1+dfsg2-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of snpsift, 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 1006...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated snpsift 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: SHA512 Format: 1.8 Date: Sat, 26 Feb 2022 21:33:39 +0100 Source: snpsift Binary: libsnpsift-java libsnpsift-java-doc snpsift Architecture: source all Version: 5.1+dfsg2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libsnpsift-java - tool to annotate and manipulate genome variants - lib libsnpsift-java-doc - Documentation for SnpSift snpsift- tool to annotate and manipulate genome variants - tool Closes: 1006501 Changes: snpsift (5.1+dfsg2-1) unstable; urgency=medium . * Initial release (Closes: #1006501) Checksums-Sha1: 1d51079d4ca8fcc0f63a6ab5ea01dc29de14f37d 2422 snpsift_5.1+dfsg2-1.dsc b7a653e15f66d63b5c6db8d42554367364aaca68 6454944 snpsift_5.1+dfsg2.orig.tar.xz df21a3d41224e9ca2acd71b17feca4d8fa890ae4 7024 snpsift_5.1+dfsg2-1.debian.tar.xz 02f573cadb2682f2497c458b706d470ea7612449 410856 libsnpsift-java-doc_5.1+dfsg2-1_all.deb 86789026966c4bf3a190d908c191c34206c34821 307756 libsnpsift-java_5.1+dfsg2-1_all.deb 62003c87e78d6a9164dafb2c33cd263a0c94eef5 4360 snpsift_5.1+dfsg2-1_all.deb b2cab72781a8dfdf8ded239b6377e681040ced5f 16863 snpsift_5.1+dfsg2-1_amd64.buildinfo Checksums-Sha256: 2e180e8ca6f106861ff7676b6ce363316f262448377937b58c7c1718ef5aa5ae 2422 snpsift_5.1+dfsg2-1.dsc ac6d61b9e4656d3f2134ffdd08f497741622d14aa41767c117cf1d6d60b01556 6454944 snpsift_5.1+dfsg2.orig.tar.xz df6d8650f816304b7b1d57e07089cc5f3c838d590ee77d4ab3bad5312f39d8b2 7024 snpsift_5.1+dfsg2-1.debian.tar.xz 2bfc51e42414b84bbfa386c0714bcc5a577f8805a11fc7d308280d076560cc74 410856 libsnpsift-java-doc_5.1+dfsg2-1_all.deb afe564e7423e785786d62da433f45944ce776122f4d71a9c14351e1f28d64910 307756 libsnpsift-java_5.1+dfsg2-1_all.deb 4982039889db3a0dbb0e3cc39b74f0d556a5f8230876a1ee78b5c04f170429d6 4360 snpsift_5.1+dfsg2-1_all.deb c0ac50ea8d6bace347bf0276186a3aac8f1aa5328085ab122f81cfbcf9c3dd76 16863 snpsift_5.1+dfsg2-1_amd64.buildinfo Files: 3d1e8a23ab52a4501841b21c43b2f49e 2422 java optional snpsift_5.1+dfsg2-1.dsc 68f4fc412cb0c3e8f6209c7b9af7f0e4 6454944 java optional snpsift_5.1+dfsg2.orig.tar.xz e8fbb5927d237fb83811c46329fe01a7 7024 java optional snpsift_5.1+dfsg2-1.debian.tar.xz 199c75fabddc2efee369e848d66d16e4 410856 doc optional libsnpsift-java-doc_5.1+dfsg2-1_all.deb 6f43681b523f7cac48989665b76866f8 307756 java optional libsnpsift-java_5.1+dfsg2
Bug#1004152: marked as done (ITP: malt -- sequence alignment and analysis tool to process sequencing data)
Your message dated Sat, 19 Feb 2022 11:00:10 + with message-id and subject line Bug#1004152: fixed in malt 0.5.2-1 has caused the Debian Bug report #1004152, regarding ITP: malt -- sequence alignment and analysis tool to process sequencing data 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.) -- 1004152: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1004152 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: malt Version : 0.5.2 Upstream Author : Daniel Huson * URL : https://github.com/danielhuson/malt * License : GPL-3+ Programming Lang: Java Description : sequence alignment and analysis tool to process sequencing data MALT, an acronym for MEGAN alignment tool, is a sequence alignment and analysis tool designed for processing high-throughput sequencing data, especially in the context of metagenomics. It is an extension of MEGAN6, the MEGenome Analyzer and is designed to provide the input for MEGAN6, but can also be used independently of MEGAN6. The core of the program is a sequence alignment engine that aligns DNA or protein sequences to a DNA or protein reference database in either BLASTN (DNA queries and DNA references), BLASTX (DNA queries and protein references) or BLASTP (protein queries and protein references) mode. The engine uses a banded-alignment algorithm with ane gap scores and BLOSUM substitution matrices (in the case of protein alignments). The program can compute both local alignments (Smith-Waterman) or semi-global alignments (in which reads are aligned end-to-end into reference sequences), the latter being more appropriate for aligning metagenomic reads to references. The package will be team-maintained in Debian-med team. --- End Message --- --- Begin Message --- Source: malt Source-Version: 0.5.2-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of malt, 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 1004...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated malt 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: SHA512 Format: 1.8 Date: Fri, 18 Feb 2022 14:29:48 +0100 Source: malt Binary: malt Architecture: source all Version: 0.5.2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: malt - sequence alignment and analysis tool to process sequencing data Closes: 1004152 Changes: malt (0.5.2-1) unstable; urgency=medium . * Initial release (Closes: #1004152) Checksums-Sha1: bcc7f0a89aa22f50f2fcf13e0085fa62f444e5ef 1975 malt_0.5.2-1.dsc 97f954c9dd87bdd8f1cfe04c75a79a7f175892ec 437746 malt_0.5.2.orig.tar.gz 3207a6ddc0ab6c769100c43e8090b137cba34f9f 6404 malt_0.5.2-1.debian.tar.xz c5d952f6d1131cfa37b02dd7b978d2f0d50088ff 416000 malt_0.5.2-1_all.deb 1a5cdd3f118c3ce2221828dd9219bf3812760ff0 15237 malt_0.5.2-1_amd64.buildinfo Checksums-Sha256: 41d760b2ab7824dbeb528e3b2690c6bf41abf61c4791d14c188f34b62bfee20c 1975 malt_0.5.2-1.dsc 904eb781aa0c7369bd7bccb88a3e8696fa83513e073988f0d76f09faea2dc1a1 437746 malt_0.5.2.orig.tar.gz 558b8949f84600d3df011d351c2bbc6fce1ae8feadbda2dd06b05b1b734879b8 6404 malt_0.5.2-1.debian.tar.xz c019ccff247efb961218f562e5a979247f68d2ef161bd830c52f03f0a4045a6f 416000 malt_0.5.2-1_all.deb a988e17536754cae269c1dfd14cd3a287fcd3f39ac816d8a11c3c42eda327066 15237 malt_0.5.2-1_amd64.buildinfo Files: f2876c2c18f5e80a485c111f7151c1d7 1975 science optional malt_0.5.2-1.dsc 1a9cc3c4cd75b2f13ea2bb5a76b5da57 437746 science optional malt_0.5.2.orig.tar.gz d6845786637e4eda46bb0030dc00db4d 6404 science optional malt_0.5.2-1.debian.tar.xz 4718b3f1390612628def9126eab478f7 416000 science optional malt_0.5.2-1_all.deb c4325ff56180d98e0f125f269e89701c 15237 science optional malt_0.5.2-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmIPvSAACgkQYAMWptwn dHbIqQ//cMMBra+9rLCl22ZIBb7OllugBa5
Bug#996993: marked as done (ITP: biojava5-live -- Java API to biological data and applications (version 5))
Your message dated Sat, 19 Feb 2022 10:00:09 + with message-id and subject line Bug#996993: fixed in biojava5-live 5.4.0+dfsg-1 has caused the Debian Bug report #996993, regarding ITP: biojava5-live -- Java API to biological data and applications (version 5) 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.) -- 996993: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=996993 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: biojava5-live Version : 5.4.0 Upstream Author : BioJava Developers * URL : https://www.biojava.org/ * License : LGPL-2.1 Programming Lang: Java Description : Java API to biological data and applications (version 5) This package presents the Open Source Java API to biological databases and a series of mostly sequence-based algorithms. BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It includes objects for manipulating sequences, file parsers, server support, access to BioSQL and Ensembl databases, and powerful analysis and statistical routines including a dynamic programming toolkit. This is the version 5 of biojava, which brings several changes compared to version 4, packaged in biojava4-live. It will be maintained by the Debian-med team. --- End Message --- --- Begin Message --- Source: biojava5-live Source-Version: 5.4.0+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of biojava5-live, 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 996...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated biojava5-live 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: SHA512 Format: 1.8 Date: Wed, 27 Oct 2021 09:53:27 +0200 Source: biojava5-live Binary: libbiojava5-java libbiojava5-java-doc Architecture: source all Version: 5.4.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libbiojava5-java - Java API to biological data and applications (version 5) libbiojava5-java-doc - [Biology] Documentation for BioJava 5 Closes: 996993 Changes: biojava5-live (5.4.0+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #996993) Checksums-Sha1: 45f265fd1a9ac06b1c9cfab33cccacf89c9e943b 3311 biojava5-live_5.4.0+dfsg-1.dsc d195c3376714253129449642cdd69faa1e4ae5f0 689571 biojava5-live_5.4.0+dfsg.orig-forester.tar.gz 4427e5c181727f232d704b3fb431a5031b86707f 11524 biojava5-live_5.4.0+dfsg.orig-jcolorbrewer.tar.gz 2974d2511c56be2ba09e4a845f86a2837cde11a8 18607769 biojava5-live_5.4.0+dfsg.orig.tar.gz 333bbc44a70b5fd3534eec056f0566b0d0ad7692 27004 biojava5-live_5.4.0+dfsg-1.debian.tar.xz b3a9f193699695df33c6011b23dd234ba2e8113c 17239 biojava5-live_5.4.0+dfsg-1_amd64.buildinfo 0c6f48638d4a2dfc5d83288216b9db1a35d3f744 2744372 libbiojava5-java-doc_5.4.0+dfsg-1_all.deb b1229bf3c7682a14cb0d83fc2f0f1d14a44f4d11 5510576 libbiojava5-java_5.4.0+dfsg-1_all.deb Checksums-Sha256: 1664374a62107135d68bd497092a744290e565a7ba05a39442e1779f3417ddd5 3311 biojava5-live_5.4.0+dfsg-1.dsc 0df0a935a1aac7cd8c404e81ff51794a2f63f6f8479a7ff91bf898610aeb13a3 689571 biojava5-live_5.4.0+dfsg.orig-forester.tar.gz 0d6c5b0e955e5f785bc5ee96fa682158e4692cb776dd1f342fdc8de97e211fdb 11524 biojava5-live_5.4.0+dfsg.orig-jcolorbrewer.tar.gz 6c6c6d12a0abe2d0087e923cea09a8746d02b594a43005a04dbfb5fc6c84060c 18607769 biojava5-live_5.4.0+dfsg.orig.tar.gz 47da24f69f1ca73581e9764054b90d2aab1f00a9f7397f396071f9e36acbf351 27004 biojava5-live_5.4.0+dfsg-1.debian.tar.xz 0e9d7490e51f5f649d02999b1cdaa72d9174f7b9750211e94c3b0e4803147286 17239 biojava5-live_5.4.0+dfsg-1_amd64.buildinfo cd7853badda5af6b72432e93a1acdf0b56ea0ad9ec382ace4677e68d960e2174 2744372 libbiojava5-java-doc_5.4.0+dfsg-1_all.deb 2c0f085aa30a672cdbbc444ca2c30d02be4d5b0e70a01afa4a55ce6e30abb028 5510576 libbiojava5-java_5.4.0+dfsg-1_all.deb Files
Bug#1003782: marked as done (ITP: megan-ce -- interactive tool to explore and analyse microbiome sequencing data)
Your message dated Fri, 18 Feb 2022 11:00:13 + with message-id and subject line Bug#1003782: fixed in megan-ce 6.21.1+dfsg-1 has caused the Debian Bug report #1003782, regarding ITP: megan-ce -- interactive tool to explore and analyse microbiome sequencing data 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.) -- 1003782: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1003782 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: megan-ce Version : 6.21.1 Upstream Author : Daniel Huson * URL : https://github.com/danielhuson/megan-ce * License : GPL-3+ Programming Lang: Java Description : interactive tool to explore and analyse microbiome sequencing data MEGAN Community Edition is a shotgun sequencer to analyze microbiome samples. It is a rewrite and extension of the widely-used microbiome analysis tool MEGAN so as to facilitate the interactive analysis of the taxonomic and functional content of very large microbiome datasets. Other new features include a functional classifier called InterPro2GO, gene-centric read assembly, principal coordinate analysis of taxonomy and function, and support for metadata. By integrating MEGAN CE with the high-throughput DNA-to-protein alignment tool DIAMOND a powerful and complete pipeline for the analysis of metagenome shotgun sequences can be provided. megan-ce will be team-maintained by Debian-med team. --- End Message --- --- Begin Message --- Source: megan-ce Source-Version: 6.21.1+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of megan-ce, 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 1003...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated megan-ce 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: SHA512 Format: 1.8 Date: Mon, 14 Feb 2022 09:50:04 +0100 Source: megan-ce Binary: megan-ce Architecture: source all Version: 6.21.1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: megan-ce - interactive tool to explore and analyse microbiome sequencing dat Closes: 1003782 Changes: megan-ce (6.21.1+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #1003782) Checksums-Sha1: f44ad8c45819811aae7c243f5ac96ece656eb847 2214 megan-ce_6.21.1+dfsg-1.dsc 35e0431cbe37dc943131863015c689711caf45ea 22743636 megan-ce_6.21.1+dfsg.orig.tar.xz f2e85c8751d98865e7dca2df98f287956a97927b 14184 megan-ce_6.21.1+dfsg-1.debian.tar.xz 601f4830051b9de93ba676ffa710329b1dc6622a 37056688 megan-ce_6.21.1+dfsg-1_all.deb 7057d2fd248ff3303a0b8a481bab6cd21d3f051d 15693 megan-ce_6.21.1+dfsg-1_amd64.buildinfo Checksums-Sha256: 830318c46acf7c8268c0f58f6a69fd8715511a560c30372ac8ed642927807ed1 2214 megan-ce_6.21.1+dfsg-1.dsc aa28f861273692b14db9ae8f30c2245cd433e1a11cb9de999ba459adb3ee6a21 22743636 megan-ce_6.21.1+dfsg.orig.tar.xz c4acba5004ebb35ae7f8aa884a4c971da1bf31d5c46c136e3161798f1084d75f 14184 megan-ce_6.21.1+dfsg-1.debian.tar.xz 649da9850a8d26368bc92fea77dd11957544a538dacbcc125943f101f4c7b50e 37056688 megan-ce_6.21.1+dfsg-1_all.deb 177d0e7a17ede7fb4fb7b51b85e7b8a50f5ee4d937bda0cd026284c21ba994db 15693 megan-ce_6.21.1+dfsg-1_amd64.buildinfo Files: e2a8a04dfd532e951b0fe3097732001c 2214 science optional megan-ce_6.21.1+dfsg-1.dsc 8742f9f3812b129a9e0b531991619ff1 22743636 science optional megan-ce_6.21.1+dfsg.orig.tar.xz a2b12f5a2971b42720195aab4ca2232f 14184 science optional megan-ce_6.21.1+dfsg-1.debian.tar.xz f8a28925e9350da7aa443d74a94582f8 37056688 science optional megan-ce_6.21.1+dfsg-1_all.deb 3acf4787a2b5478fe11fa8eda94f5347 15693 science optional megan-ce_6.21.1+dfsg-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmIKHM4ACgkQYAMWptwn dHbGOA/7BJnLZf90Q8JrK6gbTvXubHdu/xXwgLSL0V2+rKXO9mFwCADrrDsqclqE R/s50oXtZHcuiFLZPhUOVxZOcDrCpwidQyERi2KiNE7qD8e3IWS/uTVodg5DxNxe R+dIPpqW3ct0
Bug#1005356: marked as done (ITP: rockhopper -- system for analyzing bacterial RNA-seq data)
Your message dated Wed, 16 Feb 2022 11:00:11 + with message-id and subject line Bug#1005356: fixed in rockhopper 2.0.3+dfsg2-1 has caused the Debian Bug report #1005356, regarding ITP: rockhopper -- system for analyzing bacterial RNA-seq data 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.) -- 1005356: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1005356 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: rockhopper Version : 2.0.3 Upstream Author : Brian Tjaden * URL : https://cs.wellesley.edu/~btjaden/Rockhopper * License : GPL-3+ Programming Lang: Java Description : system for analyzing bacterial RNA-seq data Rockhopper is a comprehensive and user-friendly system for computational analysis of bacterial RNA-seq data. As input, Rockhopper takes RNA sequencing reads output by high-throughput sequencing technology (FASTQ, QSEQ, FASTA, SAM, or BAM files). Rockhopper supports the following tasks: * Reference based transcript assembly (when one or more reference genomes are available) - Aligning reads to genomes - Assembling transcripts - Identifying transcript boundaries and novel transcripts such as small RNAs * De novo transcript assembly (when reference genomes are unavailable) * Normalizing data from different experiments * Quantifying transcript abundance * Testing for differential gene expression * Characterizing operon structures * Visualizing results in a genome browser The package will be team-maintained by Debian-med team. --- End Message --- --- Begin Message --- Source: rockhopper Source-Version: 2.0.3+dfsg2-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of rockhopper, 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 1005...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated rockhopper 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: SHA512 Format: 1.8 Date: Sat, 12 Feb 2022 13:58:59 +0100 Source: rockhopper Binary: rockhopper Architecture: source all Version: 2.0.3+dfsg2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: rockhopper - system for analyzing bacterial RNA-seq data Closes: 1005356 Changes: rockhopper (2.0.3+dfsg2-1) unstable; urgency=medium . * Initial release (Closes: #1005356) Checksums-Sha1: d14b3b4b192f6c6f547f3a28bd44e0645af4cbea 2060 rockhopper_2.0.3+dfsg2-1.dsc e2905be3209bb63d6f8ed4bb4c338594a2094659 449788 rockhopper_2.0.3+dfsg2.orig.tar.xz 291f2855aa59d54853ef11bd13754575fcbe0c33 9700 rockhopper_2.0.3+dfsg2-1.debian.tar.xz 7a86f07803e7923626f6d8f7f6e258eb813f2c97 596380 rockhopper_2.0.3+dfsg2-1_all.deb 3421deed46c70545ce939a1bd030228a1026949d 13709 rockhopper_2.0.3+dfsg2-1_amd64.buildinfo Checksums-Sha256: a1a892ab904a72a2e9d1c8a5f38eb29669594d2ac1c563c6408252487ddc6eb1 2060 rockhopper_2.0.3+dfsg2-1.dsc 6fd62d6c7ef7b1455a05093bf9701b2e4510e3ca4f986b2265834f29ea49fe3e 449788 rockhopper_2.0.3+dfsg2.orig.tar.xz 8fec8af6123c41a62f69d4c220197e86ef361685192e0bd44476b609b4ee11a0 9700 rockhopper_2.0.3+dfsg2-1.debian.tar.xz 9b45e184a419c178fad68bc6c429e8f83b8890fd098d47d2532ac14be3b8dac9 596380 rockhopper_2.0.3+dfsg2-1_all.deb bcbf1607313f413289a07f15ec60d1cf7ff741f8dc38c0773060f3c27c211693 13709 rockhopper_2.0.3+dfsg2-1_amd64.buildinfo Files: 2eb4f50b3dbac85d881f8f99dd00028d 2060 science optional rockhopper_2.0.3+dfsg2-1.dsc 7a39db4e01a83b5caaacc4f984770f77 449788 science optional rockhopper_2.0.3+dfsg2.orig.tar.xz 519b0abd918c65cbec468c2bb80f2ed0 9700 science optional rockhopper_2.0.3+dfsg2-1.debian.tar.xz e7e1edb43098c3cdd1fb2bcc57b95c83 596380 science optional rockhopper_2.0.3+dfsg2-1_all.deb b26d02bfe7eae1cc94de8ea1f1eb1e67 13709 science optional rockhopper_2.0.3+dfsg2-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmIHskEACgkQYAMWptwn
Bug#986141: marked as done (ITP: snpeff -- genetic variant annotation and effect prediction toolbox)
Your message dated Sat, 22 Jan 2022 17:00:10 + with message-id and subject line Bug#986141: fixed in snpeff 4.3t+dfsg1-1 has caused the Debian Bug report #986141, regarding ITP: snpeff -- genetic variant annotation and effect prediction toolbox 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.) -- 986141: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=986141 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: snpeff Version : 4.3t Upstream Author : Pablo Cingolani * URL : https://pcingola.github.io/SnpEff/ * License : LGPL-3 Programming Lang: Java Description : genetic variant annotation and effect prediction toolbox SnpEff is a variant annotation and effect prediction tool. It annotates and predicts the effects of variants on genes (such as amino acid changes). The inputs are predicted variants (SNPs, insertions, deletions and MNPs). The input file is usually obtained as a result of a sequencing experiment, and it is usually in variant call format (VCF). SnpEff analyzes the input variants. It annotates the variants and calculates the effects they produce on known genes (e.g. amino acid changes). This software is needed in many workflows in the Debian-med team. It will be maintained inside the team. --- End Message --- --- Begin Message --- Source: snpeff Source-Version: 4.3t+dfsg1-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of snpeff, 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 986...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated snpeff 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: SHA512 Format: 1.8 Date: Sat, 22 Jan 2022 14:41:57 +0100 Source: snpeff Binary: libsnpeff-java libsnpeff-java-doc snpeff Architecture: source all Version: 4.3t+dfsg1-1 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libsnpeff-java - genetic variant annotation and effect prediction toolbox - lib libsnpeff-java-doc - Documentation for Snp Effect snpeff - genetic variant annotation and effect prediction toolbox - tool Closes: 986141 Changes: snpeff (4.3t+dfsg1-1) experimental; urgency=medium . * Initial release (Closes: #986141) Checksums-Sha1: 1791e8c84485bbeecfd7ee43efbaed5a29521365 2661 snpeff_4.3t+dfsg1-1.dsc 75792dd24f514455e2397bf41d08e1d589179f71 101389664 snpeff_4.3t+dfsg1.orig.tar.xz a9865154eac56c50f31044dd032ad7d0bb58c24e 16296 snpeff_4.3t+dfsg1-1.debian.tar.xz 6ad446dfa4dde4f238907635c9aef3e894851954 1046636 libsnpeff-java-doc_4.3t+dfsg1-1_all.deb 2454dfb653076d84a5bbc275fd31c4b6a79151e8 1524464 libsnpeff-java_4.3t+dfsg1-1_all.deb 525e7960ab3c566456bfba5c0586e597abd37888 403920 snpeff_4.3t+dfsg1-1_all.deb 69930b763d10a307d3defe25677494926ee42e2f 18041 snpeff_4.3t+dfsg1-1_amd64.buildinfo Checksums-Sha256: 6607a9aa4cd586f6e817515ea4271487e89013c1c23b5981ccdc0c156e824edf 2661 snpeff_4.3t+dfsg1-1.dsc 5be7ffd6b6a85d5e67c84c1bcdd5b138f8a65184c29c1c1b013094941e84a2cb 101389664 snpeff_4.3t+dfsg1.orig.tar.xz f1b5d99182ef0f479a7d1536e388d5c87c37870ed9b871cf2a4f5f7c7921323d 16296 snpeff_4.3t+dfsg1-1.debian.tar.xz 6373ddff543d0a53e3e57d173b0ffac23708de4ec371a66e1e471fdcf4c3785b 1046636 libsnpeff-java-doc_4.3t+dfsg1-1_all.deb c2b74c80552d30b6980e01976aa58b25bc9b65206a8c8ab86a5e65e19edfb6f6 1524464 libsnpeff-java_4.3t+dfsg1-1_all.deb d5720a194eb3ab2ce705f0b604d5829a33afe3b3f79c827cca8804545c1b8182 403920 snpeff_4.3t+dfsg1-1_all.deb 95452a14a979c1785c14f1cff54850b0d678519ed88a6065d007faf4f758060b 18041 snpeff_4.3t+dfsg1-1_amd64.buildinfo Files: ee5958944cf8b26c1f7a618c523a8ea7 2661 java optional snpeff_4.3t+dfsg1-1.dsc b836426733b3b4d1504199d82f10b3c7 101389664 java optional snpeff_4.3t+dfsg1.orig.tar.xz 374e561a85549ba33379fe0608efc566 16296 java optional snpeff_4.3t+dfsg1-1.debian.tar.xz 11f7106f487ddcf8896292c8a4d8ac0a 1046636 doc optional
Bug#995294: marked as done (ITP: tipp -- taxonomic identification and abundance profiling tool)
Your message dated Tue, 16 Nov 2021 18:00:16 + with message-id and subject line Bug#995294: fixed in tipp 1.0+dfsg-1 has caused the Debian Bug report #995294, regarding ITP: tipp -- taxonomic identification and abundance profiling tool 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.) -- 995294: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=995294 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: tipp Version : 1.0 Upstream Author : Siavash Mirarab * URL : https://github.com/TeraTrees/TIPP * License : GPL-3 Programming Lang: Python, Java Description : taxonomic identification and abundance profiling tool TIPP is a modification of SEPP for classifying query sequences (i.e. reads) using phylogenetic placement. TIPP inserts each read into a taxonomic tree and uses the insertion location to identify the taxonomic lineage of the read. The novel idea behind TIPP is that rather than using the single best alignment and placement for taxonomic identification, it uses a collection of alignments and placements and considers statistical support for each alignment and placement. TIPP can also be used for abundance estimation by computing an abundance profile on the reads binned to marker genes in a reference dataset. sepp is already packaged in Debian, and up to now, the binaries of tipp were provided by sepp. Now the sources of sepp and tipp have been separated, which is the reason for making this package. tipp will be team-maintained by Debian-med team. --- End Message --- --- Begin Message --- Source: tipp Source-Version: 1.0+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of tipp, 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 995...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated tipp 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: SHA512 Format: 1.8 Date: Thu, 30 Sep 2021 14:45:31 +0200 Source: tipp Binary: tipp Architecture: source amd64 Version: 1.0+dfsg-1 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: tipp - tool for Taxonomic Identification and Phylogenetic Profiling Closes: 995294 Changes: tipp (1.0+dfsg-1) experimental; urgency=medium . * Initial release (Closes: #995294) Checksums-Sha1: 1322c0a84f27fbf8abac1e22bcd8d049eb8a3af0 2040 tipp_1.0+dfsg-1.dsc 5383eb4919928d50ff9c5f92279b427565c8a854 67084 tipp_1.0+dfsg.orig.tar.xz cde95f13dafabcecf9ab1b980a63712da6b5b068 10056 tipp_1.0+dfsg-1.debian.tar.xz 11ea79152b2608be3ad9746c839de796ac7671ab 10067 tipp_1.0+dfsg-1_amd64.buildinfo 230266cc0a1199010c098d432b89a651f16e257d 129236 tipp_1.0+dfsg-1_amd64.deb Checksums-Sha256: e2f0c1bbcff6b524835ad51ec57179107432ff869ed1608561e5598610b56383 2040 tipp_1.0+dfsg-1.dsc 48bbabdc3b6267ad250dd60664dc2f76f0da924676a83aa4490e23219144a9eb 67084 tipp_1.0+dfsg.orig.tar.xz 1daa37f342c0ef7ebe26c47032d2a1db7bb3eff49dbad04e8f9b2dfd4e95b71e 10056 tipp_1.0+dfsg-1.debian.tar.xz 864ae1d65cb798e52465b7970d2061a7f0fcc8caaedebdb8cc9dc7680a38a771 10067 tipp_1.0+dfsg-1_amd64.buildinfo bd229d0a1d8280b364cb4ee625a6bf8ba7d560f87fd5724fc7c3a40c8fa1dacf 129236 tipp_1.0+dfsg-1_amd64.deb Files: 9091e0d6e0fd78a6e00d8c8072b8c2c7 2040 science optional tipp_1.0+dfsg-1.dsc 71211248cd41a5e336e9aa6dcb1e1beb 67084 science optional tipp_1.0+dfsg.orig.tar.xz 90a2901219686517ef774ffb3b44b36a 10056 science optional tipp_1.0+dfsg-1.debian.tar.xz 33ff706e5dd1521711b61a7aaa87337f 10067 science optional tipp_1.0+dfsg-1_amd64.buildinfo d06ff8466b40d160a3eb2d05522dfb72 129236 science optional tipp_1.0+dfsg-1_amd64.deb -BEGIN PGP SIGNATURE- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmFVtD0ACgkQYAMWptwn dHYTKBAAlFMl7P3eyWo9POiTYAhtyxgxfN/gKOHnHLuHIDRgjld0xf+VAaW0x099 pD/FHWHm1eEgMzhNkaHf0pQAK+Pp4H9uAJ+B7WyHS5eiyEkLvlcSBdlbtlk+PVQO pYEf
Bug#992044: marked as done (ITP: libgoby-java -- next-generation sequencing data and results analysis tool)
Your message dated Sat, 06 Nov 2021 13:00:14 + with message-id and subject line Bug#992044: fixed in libgoby-java 3.3.1+dfsg2-1 has caused the Debian Bug report #992044, regarding ITP: libgoby-java -- next-generation sequencing data and results analysis tool 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.) -- 992044: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=992044 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: libgoby-java Version : 3.3.1 Upstream Author : Institute for Computational Biomedicine * URL : https://github.com/CampagneLaboratory/goby3 * License : GPL-3 Programming Lang: Java Description : next-generation sequencing data and results analysis tool Goby is a next-gen data management framework designed to facilitate the implementation of efficient data analysis pipelines. Goby provides very efficient file formats to store next-generation sequencing data and intermediary analysis results. It also provides utilities that implement common next-gen data computations. These utilities are designed to be relatively easy to use, yet very efficient. One binary package will contain the Goby IO API, useful to read and write Goby file formats. The related source code is licensed under LGPL-3. The other binary package will contain the whole goby software, released under GPL-3. The package is long-needed by the Debian-med team as a dependency of igv, which is currently in non-free. It will be maintained inside the Debian-med team. --- End Message --- --- Begin Message --- Source: libgoby-java Source-Version: 3.3.1+dfsg2-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of libgoby-java, 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 992...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated libgoby-java 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: SHA512 Format: 1.8 Date: Wed, 18 Aug 2021 11:14:57 +0200 Source: libgoby-java Binary: goby-java libgoby-io-java Architecture: source all Version: 3.3.1+dfsg2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: goby-java - next-generation sequencing data and results analysis tool libgoby-io-java - IO API for goby Closes: 992044 Changes: libgoby-java (3.3.1+dfsg2-1) unstable; urgency=medium . * Initial release (Closes: #992044) Checksums-Sha1: 933573c546b55a4e701f6ea65a11e477c3b3263e 2950 libgoby-java_3.3.1+dfsg2-1.dsc f9f9b6c1f4e76c9c403e1a9881d2c81f4d371d1c 41577532 libgoby-java_3.3.1+dfsg2.orig.tar.xz ee56ce2417cd652421f22a50d4dafe7653c214b9 25044 libgoby-java_3.3.1+dfsg2-1.debian.tar.xz 169d58e25866aa883a1e57b3e46702eb45eec405 1558004 goby-java_3.3.1+dfsg2-1_all.deb 2e06629425f87576f31f12887907723095922b04 973812 libgoby-io-java_3.3.1+dfsg2-1_all.deb c30c0d8a64dd128dddf792446a8067d82e6c9a00 18863 libgoby-java_3.3.1+dfsg2-1_amd64.buildinfo Checksums-Sha256: 2b832e6c823c072328cd59bfee24e03de9f5b2ea66961447cc02ef25bf58f52f 2950 libgoby-java_3.3.1+dfsg2-1.dsc b76b19808f893790e238c91e65680441ff020794cc7708ad6695cf13f0767148 41577532 libgoby-java_3.3.1+dfsg2.orig.tar.xz 34350687e6713c1d6fef46dcc93055ab29c9651822a221f3e0e246660f177f0c 25044 libgoby-java_3.3.1+dfsg2-1.debian.tar.xz 22b4cb2b17472e7b0c175795a242b6e575e853763116b945ce9a912bc18471f5 1558004 goby-java_3.3.1+dfsg2-1_all.deb 855e2272b35b051bdf8f2c24e2e169e49a6a1f0337d0304e824b60d4091b6b48 973812 libgoby-io-java_3.3.1+dfsg2-1_all.deb be066955c3fbec939a268a49e7bed8dd9f21a3b5a88ddf411f2aecee06d4d1d2 18863 libgoby-java_3.3.1+dfsg2-1_amd64.buildinfo Files: 6f5adeaa61ffa8659cf1627a07220155 2950 science optional libgoby-java_3.3.1+dfsg2-1.dsc 3a8dbf45ef2c54ec3073240850acbc75 41577532 science optional libgoby-java_3.3.1+dfsg2.orig.tar.xz 05fd7b5c4ea72e681162593ebfa52448 25044 science optional libgoby-java_3.3.1+dfsg2-1.debian.tar.xz
Bug#987946: marked as done (ITP: capsule-maven-nextflow -- packaging tool for Java applications with Maven coordinates)
Your message dated Mon, 06 Sep 2021 10:00:08 + with message-id and subject line Bug#987946: fixed in capsule-maven-nextflow 1.0.3.1+dfsg-1 has caused the Debian Bug report #987946, regarding ITP: capsule-maven-nextflow -- packaging tool for Java applications with Maven coordinates 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.) -- 987946: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=987946 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: capsule-maven-nextflow Version : 1.0.3.1 Upstream Author : Paolo di Tommaso * URL : https://github.com/nextflow-io/capsule-maven * License : EPL-1.0 Programming Lang: Java Description : packaging tool for Java applications with Maven coordinates A capsule is a single executable JAR that contains everything an application needs to run either in the form of embedded files or as declarative metadata. Maven Capsule is a capsule that allows the creations of capsules that, instead of embedding their dependencies, download all or some of them from a Maven repository. The dependencies are downloaded, cached locally, and shared among other capsules that also depend on them. In addition, this capsule allows specifying capsule metadata in a POM file in addition to the manifest. A capsule with the Maven caplet that has all (or almost all) of its dependencies downloaded rather than embedded is known as a "thin" capsule (as opposed to a "fat" capsule, which embeds all of its dependencies). In fact, a capsule may not contain any of the application's classes/JARs at all. Instead, the capsule's manifest may contain these attributes alone (and no files in the capsule JAR besides the manifest). When the capsule is launched, the newest available version of the application will be downloaded, cached and launched. This package contains a fork of the original capsule-maven project. This fork is suited as a dependency of nextflow. --- End Message --- --- Begin Message --- Source: capsule-maven-nextflow Source-Version: 1.0.3.1+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of capsule-maven-nextflow, 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 987...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated capsule-maven-nextflow 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: SHA512 Format: 1.8 Date: Wed, 05 May 2021 10:52:04 +0200 Source: capsule-maven-nextflow Binary: libcapsule-maven-nextflow-java Architecture: source all Version: 1.0.3.1+dfsg-1 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libcapsule-maven-nextflow-java - packaging tool for Java applications with Maven coordinates Closes: 987946 Changes: capsule-maven-nextflow (1.0.3.1+dfsg-1) experimental; urgency=medium . * Initial release (Closes: #987946) Checksums-Sha1: bdf41eb3f6eec9f30a94875fa6007c3890fee4cf 2430 capsule-maven-nextflow_1.0.3.1+dfsg-1.dsc ccbebec77038873253299a28b00b00c06bc196f7 27424 capsule-maven-nextflow_1.0.3.1+dfsg.orig.tar.xz 0f4307ee43b95c558ba2655602413f217d33f082 8756 capsule-maven-nextflow_1.0.3.1+dfsg-1.debian.tar.xz e4484cede45e5fff0073407bd04764fc6c90799a 13626 capsule-maven-nextflow_1.0.3.1+dfsg-1_amd64.buildinfo 68cbd178d1ec81a0526ebaf764ee6caafd97c1aa 50676 libcapsule-maven-nextflow-java_1.0.3.1+dfsg-1_all.deb Checksums-Sha256: 8de68c76efc12eb16b1a925e6c78699860c797cf97f79b3398dc68ee5cac89fc 2430 capsule-maven-nextflow_1.0.3.1+dfsg-1.dsc ab8051d700053d7083aaf1a268653453b60d4200e422763176a74042ee3cad3c 27424 capsule-maven-nextflow_1.0.3.1+dfsg.orig.tar.xz 73aa4bfd25ed0df323f9b8242b911282cccb58b7d4945b62f48c387b0993c0a4 8756 capsule-maven-nextflow_1.0.3.1+dfsg-1.debian.tar.xz ec5c8d228abf4ae6c6d3c67305fe4760f83431d0964417c73265877f6d893c53 13626 capsule-maven-nextflow_1.0.3.1+df
Bug#987771: marked as done (ITP: capsule-nextflow -- packaging and deployment tool for Java applications)
Your message dated Tue, 17 Aug 2021 14:10:08 + with message-id and subject line Bug#987771: fixed in capsule-nextflow 1.1.0+dfsg-1 has caused the Debian Bug report #987771, regarding ITP: capsule-nextflow -- packaging and deployment tool for Java applications 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.) -- 987771: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=987771 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med team X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: capsule-nextflow Version : 1.1.0 Upstream Author : Paolo di Tommaso * URL : https://github.com/nextflow-io/capsule * License : EPL-1.0 Programming Lang: Java Description : packaging and deployment tool for Java applications A capsule is a single executable JAR that contains everything an application needs to run either in the form of embedded files or as declarative metadata. It can contain JAR artifacts, dependencies and resources, native libraries, the required Java Runtime Environment version, the Java Virtual Machine flags required to run the application well, Java or native agents and more. In short, a capsule is a self-contained JAR that knows everything there is to know about how to run the application the way it is meant to run. One way of thinking about a capsule is as a fat JAR on steroids (that also allows native libraries and never interferes with your dependencies) and a declarative startup script rolled into one; another, is to see it is as the deploy-time counterpart to your build tool. Just as a build tool manages your build, Capsule manages the launching of your application. This package contains a fork of the original capsule project. This fork is suited as a dependency of nextflow, which is a workflow engine needed in the Debian-med team. It will thus be maintained inside this team. --- End Message --- --- Begin Message --- Source: capsule-nextflow Source-Version: 1.1.0+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of capsule-nextflow, 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 987...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated capsule-nextflow 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: SHA512 Format: 1.8 Date: Fri, 30 Apr 2021 17:20:02 +0200 Source: capsule-nextflow Binary: capsule-nextflow Architecture: source all Version: 1.1.0+dfsg-1 Distribution: experimental Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: capsule-nextflow - packaging and deployment tool for Java applications Closes: 987771 Changes: capsule-nextflow (1.1.0+dfsg-1) experimental; urgency=medium . * Initial release (Closes: #987771) Checksums-Sha1: 14ef144c303339739f0b7d8be906a112d6069587 2262 capsule-nextflow_1.1.0+dfsg-1.dsc 65bf77db20f38982fa194faf67ce434350598ecc 75520 capsule-nextflow_1.1.0+dfsg.orig.tar.xz 24d61d0be792933c19964317788bdd487165087d 40968 capsule-nextflow_1.1.0+dfsg-1.debian.tar.xz 089d8247cb9ef59577ab91fd0ba4fbf1f9b39cfd 199636 capsule-nextflow_1.1.0+dfsg-1_all.deb 2f613b0333a7ad649cd18ac0f5790d22ace1c6ef 10932 capsule-nextflow_1.1.0+dfsg-1_amd64.buildinfo Checksums-Sha256: a466091dff7c4efc7f219e747a492a41b5c74bca6c4d8c3d60589eb93ba2 2262 capsule-nextflow_1.1.0+dfsg-1.dsc 4616478e91369e80f0f8103335d3364d517b2e78f4867758e9920f2c24b53da9 75520 capsule-nextflow_1.1.0+dfsg.orig.tar.xz 22f52f1e21091024e3e18c057917c2e7dd1e6738e988bbb0c719fe961c1b0f82 40968 capsule-nextflow_1.1.0+dfsg-1.debian.tar.xz 5a4271d9dace267fa1dff09a547661aee954519d4571bbba0fc20436f385f760 199636 capsule-nextflow_1.1.0+dfsg-1_all.deb 11d1c2d81be1642bad488b4765ebb379ea74f4f499f1e76b6e1ac5a39c97022e 10932 capsule-nextflow_1.1.0+dfsg-1_amd64.buildinfo Files: 960fc4ad64c867de6a884a6946d60e9d 2262 java optional capsule-nextflow_1.1.0+dfsg-1.dsc 1f9e95557ee12243e1871d7a91bf43d2 75520 java optional capsule-nextflow_1.1.0+dfsg.orig.tar.xz
Bug#984477: marked as done (libbio-variation-perl: missing Breaks+Replaces: bioperl (<< 1.7.3))
Your message dated Thu, 04 Mar 2021 13:18:23 + with message-id and subject line Bug#984477: fixed in libbio-variation-perl 1.7.5-2 has caused the Debian Bug report #984477, regarding libbio-variation-perl: missing Breaks+Replaces: bioperl (<< 1.7.3) 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.) -- 984477: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=984477 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: libbio-variation-perl Version: 1.7.5-1 Severity: serious User: debian...@lists.debian.org Usertags: piuparts Hi, during a test with piuparts I noticed your package fails to upgrade from 'buster'. It installed fine in 'buster', then the upgrade to 'bullseye' fails because it tries to overwrite other packages files without declaring a Breaks+Replaces relation. See policy 7.6 at https://www.debian.org/doc/debian-policy/ch-relationships.html#overwriting-files-and-replacing-packages-replaces >From the attached log (scroll to the bottom...): Selecting previously unselected package libbio-variation-perl. Preparing to unpack .../048-libbio-variation-perl_1.7.5-1_all.deb ... Unpacking libbio-variation-perl (1.7.5-1) ... dpkg: error processing archive /tmp/apt-dpkg-install-eyjeT8/048-libbio-variation-perl_1.7.5-1_all.deb (--unpack): trying to overwrite '/usr/bin/bp_flanks', which is also in package bioperl 1.7.2-3 dpkg-deb: error: paste subprocess was killed by signal (Broken pipe) IIRC bioperl 1.7.3 is the version that got split up into several packages, therefore the existing Breaks+Replaces: libbio-perl-perl (<= 1.7.2) are also insufficiently versioned (should be (<< 1.7.3) as well). cheers, Andreas bioperl-run_1.7.3-6.log.gz Description: application/gzip --- End Message --- --- Begin Message --- Source: libbio-variation-perl Source-Version: 1.7.5-2 Done: Andreas Tille We believe that the bug you reported is fixed in the latest version of libbio-variation-perl, 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 984...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille (supplier of updated libbio-variation-perl 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: SHA512 Format: 1.8 Date: Thu, 04 Mar 2021 13:55:37 +0100 Source: libbio-variation-perl Architecture: source Version: 1.7.5-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Closes: 984477 Changes: libbio-variation-perl (1.7.5-2) unstable; urgency=medium . * Team upload. * Fix maintainer address * Add debian/salsa-ci.yml * Breaks+Replaces: bioperl (<< 1.7.3) Closes: #984477 Checksums-Sha1: 2691b1240f8113942a21e750644d2cd284324e28 2286 libbio-variation-perl_1.7.5-2.dsc da8ec9b9f37993aebea0805f57b8a6b1f3328f3e 2052 libbio-variation-perl_1.7.5-2.debian.tar.xz e497eedd383a5c47cf3ecd69f0c7d5a1129fbafe 7420 libbio-variation-perl_1.7.5-2_amd64.buildinfo Checksums-Sha256: 398f6a65c2b11255b53191b6b80705e3057dce3185ec4d9781c23185be741e4f 2286 libbio-variation-perl_1.7.5-2.dsc 80892316d8c5916336dae5c00b71cd4efcaa36e665a44a4d2529b31af77f4ed4 2052 libbio-variation-perl_1.7.5-2.debian.tar.xz 93fd5f6e1be944d84cf9a98ae5d2f0ca669acc820d0f99e4f2bdc969ba13f48b 7420 libbio-variation-perl_1.7.5-2_amd64.buildinfo Files: 95819385a30bb2c3a9422e585cf669be 2286 perl optional libbio-variation-perl_1.7.5-2.dsc a9554a36af420584e21916fae8778dde 2052 perl optional libbio-variation-perl_1.7.5-2.debian.tar.xz 9eebf28a9a9b33b77653193fe1859cbd 7420 perl optional libbio-variation-perl_1.7.5-2_amd64.buildinfo -BEGIN PGP SIGNATURE- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmBA2SQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGV/g//UnswyCARmFpiEqPQC1/QjBvJpyTweoVo IJdfM01imVFjd2LC1dPwt+SUchnsbD9BYsbiJNrjxILsn2Kb7K51uPZ8sB/ZSnos 2MAkwwdikiX3NF8XXWd5uYjifpM56SXAidE4WF795NO/LnKK8IG2g28DaAYPPPZ1 44hzgIQ4frigC7TpAf7mqnBYvbyzctHonLqF2Mq8462rf8qUY8cebZ5OibhmvdGC 15/A7UfVRVCl5GD3tRlBbwEKSQhPIYnCesrjY/FpcvA57XSe6e70nwu3raMPITA+ qvGgpKYJ00XvdGRzCQvDrczDyazG+bjT8UvapvfWn8lWIbrw1Q1uoeoHXH3d5WwC 5jWKKfHHS9Oi1q8XtAKatRcNqxgZL5OSpN5OQjoa
Bug#983239: marked as done (libbio-db-ncbihelper-perl: (autopkg)test failures when network is available)
Your message dated Mon, 22 Feb 2021 23:12:17 +0100 with message-id and subject line closing 983239 affecting libbio-db-ncbihelper-perl has caused the Debian Bug report #983239, regarding libbio-db-ncbihelper-perl: (autopkg)test failures when network is available 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.) -- 983239: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=983239 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Source: libbio-db-ncbihelper-perl Version: 1.7.6-2 Severity: serious Justification: autopkgtest is relevant, network access is a policy violation -BEGIN PGP SIGNED MESSAGE- Hash: SHA512 As seen on ci.d.n: https://ci.debian.net/data/autopkgtest/testing/amd64/libb/libbio-db-ncbihelper-perl/10589853/log.gz we have a test failure: not ok 44 # Failed test at t/Taxonomy.t line 102. # got: 'Actinomycetia' # expected: 'Actinobacteria' This happens because internet access is available, and internet using tests are disabled during not disabeld. I think they are supposed to be disabled during build, but this doesn't seem to work either: t/EntrezGene.t . skipped: no host: www.google.com t/GenBank.t skipped: no host: www.google.com t/GenPept.t skipped: no host: www.google.com t/Query-Genbank.t .. skipped: no host: www.google.com t/RefSeq.t . skipped: no host: www.google.com t/Taxonomy.t ... skipped: no host: www.google.com means that libtest-requiresinternet-perl doesn't find internet access (expected in my chroot), whereas it would output something different if NO_NETWORK_TESTING was respected. (Also: what is --network supposed to do?) With override_dh_auto_test: NO_NETWORK_TESTING=1 dh_auto_test we get: t/EntrezGene.t . skipped: NO_NETWORK_TESTING t/GenBank.t skipped: NO_NETWORK_TESTING t/GenPept.t skipped: NO_NETWORK_TESTING t/Query-Genbank.t .. skipped: NO_NETWORK_TESTING t/RefSeq.t . skipped: NO_NETWORK_TESTING t/Taxonomy.t ... skipped: NO_NETWORK_TESTING Summary: - - the tests try to go out to the internet (policy violation during build) - - if this succeeds the build fails (which doesn't happen in restricted chroots) - - autopkgtests fail - - setting NO_NETWORK_TESTING=1 in d/rules help - - doing the same in debian/tests/pkg-perl/smoke-env fixes the autopkgtest failure Cheers, gregor - -- System Information: Debian Release: bullseye/sid APT prefers unstable APT policy: (990, 'unstable'), (500, 'unstable-debug'), (500, 'oldoldstable'), (500, 'experimental'), (500, 'testing'), (500, 'stable'), (500, 'oldstable') Architecture: amd64 (x86_64) Foreign Architectures: i386 Kernel: Linux 5.10.0-3-amd64 (SMP w/4 CPU threads) Kernel taint flags: TAINT_OOT_MODULE, TAINT_UNSIGNED_MODULE Locale: LANG=C, LC_CTYPE=de_AT.utf8 (charmap=UTF-8), LANGUAGE not set Shell: /bin/sh linked to /bin/bash Init: sysvinit (via /sbin/init) LSM: AppArmor: enabled -BEGIN PGP SIGNATURE- iQKTBAEBCgB9FiEE0eExbpOnYKgQTYX6uzpoAYZJqgYFAmAyWqJfFIAALgAo aXNzdWVyLWZwckBub3RhdGlvbnMub3BlbnBncC5maWZ0aGhvcnNlbWFuLm5ldEQx RTEzMTZFOTNBNzYwQTgxMDREODVGQUJCM0E2ODAxODY0OUFBMDYACgkQuzpoAYZJ qgZpqg//QFq38bzNVQzMtyxMbWHQ7rHWERS2IcdGdsu0PIkluPTX86dn/XOvGZgG XlTSJVlhoaZLU9/+O6D+IGUTMGrMCMskNW7sDfB3Q5eTISCCf25ua93iXQaD8iz9 HFScCQx/oc9lAhXyxZwa9qvgMOjNkyFGvz0chjJhqhwsBp9o7mnFFwMd9a675xgv CgXSecGvbkO2ri951Qj42rHblEC1GI1dh12aDZKPuopFkmF43TT5Encem5Ekbw5N ShP2LJsw9+kJ0MEnzClHSYZSetrkqDise/bgkC0icxARzFz7FZVsskwJQq/fx4jm JUjTtiZTDPZlFym3bw2eN2x46187UpdEYF7x1Ez6RxxwUMYOxdZTWf+EzGkXgnQA 5Nd8PC907tzHYsz3U17ABIRZn1pploxwn4S0Rt58m/Z1d4UIhywpdJPw8Ioq3o+6 KvWqdO2mWQxOX0UucvURSNjlMqyX3qifqPvj8yCQRBuPEu2oL3ai3vlN6rzuYVq4 qgWoWofLe+l6OUFt95ZSzRfUw7E9n+XJGjrfcL5hkvdmRa73LAWDkLcgyyqcB7th nwshKOA7h1/IvRSdQJbBenddEL6UtsE6auhkw0300ifF3PHhVxwz1H7zDTKF1JLx z9Bmlqh9cjNx+G4wyXK5LZA83NCgsF9vSzOBwb1KLtc/lx9OgUI= =abvI -END PGP SIGNATURE- --- End Message --- --- Begin Message --- Version: 1.7.6-3 The build time test is now done with NO_NETWORK_TESTING=1, so that prevents the test to fetch data over the Internet, thus fixing the policy violation. -- Étienne Mollier Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da Sent from /dev/pts/3, please excuse my verbosity. signature.asc Description: PGP signature --- End Message ---
Processed: Re: libbio-db-ncbihelper-perl: (autopkg)test failures when network is available
Processing control commands: > tag -1 upstream Bug #983239 [src:libbio-db-ncbihelper-perl] libbio-db-ncbihelper-perl: (autopkg)test failures when network is available Added tag(s) upstream. > forwarded -1 https://github.com/bioperl/Bio-DB-NCBIHelper/issues/6 Bug #983239 [src:libbio-db-ncbihelper-perl] libbio-db-ncbihelper-perl: (autopkg)test failures when network is available Set Bug forwarded-to-address to 'https://github.com/bioperl/Bio-DB-NCBIHelper/issues/6'. -- 983239: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=983239 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: RFP: libaparapi-java -- framework for executing native Java code on the GPU
Processing commands for cont...@bugs.debian.org: > noowner 963630 Bug #963630 [wnpp] RFP: libaparapi-java -- framework for executing native Java code on the GPU Removed annotation that Bug was owned by Debian-med project . > End of message, stopping processing here. Please contact me if you need assistance. -- 963630: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=963630 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: RFP-ing libaparapi-java due to licensing issues at the moment
Processing control commands: > retitle -1 RFP: libaparapi-java -- framework for executing native Java code > on the GPU Bug #963630 [wnpp] RFS: libaparapi-java -- framework for executing native Java code on the GPU Changed Bug title to 'RFP: libaparapi-java -- framework for executing native Java code on the GPU' from 'RFS: libaparapi-java -- framework for executing native Java code on the GPU'. -- 963630: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=963630 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: RFS-ing libaparapi-java due to licensing issues at the moment
Processing control commands: > retitle -1 RFS: libaparapi-java -- framework for executing native Java code > on the GPU Bug #963630 [wnpp] ITP: libaparapi-java -- framework for executing native Java code on the GPU Changed Bug title to 'RFS: libaparapi-java -- framework for executing native Java code on the GPU' from 'ITP: libaparapi-java -- framework for executing native Java code on the GPU'. -- 963630: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=963630 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#972554: marked as done (ITP: icb-utils -- Java library of utilities to manage files and compute statistics)
Your message dated Tue, 27 Oct 2020 11:00:17 + with message-id and subject line Bug#972554: fixed in icb-utils 2.0.1+git20161002.afee1d9-1 has caused the Debian Bug report #972554, regarding ITP: icb-utils -- Java library of utilities to manage files and compute statistics 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.) -- 972554: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=972554 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med project X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: icb-utils Version : 2.0.1+git20161002.afee1d9 Upstream Author : Fabien Campagne * URL : https://github.com/CampagneLaboratory/icb-utils * License : Apache-2.0 Programming Lang: Java Description : Java library of utilities to manage files and compute statistics icb-utils is a group of tools originally designed by the Campagne laboratory for computational biomedicine software. They include extensions of standard Java to manage io, extended iterator classes, hashtables, network-related classes, as well as a set of classes allowing for the computation of statistics. This software is needed as a predependency for igv, currently in non-free. It is also a dependency of several software Debian-med is willing to package. The package will be taken care of in Debian-med team. --- End Message --- --- Begin Message --- Source: icb-utils Source-Version: 2.0.1+git20161002.afee1d9-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of icb-utils, 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 972...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated icb-utils 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: Tue, 20 Oct 2020 11:17:34 +0200 Source: icb-utils Binary: libicb-utils-java Architecture: source all Version: 2.0.1+git20161002.afee1d9-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libicb-utils-java - Java library of utilities to manage files and compute statistics Closes: 972554 Changes: icb-utils (2.0.1+git20161002.afee1d9-1) unstable; urgency=medium . * Initial release (Closes: #972554) Checksums-Sha1: 8212380ba773570e48d167f649306bce9d6ec8b0 2419 icb-utils_2.0.1+git20161002.afee1d9-1.dsc ac73fc889b2e7fa12c81aa40371b20aa99720fcf 77444 icb-utils_2.0.1+git20161002.afee1d9.orig.tar.xz 0aa89cc6a2f14253769f404123a5c5eb59d34ea9 4192 icb-utils_2.0.1+git20161002.afee1d9-1.debian.tar.xz 14bfa8f5c1e4455836ba06bc2b4e44beccade650 14618 icb-utils_2.0.1+git20161002.afee1d9-1_amd64.buildinfo f7116a3a17fd67b79f3e276aefd87c219f37614d 80820 libicb-utils-java_2.0.1+git20161002.afee1d9-1_all.deb Checksums-Sha256: 68aed7895f9d655988483f96c5e9ce2238612321f3946dfda4ac8af67867 2419 icb-utils_2.0.1+git20161002.afee1d9-1.dsc 49b32f3ae94df8b14345f326e55866b029160ab887d99f55adf21153c25c0949 77444 icb-utils_2.0.1+git20161002.afee1d9.orig.tar.xz 507d668eadb33d9d19bbabb996fc9111bf7b6da03acdce5c7122716f118947f3 4192 icb-utils_2.0.1+git20161002.afee1d9-1.debian.tar.xz acfb2ebfa64cd450fac62e28968fb733892077f97d6e828f78d43f3d32517682 14618 icb-utils_2.0.1+git20161002.afee1d9-1_amd64.buildinfo 7508b2457ac51f007fa08b5fc68e1152ec702eb3a28de9b5cab88b95edfec4d5 80820 libicb-utils-java_2.0.1+git20161002.afee1d9-1_all.deb Files: 65cb3f7943508f61565f4a889ab404cb 2419 java optional icb-utils_2.0.1+git20161002.afee1d9-1.dsc 562054a50cf50a005e83938ae32acb16 77444 java optional icb-utils_2.0.1+git20161002.afee1d9.orig.tar.xz 85e66d6b594f4cba2ea37800d5493b8d 4192 java optional icb-utils_2.0.1+git20161002.afee1d9-1.debian.tar.xz baf4453f52819d0ab8f41f57dfab42b0 14618 java optional icb-utils_2.0.1+git20161002.afee1d9-1_amd64.buildinfo 693f907a82e947cc893050cc7e0868f0 80820 java optional libicb-utils-java_2.0.1+git20161002.afee1d9-1_all.deb -BEGIN PGP SIGNATURE- iQIzBAEBCAAdFiEEhMGXeonn7+0+XKYuL9i+2sAg7tEFAl+PVrkACgkQL9i+2sAg 7tHoqg
Bug#971870: marked as done (ITP: sepp -- methods using ensembles of Hidden Markov Models (HMM))
Your message dated Fri, 23 Oct 2020 22:00:14 + with message-id and subject line Bug#971870: fixed in sepp 4.3.10+dfsg-1 has caused the Debian Bug report #971870, regarding ITP: sepp -- methods using ensembles of Hidden Markov Models (HMM) 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.) -- 971870: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=971870 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med project X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: sepp Version : 4.3.10 Upstream Author : Siavash Mirarab * URL : https://github.com/smirarab/sepp/ * License : GPL-3 Programming Lang: Python, Java Description : methods using ensembles of Hidden Markov Models (HMM) The tools SEPP and TIPP implementing these methods use ensembles of Hidden Markov Models (HMMs) in different ways, each focusing on a different problem. SEPP stands for "SATe-enabled Phylogenetic Placement", and addresses the problem of phylogenetic placement of short reads into reference alignments and trees. TIPP stands for "Taxonomic Identification and Phylogenetic Profiling", and addresses the problem of taxonomic identification and abundance profiling of metagenomic data. This package is useful to treat genomic data and will be maintained by Debian-med. --- End Message --- --- Begin Message --- Source: sepp Source-Version: 4.3.10+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of sepp, 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 971...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated sepp 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: SHA512 Format: 1.8 Date: Thu, 08 Oct 2020 22:18:43 +0200 Source: sepp Binary: sepp Architecture: source amd64 Version: 4.3.10+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: sepp - methods use ensembles of Hidden Markov Models (HMM) Closes: 971870 Changes: sepp (4.3.10+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #971870) Checksums-Sha1: 621ad66c6aaa92737e8fc104f53e654c0ddcbb48 2131 sepp_4.3.10+dfsg-1.dsc baf7d2cc04acac0a1869b6dca1e9d4fb995beb49 4287844 sepp_4.3.10+dfsg.orig.tar.xz 48f7822429fa0fdfe4f7fb69c057517867a80586 13428 sepp_4.3.10+dfsg-1.debian.tar.xz 5d5882cd7d64e8fc21545708db3d57ed2812934e 7930 sepp_4.3.10+dfsg-1_amd64.buildinfo 49355215c3ba665f454c0aee391885c0190b7f32 181084 sepp_4.3.10+dfsg-1_amd64.deb Checksums-Sha256: 76de4d9e5cf70274c920dbf9a1356a70da3d01b4e72b4127b36bf2292a9ceb4b 2131 sepp_4.3.10+dfsg-1.dsc d0840407c5387b7d4db0baf701c220580ecc0fcc88f91ef1f6295a9da0869c7e 4287844 sepp_4.3.10+dfsg.orig.tar.xz 4a80191a1ba7fefc9a104ed95488f9bc9bea65cc5566fcae8d95639fe84f6366 13428 sepp_4.3.10+dfsg-1.debian.tar.xz 68b7c52011cafcb7b48b7b437c831f9e207318bba547e38b69b9e39dabde8c7d 7930 sepp_4.3.10+dfsg-1_amd64.buildinfo cbceeff332861fab1d2f497c58a9bdad6af158ec446ff93698f34d826724cb5a 181084 sepp_4.3.10+dfsg-1_amd64.deb Files: 846306506b7186a748531896a23ab584 2131 science optional sepp_4.3.10+dfsg-1.dsc 46f9be63a75122114424d6b09eb5ba1f 4287844 science optional sepp_4.3.10+dfsg.orig.tar.xz e21102c9132b9ebf7e7b09228d0b306f 13428 science optional sepp_4.3.10+dfsg-1.debian.tar.xz 7e4877275fca0d17685204d225eea3d1 7930 science optional sepp_4.3.10+dfsg-1_amd64.buildinfo 23fe9305afe5f3bfef2b9653cc176c32 181084 science optional sepp_4.3.10+dfsg-1_amd64.deb -BEGIN PGP SIGNATURE- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl+AkF8RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH4ng/+JoVwvZ+OsfE+QTzbl19C1GDaZVcae/hr vvL1VFcREp+d24dSjqnt7xjMCNzXjEBfPbyo4u5lEDxjpEnnUrhA39k+6jMf6Dhy 2hnaKXOzFvudNTlOL36C83eL9a0bj01NUTgtkhHeQb082/oZ7/GaWNEGgJXy3OQ3 MOs7fGxqE3J264vxSkvfRvtngoGxbA8q+8OJjkWIMUHUX7qPZq0IxcJjGx3BdsII PMTQkCEHcwAhoAPNmaO8KcR+tgUBiVYMGePddw5Rmkd/JbyKT9krBdb7uLL8ya1p lufW7plqs3DLM5DlR5pct/L9tG1M/Mgc6hwugCvBdIGC
Bug#961158: marked as done (ITP: libdistlib-java -- Java library of statistical distribution functions)
Your message dated Sun, 12 Jul 2020 17:00:14 + with message-id and subject line Bug#961158: fixed in libdistlib-java 0.9.1+dfsg-1 has caused the Debian Bug report #961158, regarding ITP: libdistlib-java -- Java library of statistical distribution functions 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.) -- 961158: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=961158 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian-med project * Package name: distlib Version : 0.9.1 Upstream Author : Peter N. Steinmetz * URL : https://sourceforge.net/projects/statdistlib * License : GPL-2 Programming Lang: Java Description : Java library of statistical distribution functions This is a library written in Java, providing probability density function, cumulative distribution function, quantiles and random variate generation for several common statistical distributions. This package will be taken care of in Debian-med team, where it is needed as a dependency of SnpEff. --- End Message --- --- Begin Message --- Source: libdistlib-java Source-Version: 0.9.1+dfsg-1 Done: Pierre Gruet We believe that the bug you reported is fixed in the latest version of libdistlib-java, 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 961...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet (supplier of updated libdistlib-java 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, 25 May 2020 22:19:38 +0200 Source: libdistlib-java Binary: libdistlib-java libdistlib-java-doc Architecture: source all Version: 0.9.1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libdistlib-java - Java library of statistical distribution functions libdistlib-java-doc - Java library of statistical distribution functions (documentation Closes: 961158 Changes: libdistlib-java (0.9.1+dfsg-1) unstable; urgency=medium . * Initial Debian upload, version 0.9.1+dfsg (Closes: #961158) Checksums-Sha1: 2c5a46e0648f53e01460f31dc1b5016e7a92f4f6 2293 libdistlib-java_0.9.1+dfsg-1.dsc 95102d91454f784dee2c61c49e4d8e0003324ce2 53104 libdistlib-java_0.9.1+dfsg.orig.tar.xz 8ec162d5fa9ab5d5ec26993f5f5a2e908f0289bd 7648 libdistlib-java_0.9.1+dfsg-1.debian.tar.xz 139178e5c7837b19a1bfdf50a43a436908cec3d8 258892 libdistlib-java-doc_0.9.1+dfsg-1_all.deb 7a2f095db21c9153d308b5742e8b3f0e2af0041c 68408 libdistlib-java_0.9.1+dfsg-1_all.deb d2def43aac2b3f34a4f8d2f97e07b6e07d4dfb73 10734 libdistlib-java_0.9.1+dfsg-1_amd64.buildinfo Checksums-Sha256: e1ba4c0c4a18a1565426e7e71eddd3c9be613d931a9d21998482d7b516460fdf 2293 libdistlib-java_0.9.1+dfsg-1.dsc b7b083b42d759a42eff0e0d0c5ff3d0e08f7e9e69a8e648811730dc3c58bbdbb 53104 libdistlib-java_0.9.1+dfsg.orig.tar.xz bfacd780a18687c66013d371d839dd3559bd0e1015302865a25b76bf6a62d054 7648 libdistlib-java_0.9.1+dfsg-1.debian.tar.xz f39c1031132bbec8dcc77a918b26294ef86e9b6c76e2bf1b4f3747a657a590ab 258892 libdistlib-java-doc_0.9.1+dfsg-1_all.deb 40683212500a0f265c8976b477df3d3256de8078411e95159497a5f5d562a4f2 68408 libdistlib-java_0.9.1+dfsg-1_all.deb 93b52ff05b86bc2384ccf287e58dc81b41ea86dc8203b50864232d40bf104a2c 10734 libdistlib-java_0.9.1+dfsg-1_amd64.buildinfo Files: d9498a30c77a6eae315f75dc4abcbae9 2293 java optional libdistlib-java_0.9.1+dfsg-1.dsc a9b113d349683047f077a4ab888f7249 53104 java optional libdistlib-java_0.9.1+dfsg.orig.tar.xz 21825c0b269f6349f0fd0728638b9051 7648 java optional libdistlib-java_0.9.1+dfsg-1.debian.tar.xz 316168841fb5eb676377cb47315c8e8e 258892 doc optional libdistlib-java-doc_0.9.1+dfsg-1_all.deb 2b4e02660d144610e4fe175d765dfb86 68408 java optional libdistlib-java_0.9.1+dfsg-1_all.deb 203470a8d5100353085809705a7836d1 10734 java optional libdistlib-java_0.9.1+dfsg-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAl7MM0IRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEWEhAAgiyEF7SgXed2DF7jOB8tUTOSKlTlbJYp Y7bTotAHsQCkWkqut96Kea
Processed: Re: Bug#961158: ITP: distlib -- Java library of statistical distribution functions
Processing control commands: > retitle -1 ITP: libdistlib-java -- Java library of statistical distribution > functions Bug #961158 [wnpp] ITP: distlib -- Java library of statistical distribution functions Changed Bug title to 'ITP: libdistlib-java -- Java library of statistical distribution functions' from 'ITP: distlib -- Java library of statistical distribution functions'. -- 961158: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=961158 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#915829: marked as done (ITP: arcp -- (Archive and Package) URI parser and generator)
Your message dated Wed, 25 Mar 2020 02:11:56 + with message-id and subject line Bug#915829: fixed in arcp 0.2.1-1 has caused the Debian Bug report #915829, regarding ITP: arcp -- (Archive and Package) URI parser and generator 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.) -- 915829: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=915829 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Subject: ITP: arcp -- (Archive and Package) URI parser and generator Package: wnpp Owner: Debian Med team Severity: wishlist * Package name: arcp Version : 0.2.0 Upstream Author : Stian Soiland-Reyes * URL : http://arcp.readthedocs.io/ * License : Apache-2.0 Programming Language: Python Description : (Archive and Package) URI parser and generator arcp provides functions for creating arcp URIs, which can be used for identifying or parsing hypermedia files packaged in an archive or package, like a ZIP file. . arcp URIs can be used to consume or reference hypermedia resources bundled inside a file archive or an application package, as well as to resolve URIs for archive resources within a programmatic framework. . This URI scheme provides mechanisms to generate a unique base URI to represent the root of the archive, so that relative URI references in a bundled resource can be resolved within the archive without having to extract the archive content on the local file system. . An arcp URI can be used for purposes of isolation (e.g. when consuming multiple archives), security constraints (avoiding “climb out” from the archive), or for externally identiyfing sub-resources referenced by hypermedia formats. . Examples: - ``arcp://uuid,32a423d6-52ab-47e3-a9cd-54f418a48571/doc.html`` - ``arcp://uuid,b7749d0b-0e47-5fc4-999d-f154abe68065/pics/`` - ``arcp://ni,sha-256;F-34D4TUeOfG0selz7REKRDo4XePkewPeQYtjL3vQs0/`` - ``arcp://name,gallery.example.org/`` . The different forms of URI authority_ in arcp URIs can be used depending on which uniqueness constraints to apply when addressing an archive. See the arcp specification (https://tools.ietf.org/html/draft-soilandreyes-arcp-02) for details. . Note that this library only provides mechanisms to *generate* and *parse* arcp URIs, and do *not* integrate with any particular archive or URL handling modules like "zipfile" or "urllib.request". Needed for latest cwltool. Will be team-maintained by Debian Med --- End Message --- --- Begin Message --- Source: arcp Source-Version: 0.2.1-1 Done: michael.cru...@gmail.com (Michael R. Crusoe) We believe that the bug you reported is fixed in the latest version of arcp, 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 915...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe (supplier of updated arcp 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: Wed, 12 Feb 2020 14:52:23 +0100 Source: arcp Binary: python3-arcp Architecture: source all Version: 0.2.1-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: python3-arcp - (Archive and Package) URI parser and generator Closes: 915829 Changes: arcp (0.2.1-1) unstable; urgency=low . * Initial release. (Closes: #915829) Checksums-Sha1: 58bc44c98f6f5ff8a9241c3c857e4c38189f3f59 1984 arcp_0.2.1-1.dsc c049d28e3c387752da76aaba985b5416e58c9b4e 22063 arcp_0.2.1.orig.tar.gz 071f7b6740c889d41f5726140cd339926631d0a9 2344 arcp_0.2.1-1.debian.tar.xz bb6ea563c6d05ed7c1422e95005b8e811c1c71e2 6217 arcp_0.2.1-1_amd64.buildinfo 94c01bc47384317c5e5e6d78e66170dae34b35bd 13320 python3-arcp_0.2.1-1_all.deb Checksums-Sha256: 0d7e514f2e136eac59fd1960c93081b19e946a3ae54a356a1cd8a170ab4b4aee 1984 arcp_0.2.1-1.dsc 5c17ac7972c9ef82979cc2caf2b3a87c1aefd3fefe9adb8a5dd728ada57715dd 22063 arcp_0.2.1.orig.tar.gz 680e4d4afb2548ccdf8ed98c0624ef52481d099449b1aaf051d1cabf60c88019 2344 arcp_0.2.1-1.debian.tar.xz 34c3554a5f282387e8d5f53a9856569e9135d17fc69e2b677c043b70b4c6f4e3 6217
Bug#934629: marked as done (ITP: seqan3 -- C++ library for the analysis of biological sequences (development))
Your message dated Mon, 11 Nov 2019 11:00:29 + with message-id and subject line Bug#934629: fixed in seqan3 3.0.0+ds2-1 has caused the Debian Bug report #934629, regarding ITP: seqan3 -- C++ library for the analysis of biological sequences (development) 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.) -- 934629: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=934629 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Subject: ITP: seqan3 -- C++ library for the analysis of biological sequences (development) Package: wnpp Owner: Michael R. Crusoe Severity: wishlist * Package name: seqan3 Version : 3.0.0+ds Upstream Author : , Knut Reinert, FU Berlin * URL : http://www.seqan.de/ * License : BSD-3-clause Programming Lang: C Description : C++ library for the analysis of biological sequences (development) SeqAn is a C++ template library of efficient algorithms and data structures for the analysis of sequences with the focus on biological data. This library applies a unique generic design that guarantees high performance, generality, extensibility, and integration with other libraries. SeqAn is easy to use and simplifies the development of new software tools with a minimal loss of performance. . This package contains the developer files. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/seqan2 --- End Message --- --- Begin Message --- Source: seqan3 Source-Version: 3.0.0+ds2-1 We believe that the bug you reported is fixed in the latest version of seqan3, 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 934...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe (supplier of updated seqan3 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: SHA512 Format: 1.8 Date: Mon, 12 Aug 2019 14:05:10 +0200 Source: seqan3 Binary: libseqan3-dev seqan3-doc Architecture: source all Version: 3.0.0+ds2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libseqan3-dev - C++ library for the analysis of biological sequences v3 (developm seqan3-doc - C++ library for the analysis of biological sequences v3 (document Closes: 934629 Changes: seqan3 (3.0.0+ds2-1) unstable; urgency=medium . * Initial upload. (Closes: #934629) Checksums-Sha1: 639e3576de3e7f4b535cf1228b62ef2d051dcc1e 2280 seqan3_3.0.0+ds2-1.dsc 430a887fc7243c6296e8f0ac31f718054b287a55 2003684 seqan3_3.0.0+ds2.orig.tar.xz 95132976389b324c62e5e40c7000bd1c552c4732 14620 seqan3_3.0.0+ds2-1.debian.tar.xz 478aef10378c95f2c972aaa375ab3ba9b75213e0 778224 libseqan3-dev_3.0.0+ds2-1_all.deb 7705f4e6f9444a63d3afe8e7df710841232c91b0 12487440 seqan3-doc_3.0.0+ds2-1_all.deb 87a3e0e8d4b64577de57ed296808043be70dc742 9990 seqan3_3.0.0+ds2-1_amd64.buildinfo Checksums-Sha256: 4faf8373313c9ebb0da80313b8dc7e4bcf26cc901f862841735fb2131fd1098b 2280 seqan3_3.0.0+ds2-1.dsc a80691750192083df33b65d5951d994ea95a55ef38c6a431ad50ddfbac1558b9 2003684 seqan3_3.0.0+ds2.orig.tar.xz 07aa04baed8fe526dbb36928cf0f9b781607713449fd9b5508210c9b055273ab 14620 seqan3_3.0.0+ds2-1.debian.tar.xz 2c60d696b45776ddd605b19b5f9e3ae5c23de1b699218cd49571c5e0280913b7 778224 libseqan3-dev_3.0.0+ds2-1_all.deb 11c57b70edcc447a8bd41adf4ac1f52bd2a24dbd5e837f52befb48d5a231ffcc 12487440 seqan3-doc_3.0.0+ds2-1_all.deb 88c8da6b4f0233528caee815cff4b4021535c2ceb5644074fcb0f630af5991b7 9990 seqan3_3.0.0+ds2-1_amd64.buildinfo Files: c12089cc9c047e1d5f1357bafca1ac72 2280 science optional seqan3_3.0.0+ds2-1.dsc 717bf0b48f0cb6794909d1aee03d73ae 2003684 science optional seqan3_3.0.0+ds2.orig.tar.xz 2eea02a5015d883275ef4611c80e0913 14620 science optional seqan3_3.0.0+ds2-1.debian.tar.xz e9b33adbf742c7318541d8ca098b1dbc 778224 libdevel optional libseqan3-dev_3.0.0+ds2-1_all.deb df1b91df30a4152bb91769ff24638457 12487440 doc optional seqan3-doc_3.0.0+ds2-1_all.deb b5c811738a9a80d249199968d2f39087 9990 science optional seqan3_3.0.0+ds2-1_amd64.buildinfo -BEGIN PGP SIGNATURE
Processed: ITP: seqan3 -- C++ library for the analysis of biological sequences (development)
Processing commands for cont...@bugs.debian.org: > owner 934629 debian-med@lists.debian.org Bug #934629 [wnpp] ITP: seqan3 -- C++ library for the analysis of biological sequences (development) Owner changed from "Michael R. Crusoe" to debian-med@lists.debian.org. > stop Stopping processing here. Please contact me if you need assistance. -- 934629: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=934629 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#928333: marked as done (RM: augustus, bedtools, cyvcf2, delly, dwgsim, fastqtl, hilive, nanopolish, qtltools, samtools, segemehl, smalt [i386] -- ANAIS; ROM; i386 no longer supported upstream)
Your message dated Mon, 24 Jun 2019 22:02:30 + with message-id and subject line Bug#928333: Removed package(s) from unstable has caused the Debian Bug report #928333, regarding RM: augustus, bedtools, cyvcf2, delly, dwgsim, fastqtl, hilive, nanopolish, qtltools, samtools, segemehl, smalt [i386] -- ANAIS; ROM; i386 no longer supported upstream 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.) -- 928333: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=928333 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: ftp.debian.org Severity: normal Owner: Debian Med team Hello, this request is a repeat of https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=914991 The *i386 packages have somehow crept back in for all the reverse-(build-)deps of htslib binary packages. Could the removal of *i386 binary packages that (build-)depend on any of the htslib binary packages be repeated? Thanks. See also https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=927850 -- Michael R. Crusoe Co-founder & Lead, Common Workflow Language project m...@commonwl.org --- End Message --- --- Begin Message --- We believe that the bug you reported is now fixed; the following package(s) have been removed from unstable: augustus | 3.3.2+dfsg-2 | i386 bedtools | 2.27.1+dfsg-4 | i386 delly |0.8.1-2 | i386 dwgsim | 0.1.12-2 | i386 fastqtl | 2.184+dfsg-6+b1 | i386 hilive | 1.1-2 | i386 nanopolish | 0.11.0-2 | i386 python-cyvcf2 | 0.10.8-1 | i386 python3-cyvcf2 | 0.10.8-1 | i386 qtltools | 1.1+dfsg-3 | i386 samtools | 1.9-4 | i386 segemehl |0.3.4-1 | i386 smalt |0.7.6-8 | i386 --- Reason --- ANAIS; ROM; i386 no longer supported upstream -- Note that the package(s) have simply been removed from the tag database and may (or may not) still be in the pool; this is not a bug. The package(s) will be physically removed automatically when no suite references them (and in the case of source, when no binary references it). Please also remember that the changes have been done on the master archive and will not propagate to any mirrors until the next dinstall run at the earliest. Packages are usually not removed from testing by hand. Testing tracks unstable and will automatically remove packages which were removed from unstable when removing them from testing causes no dependency problems. The release team can force a removal from testing if it is really needed, please contact them if this should be the case. Bugs which have been reported against this package are not automatically removed from the Bug Tracking System. Please check all open bugs and close them or re-assign them to another package if the removed package was superseded by another one. The version of this package that was in Debian prior to this removal can still be found using http://snapshot.debian.org/. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 928...@bugs.debian.org. The full log for this bug can be viewed at https://bugs.debian.org/928333 This message was generated automatically; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org. Debian distribution maintenance software pp. Scott Kitterman (the ftpmaster behind the curtain)--- End Message ---
Bug#925400: marked as done (ITP: q2cli -- Click-based command line interface for QIIME 2)
Your message dated Sun, 19 May 2019 19:00:12 + with message-id and subject line Bug#925400: fixed in q2cli 2019.1.0-1 has caused the Debian Bug report #925400, regarding ITP: q2cli -- Click-based command line interface for QIIME 2 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.) -- 925400: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925400 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: Debian Med Packaging Team < debian-med-packag...@lists.alioth.debian.org> Severity: wishlist * Package name: q2cli Version : 2019.1.0 Upstream Author : QIIME 2 development team * URL : https://qiime2.org/ * License : BSD-3-clause Programming Lang: Python Description : Click-based command line interface for QIIME 2 QIIME 2 is a powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical results. Key features: * Integrated and automatic tracking of data provenance * Semantic type system * Plugin system for extending microbiome analysis functionality * Support for multiple types of user interfaces (e.g. API, command line, graphical) . QIIME 2 is a complete redesign and rewrite of the QIIME 1 microbiome analysis pipeline. QIIME 2 will address many of the limitations of QIIME 1, while retaining the features that makes QIIME 1 a powerful and widely-used analysis pipeline. . QIIME 2 currently supports an initial end-to-end microbiome analysis pipeline. New functionality will regularly become available through QIIME 2 plugins. You can view a list of plugins that are currently available on the QIIME 2 plugin availability page. The future plugins page lists plugins that are being developed. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/q2cli --- End Message --- --- Begin Message --- Source: q2cli Source-Version: 2019.1.0-1 We believe that the bug you reported is fixed in the latest version of q2cli, 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 925...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Liubov Chuprikova (supplier of updated q2cli 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, 11 Mar 2019 10:07:52 +0200 Source: q2cli Binary: q2cli Architecture: source all Version: 2019.1.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Liubov Chuprikova Description: q2cli - Click-based command line interface for QIIME 2 Closes: 925400 Changes: q2cli (2019.1.0-1) unstable; urgency=medium . * Initial release (Closes: #925400) Checksums-Sha1: 577aa987abaa47107c4250223d4c121aeb40b537 2009 q2cli_2019.1.0-1.dsc 09e1bbdb8324fb989d7cc0ddd83e6cd9c6ebc59a 267477 q2cli_2019.1.0.orig.tar.gz 17599223804aeb8844621af715d88d66d6597f09 5828 q2cli_2019.1.0-1.debian.tar.xz 26501507baac6bf66e78e7b03666a573b5e2504b 30816 q2cli_2019.1.0-1_all.deb 890781c6e6913055f74a3d51f3fabc63f113e3f6 6536 q2cli_2019.1.0-1_amd64.buildinfo Checksums-Sha256: 17273982c09e18cf8dab068c99768a81745fdd61d09406ea686e33c1351885c3 2009 q2cli_2019.1.0-1.dsc a69b0a16e91d15bcd30233d75a8b0709b93c3f0817a166dd99051353f8c1d3fe 267477 q2cli_2019.1.0.orig.tar.gz 5e76f897423a6b1d86c7e54e36a6e2398ebe4933ccd507adc051390526fddb09 5828 q2cli_2019.1.0-1.debian.tar.xz 15734ed7f79e8107815e3787446483efe69cf455b981cf3de5acb0ffba2fc856 30816 q2cli_2019.1.0-1_all.deb 9542c20874e6113b80738e4ef00b444b97b3756b8d3349a0155b6796e8c211d6 6536 q2cli_2019.1.0-1_amd64.buildinfo Files: 596ba297b1bcd83dc4ec08dd1f44bf0e 2009 science optional q2cli_2019.1.0-1.dsc f546f0ce82a1ed0f05c3c6a04e8488a0 267477 science optional q2cli_2019.1.0.orig.tar.gz 7b77bd5c0bf5e6726e6493f3111e15fe 5828 science optional q2cli_2019.1.0-1.debian.tar.xz ee19987c76d8ed822f225c384a60858b 30816 science optional q2cli_2019.1.0-1_all.deb 4ea36bda01843971a3abdda6dff08541 6536 science op
Processed: Re: RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream
Processing control commands: > retitle -1 RM: augustus, bedtools, cyvcf2, delly, dwgsim, fastqtl, hilive, > nanopolish, qtltools, samtools, segemehl, smalt [i386] -- ANAIS; ROM; i386 no > longer supported upstream Bug #928333 [ftp.debian.org] RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream Changed Bug title to 'RM: augustus, bedtools, cyvcf2, delly, dwgsim, fastqtl, hilive, nanopolish, qtltools, samtools, segemehl, smalt [i386] -- ANAIS; ROM; i386 no longer supported upstream' from 'RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream'. -- 928333: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=928333 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: Bug#925400: ITP: q2cli -- Click-based command line interface for QIIME 2
Processing commands for cont...@bugs.debian.org: > owner 925400 Debian Med team Bug #925400 [wnpp] ITP: q2cli -- Click-based command line interface for QIIME 2 Owner changed from Liubov Chuprikova to Debian Med team . > End of message, stopping processing here. Please contact me if you need assistance. -- 925400: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=925400 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: sourmash blocked by setuptools-scm-git-archive
Processing commands for cont...@bugs.debian.org: > block 919681 by 910742 Bug #919681 [wnpp] ITP: sourmash -- tools for comparing DNA sequences with MinHash sketches 919681 was not blocked by any bugs. 919681 was not blocking any bugs. Added blocking bug(s) of 919681: 910742 > thanks Stopping processing here. Please contact me if you need assistance. -- 919681: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=919681 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#919570: marked as done (ITP: python-mypy-extensions -- Experimental type system extensions for mypy typechecker (Python 3))
Your message dated Fri, 18 Jan 2019 13:00:11 + with message-id and subject line Bug#919570: fixed in python-mypy-extensions 0.4.1-1 has caused the Debian Bug report #919570, regarding ITP: python-mypy-extensions -- Experimental type system extensions for mypy typechecker (Python 3) 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.) -- 919570: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=919570 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team * Package name: python-mypy-extensions Version : 0.4.1 Upstream Author : Jukka Lehtosalo and contributors * URL : https://github.com/python/mypy_extensions/ * License : Expat Programming Lang: Python Description : Experimental type system extensions for mypy typechecker (Python 3) (Include the long description here. Add type annotations to your Python programs, and use mypy to type check them. Mypy is essentially a Python linter on steroids, and it can catch many programming errors by analyzing your program, without actually having to run it. Mypy has a powerful type system with features such as type inference, gradual typing, generics and union types. . The "mypy_extensions" module defines experimental extensions to the standard "typing" module that are supported by the mypy typechecker. . This package provides the modules for Python 3. This python module was previously part of the python3-mypy binary package from the mypy source package as it came from the same PyPI source distribution. Now it has been split into its own sdist/GitHub repo as of mypy v 0.660, so this separate package is needed. As with mypy, python-mypy-extensions will be team maintained by Debian Med. --- End Message --- --- Begin Message --- Source: python-mypy-extensions Source-Version: 0.4.1-1 We believe that the bug you reported is fixed in the latest version of python-mypy-extensions, 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 919...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe (supplier of updated python-mypy-extensions 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: Thu, 17 Jan 2019 01:17:57 -0800 Source: python-mypy-extensions Binary: python3-mypy-extensions Architecture: source all Version: 0.4.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: python3-mypy-extensions - Experimental type system extensions for mypy typechecker (Python Closes: 919570 Changes: python-mypy-extensions (0.4.1-1) unstable; urgency=medium . * Initial release as standalone package. (Closes: #919570). Checksums-Sha1: f99049abaf160439452b4bae43e56105cac0bda3 2174 python-mypy-extensions_0.4.1-1.dsc 49a8471dd621c8ddc0f8ee0980e08bc89cbf 3548 python-mypy-extensions_0.4.1.orig.tar.gz f948edda0a13a920b074de38a37057abcbd922f3 2192 python-mypy-extensions_0.4.1-1.debian.tar.xz 74fbfa35aef16690701b70b8b31266cc6767294d 6298 python-mypy-extensions_0.4.1-1_amd64.buildinfo ee710869d9457f4704559e884ace61812bd94750 5234 python3-mypy-extensions_0.4.1-1_all.deb Checksums-Sha256: 419dfa64852bd21af1e7d169811d4e1134280c658048daeabfafcf52b5454cf9 2174 python-mypy-extensions_0.4.1-1.dsc 92463705867e036d512c1ae3c3d7d76319ce520d65b03857397b8f7bb1be1888 3548 python-mypy-extensions_0.4.1.orig.tar.gz 39766709076c94cd12d3b258fe7080674426cc3b486f0bf8e158b793da31a8d5 2192 python-mypy-extensions_0.4.1-1.debian.tar.xz a1779f511e3e0f6c48d15e30bc0e3277605e65e115cb27ea1d3d5eb964cbe042 6298 python-mypy-extensions_0.4.1-1_amd64.buildinfo 9c9df8a568f3ab1e09242638ec86f2cd701c851c4a8546d81f42b2e4881df44b 5234 python3-mypy-extensions_0.4.1-1_all.deb Files: 902062bd7bc91810b11a9d26fedf21da 2174 utils optional python-mypy-extensions_0.4.1-1.dsc 501d531c046c6ed4423b585322f2e509 3548 utils optional python-mypy-extensions_0.4.1.orig.tar.gz 9b54f6fbe43874e8553f86ae250364e5 2192 utils optional python-mypy-extensions_0.4.1-1.debian.tar.xz 3e81eb40a228d4e5d24bc87b230f2009
Processed: ITP: arcp -- (Archive and Package) URI parser and generator
Processing commands for cont...@bugs.debian.org: > owner 915829 "Debian Med" Bug #915829 [wnpp] ITP: arcp -- (Archive and Package) URI parser and generator Owner changed from "Michael R. Crusoe" to "Debian Med" . > stop Stopping processing here. Please contact me if you need assistance. -- 915829: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=915829 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#914928: marked as done (ITP: python-typing-extensions -- Backported and Experimental Type Hints for Python)
Your message dated Mon, 03 Dec 2018 13:01:52 + with message-id and subject line Bug#914928: fixed in python-typing-extensions 3.6.6-1 has caused the Debian Bug report #914928, regarding ITP: python-typing-extensions -- Backported and Experimental Type Hints for Python 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.) -- 914928: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=914928 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team * Package name: python-typing-extensions Version : 3.6.6 Upstream Author : Guido van Rossum, Jukka Lehtosalo, Lukasz Langa, Michael Lee * URL : https://github.com/python/typing/blob/master/typing_extensions/README.rst * License : PSF Programming Lang: Python Description : Backported and Experimental Type Hints for Python The typing module was added to the standard library in Python 3.5 on a provisional basis and will no longer be provisional in Python 3.7. However, this means users of Python 3.5 - 3.6 who are unable to upgrade will not be able to take advantage of new types added to the typing module, such as typing.Text or typing.Coroutine. . The typing_extensions module contains both backports of these changes as well as experimental types that will eventually be added to the typing module, such as Protocol. . Users of other Python versions should continue to install and use the typing module from PyPi instead of using this one unless specifically writing code that must be compatible with multiple Python versions or requires experimental types. A dependency of the latest release of python-schema-salad. This package will be team-maintained by Debian Med --- End Message --- --- Begin Message --- Source: python-typing-extensions Source-Version: 3.6.6-1 We believe that the bug you reported is fixed in the latest version of python-typing-extensions, 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 914...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe (supplier of updated python-typing-extensions 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: SHA512 Format: 1.8 Date: Wed, 28 Nov 2018 11:16:19 -0800 Source: python-typing-extensions Binary: python3-typing-extensions Architecture: source all Version: 3.6.6-1 Distribution: unstable Urgency: medium Maintainer: Michael R. Crusoe Changed-By: Michael R. Crusoe Description: python3-typing-extensions - Backported and Experimental Type Hints for Python Closes: 914928 Changes: python-typing-extensions (3.6.6-1) unstable; urgency=medium . * New package (Closes: #914928) Checksums-Sha1: cc80133e32c6ff4ca2fd9ebdf436d49a4edf69e9 2119 python-typing-extensions_3.6.6-1.dsc 95c1ad71a67783dc2d1f58e44300a619c788c99d 32610 python-typing-extensions_3.6.6.orig.tar.gz c760ab1d2b28f49fa33160311213ce9345af6b42 2616 python-typing-extensions_3.6.6-1.debian.tar.xz a7c5401dfddf7ca3c8ecb379ce60b1d788e04c39 6236 python-typing-extensions_3.6.6-1_amd64.buildinfo cd37d590d1ff71c8983515e98bee4ede695bedf1 14104 python3-typing-extensions_3.6.6-1_all.deb Checksums-Sha256: 020a669e6711f65d56f558332fe0e259d9905adede03a19e8ddff4c3bff99042 2119 python-typing-extensions_3.6.6-1.dsc 51e7b7f3dcabf9ad22eed61490f3b8d23d9922af400fe6656cb08e66656b701f 32610 python-typing-extensions_3.6.6.orig.tar.gz 96528835f7006ba1948b21ede79fda41133e9324c76299febfc7ab9d3eacb7ca 2616 python-typing-extensions_3.6.6-1.debian.tar.xz 6366f0cc050ce1e51e9d54759c36159af2898222fa3ff9fee7c4cee88e2bb4ba 6236 python-typing-extensions_3.6.6-1_amd64.buildinfo 5c4ed54500b519f27d0b73f363f9ff16bd8e378d0603d84750bb020a8ea581f7 14104 python3-typing-extensions_3.6.6-1_all.deb Files: ee13e4fbf8817d8d6bb8098348cf6921 2119 python optional python-typing-extensions_3.6.6-1.dsc 9509b7ff9cbd479d195e61b04d70cd3a 32610 python optional python-typing-extensions_3.6.6.orig.tar.gz e4ba11d65347e9d512f9cd76f325339f 2616 python optional python-typing-extensions_3.6.6-1.debian.tar.xz 5694b5264183d9aef1f31805cb33fb63 6236 python optional python-typing-extensions_3.6.6
Bug#914991: marked as done (RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream)
Your message dated Sat, 01 Dec 2018 02:59:05 + with message-id and subject line Bug#914991: Removed package(s) from unstable has caused the Debian Bug report #914991, regarding RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream 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.) -- 914991: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=914991 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: ftp.debian.org Severity: normal Owner: Debian Med team Upstream report: https://github.com/samtools/htslib/issues/565 The provided workaround does not fix the issue and it has now been a year with no progress Thanks! --- End Message --- --- Begin Message --- We believe that the bug you reported is now fixed; the following package(s) have been removed from unstable: augustus | 3.3+dfsg-2 | hurd-i386 augustus | 3.3.2+dfsg-1 | i386, kfreebsd-i386 bio-eagle |2.4.1-1 | i386, kfreebsd-i386 delly |0.7.8-1 | hurd-i386, i386, kfreebsd-i386 grabix |0.1.7-1 | hurd-i386, i386, kfreebsd-i386 libhts-dev | 1.7-2 | hurd-i386, i386, kfreebsd-i386 libhts2 | 1.7-2 | hurd-i386, i386, kfreebsd-i386 libtabixpp-dev |1.0.0-4 | hurd-i386, i386, kfreebsd-i386 libtabixpp0 |1.0.0-4 | hurd-i386, i386, kfreebsd-i386 nanopolish | 0.10.2-1 | hurd-i386 nanopolish | 0.10.2-1+b1 | i386, kfreebsd-i386 qtltools | 1.1+dfsg-3 | kfreebsd-i386 qtltools | 1.1+dfsg-3+b1 | hurd-i386, i386 reapr | 1.0.18+dfsg-3+b1 | hurd-i386, kfreebsd-i386 reapr | 1.0.18+dfsg-4 | i386 sambamba |0.6.7-2 | i386 samtools | 1.7-2 | kfreebsd-i386 samtools | 1.7-2+b1 | hurd-i386, i386 segemehl | 0.3-1 | hurd-i386, i386, kfreebsd-i386 sga | 0.10.14-2 | hurd-i386, kfreebsd-i386 stacks | 1.38-1 | hurd-i386 stacks | 2.2+dfsg-1 | i386, kfreebsd-i386 tabix | 1.7-2 | hurd-i386, i386, kfreebsd-i386 --- Reason --- ANAIS; ROM; *i386 no longer supported upstream for htslib -- Note that the package(s) have simply been removed from the tag database and may (or may not) still be in the pool; this is not a bug. The package(s) will be physically removed automatically when no suite references them (and in the case of source, when no binary references it). Please also remember that the changes have been done on the master archive and will not propagate to any mirrors until the next dinstall run at the earliest. Packages are usually not removed from testing by hand. Testing tracks unstable and will automatically remove packages which were removed from unstable when removing them from testing causes no dependency problems. The release team can force a removal from testing if it is really needed, please contact them if this should be the case. Bugs which have been reported against this package are not automatically removed from the Bug Tracking System. Please check all open bugs and close them or re-assign them to another package if the removed package was superseded by another one. The version of this package that was in Debian prior to this removal can still be found using http://snapshot.debian.org/. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 914...@bugs.debian.org. The full log for this bug can be viewed at https://bugs.debian.org/914991 This message was generated automatically; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org. Debian distribution maintenance software pp. Scott Kitterman (the ftpmaster behind the curtain)--- End Message ---
Processed: retitle 914991 to RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream ...
Processing commands for cont...@bugs.debian.org: > retitle 914991 RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 > no longer supported upstream Bug #914991 [ftp.debian.org] RM: testing/htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM *i386 no longer supported upstream Changed Bug title to 'RM: htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM; *i386 no longer supported upstream' from 'RM: testing/htslib [i386 hurd-i386 kfreebsd-i386] -- ANAIS; ROM *i386 no longer supported upstream'. > retitle 915000 RM: dico [armel] -- RoQA; guile-2.2 is not available on armel Bug #915000 [ftp.debian.org] RM: dico [armel] guile-2.2 is not available on armel Changed Bug title to 'RM: dico [armel] -- RoQA; guile-2.2 is not available on armel' from 'RM: dico [armel] guile-2.2 is not available on armel'. > severity 910587 normal Bug #910587 [ftp.debian.org] override: hunspell-eu-es:oldlibs/optional Severity set to 'normal' from 'minor' > thanks Stopping processing here. Please contact me if you need assistance. -- 910587: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=910587 914991: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=914991 915000: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=915000 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#911076: marked as done (ITP: libdeflate -- fast, whole-buffer DEFLATE-based compression and decompression)
Your message dated Thu, 22 Nov 2018 13:00:24 + with message-id and subject line Bug#911076: fixed in libdeflate 1.0-1 has caused the Debian Bug report #911076, regarding ITP: libdeflate -- fast, whole-buffer DEFLATE-based compression and decompression 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.) -- 911076: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=911076 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team * Package name: libdeflate Version : 1.0 Upstream Author : Eric Biggers * URL : https://github.com/ebiggers/libdeflate * License : MIT Programming Lang: C Description : fast, whole-buffer DEFLATE-based compression and decompression The supported formats are: . DEFLATE (raw) zlib (a.k.a. DEFLATE with a zlib wrapper) gzip (a.k.a. DEFLATE with a gzip wrapper) libdeflate is heavily optimized. It is significantly faster than the zlib library, both for compression and decompression, and especially on x86 processors. In addition, libdeflate provides optional high compression modes that provide a better compression ratio than the zlib's "level 9". libdeflate is a recommended dependency of htslib and will be team-maintained by Debian Med --- End Message --- --- Begin Message --- Source: libdeflate Source-Version: 1.0-1 We believe that the bug you reported is fixed in the latest version of libdeflate, 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 911...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe (supplier of updated libdeflate 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, 15 Oct 2018 01:59:04 -0700 Source: libdeflate Binary: libdeflate0 libdeflate-dev Architecture: source amd64 Version: 1.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libdeflate-dev - headers for whole-buffer compression and decompression library libdeflate0 - fast, whole-buffer DEFLATE-based compression and decompression Closes: 911076 Changes: libdeflate (1.0-1) unstable; urgency=medium . * Initial release (Closes: #911076) Checksums-Sha1: 1a49a619cb34df4909043dc1f6cc7db07df449b8 2002 libdeflate_1.0-1.dsc 17da81b2a058906f087e797fc69399c606a2c011 123677 libdeflate_1.0.orig.tar.gz cf0795a58d3a9da84a1bc224be86a59471907489 2760 libdeflate_1.0-1.debian.tar.xz 5cc168a7f3a88843bfece216151995762caba414 33872 libdeflate-dev_1.0-1_amd64.deb 19d8c30fed7c2a55ed1cd697f65ffd5812e2f495 80576 libdeflate0-dbgsym_1.0-1_amd64.deb eacfc5d13741400dedfa0e96aec3aa28512756df 30040 libdeflate0_1.0-1_amd64.deb ea881d3249a652e060bb0a1bc6230f0c6b076b5b 6699 libdeflate_1.0-1_amd64.buildinfo Checksums-Sha256: 179e6f2cd0007879ece4a9fce6a35ff0b82d22c0f7de248d765dce535554d48e 2002 libdeflate_1.0-1.dsc 6477a42d59b8c3fedda9d09b25e7ddfb71524c0029553c2a030e9d6887618a59 123677 libdeflate_1.0.orig.tar.gz f5814b0adedb86193ff3a85b43a0b6fb5951c347ec2db2b28020bb68586a9bfa 2760 libdeflate_1.0-1.debian.tar.xz 46b637e9d7d6d31267df3d6d1ecaf3e89addb81626f5d7eb592a58a8afa70d72 33872 libdeflate-dev_1.0-1_amd64.deb 5446d05055545f842e731de0d1b74ceed7b72934a8e8f59dc03755fb56f4b6fa 80576 libdeflate0-dbgsym_1.0-1_amd64.deb b4343334d802236a4836d351ba94dde5d83a966769c7e56dd611e91f5b8a177f 30040 libdeflate0_1.0-1_amd64.deb 68d86d6b313882b4b1371848bc8546b35d3ba2a8d2ca8306af38a608fe089973 6699 libdeflate_1.0-1_amd64.buildinfo Files: 494e2e9538ddec188d502dd30b362a7d 2002 science optional libdeflate_1.0-1.dsc e5d840308d3f5935f8a90c53226bf028 123677 science optional libdeflate_1.0.orig.tar.gz 6d8723f937549d0ddd76287583a955d1 2760 science optional libdeflate_1.0-1.debian.tar.xz c844134491608c909924da20849570cd 33872 libdevel optional libdeflate-dev_1.0-1_amd64.deb b359fc9dfd945c43a134093ad2a953c6 80576 debug optional libdeflate0-dbgsym_1.0-1_amd64.deb e2d9f3bc74edd41038f181729ddd35f7 30040 libs optional libdeflate0_1.0-1_amd64.deb 0c520e267bfef94068083682c5088cea 6699 science optional libdeflate_1.0-1_amd64
Bug#872622: marked as done (ITP: bandage -- Bioinformatics Application for Navigating De novo Assembly Graphs Easily)
Your message dated Fri, 09 Nov 2018 14:10:47 + with message-id and subject line Bug#872622: fixed in bandage 0.8.1-1 has caused the Debian Bug report #872622, regarding ITP: bandage -- Bioinformatics Application for Navigating De novo Assembly Graphs Easily 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.) -- 872622: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=872622 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med * Package name: bandage Version : 0.8.1 Upstream Author : Ryan R. Wick * URL : https://github.com/rrwick/Bandage/ * License : GPL3 Programming Lang: C++ Description : Bioinformatics Application for Navigating De novo Assembly Graphs Easily Bandage is a GUI program that allows users to interact with the assembly graphs made by de novo assemblers such as Velvet, SPAdes, MEGAHIT and others. De novo assembly graphs contain not only assembled contigs but also the connections between those contigs, which were previously not easily accessible. Bandage visualises assembly graphs, with connections, using graph layout algorithms. Nodes in the drawn graph, which represent contigs, can be automatically labelled with their ID, length or depth. Users can interact with the graph by moving, labelling and colouring nodes. Sequence information can also be extracted directly from the graph viewer. By displaying connections between contigs, Bandage opens up new possibilities for analysing and improving de novo assemblies that are not possible by looking at contigs alone. More information and download links are on the Bandage website: rrwick.github.io/Bandage The package is relevant to the field of genome assembly and will be maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: bandage Source-Version: 0.8.1-1 We believe that the bug you reported is fixed in the latest version of bandage, 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 872...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille (supplier of updated bandage 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, 27 Aug 2018 11:41:01 +0200 Source: bandage Binary: bandage Architecture: source amd64 Version: 0.8.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: bandage- Bioinformatics Application for Navigating De novo Assembly Graphs Closes: 872622 Changes: bandage (0.8.1-1) unstable; urgency=medium . * Initial release (Closes: #872622) Checksums-Sha1: bbd56ff7da51752cc88b5fccf21ab2bc5d653698 1990 bandage_0.8.1-1.dsc 1485c2c1c3362f4fa6fb9e19cbde0993102e84d0 4798954 bandage_0.8.1.orig.tar.gz 20daf9b7ef665f4f19c697737c604ba616937e60 6256 bandage_0.8.1-1.debian.tar.xz 96b18711d697d87c9199d2ff1f4056c845df71f1 14413056 bandage-dbgsym_0.8.1-1_amd64.deb e13f6688a9c44eb2297f55c6094d1ba9c7c489f6 10210 bandage_0.8.1-1_amd64.buildinfo 25a62928fad27576b84ab23f2508d855fd36de0f 947342 bandage_0.8.1-1_amd64.deb Checksums-Sha256: b5cfdab7873e6572b569fe819d87074e65d647bda17e486714e93bcc402801e6 1990 bandage_0.8.1-1.dsc f160b695e03f0b254ffdccfa35b45dc8a733e8161d9928441edb8b63c8e44452 4798954 bandage_0.8.1.orig.tar.gz cf20aee474ef5220dbf5dafc3aee0165d17e5fc08d87f2a7ae7675672f5169a5 6256 bandage_0.8.1-1.debian.tar.xz 7084cd292d8406297557e945cc13e67e5d69f000ec4afe8f9e6f3150fa7443cc 14413056 bandage-dbgsym_0.8.1-1_amd64.deb 757f968787994c9de54bf22916e11be94829f03921e6e61d8133d021c57e6c46 10210 bandage_0.8.1-1_amd64.buildinfo fadf02fc897e2319bc1326a322a0f8e26d7f2ebf6796bf82193ff389c378ce8a 947342 bandage_0.8.1-1_amd64.deb Files: 01c45781a216c537e3afb69b104b3f16 1990 science optional bandage_0.8.1-1.dsc 5a192ce1c6a6f47f686fd305426d8d2f 4798954 science optional bandage_0.8.1.orig.tar.gz 2435964ed73dc86e2d8deacb58ed9fa8 6256 science optional bandage_0.8.1-1.debian.tar.xz 79153fdf77f4c83f26e2c634a827a3ec 14413056 debug optional bandage-dbgsym_0.8.1-1_amd64.deb aaf29d25546e0b00c2f79329a4b3528d 10210
Bug#890112: marked as done (ITP: porechop -- adapter trimmer for Oxford Nanopore reads)
Your message dated Thu, 06 Sep 2018 09:00:13 + with message-id and subject line Bug#890112: fixed in porechop 0.2.3+dfsg-1 has caused the Debian Bug report #890112, regarding ITP: porechop -- adapter trimmer for Oxford Nanopore reads 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.) -- 890112: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890112 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med * Package name: porechop Version : 0.2.3 Upstream Author : Ryan R. Wick * URL : https://github.com/rrwick/Porechop * License : GPL3 Programming Lang: C++ Description : adapter trimmer for Oxford Nanopore reads Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads. Porechop performs thorough alignments to effectively find adapters, even at low sequence identity. Porechop also supports demultiplexing of Nanopore reads that were barcoded with the Native Barcoding Kit, PCR Barcoding Kit or Rapid Barcoding Kit. More information and download links are on the Porechope repo: https://github.com/rrwick/Porechop The package is relevant to the field of genome assembly and will be maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: porechop Source-Version: 0.2.3+dfsg-1 We believe that the bug you reported is fixed in the latest version of porechop, 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 890...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille (supplier of updated porechop 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, 27 Aug 2018 10:53:28 +0200 Source: porechop Binary: porechop Architecture: source amd64 Version: 0.2.3+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: porechop - adapter trimmer for Oxford Nanopore reads Closes: 890112 Changes: porechop (0.2.3+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #890112) Checksums-Sha1: 57007ea3e71a9bd0bc528b4fd3a520f0ac81ed02 2071 porechop_0.2.3+dfsg-1.dsc d316a5b1f83d52bd6b4becea0fd91aaa2e1dc959 724712 porechop_0.2.3+dfsg.orig.tar.xz 8a4ccc3eee799664a9664dc0d6b5515b28062c4b 4960 porechop_0.2.3+dfsg-1.debian.tar.xz 6a030f7e7cd2d693cfb4189f0146c16cf271abc1 412550 porechop-dbgsym_0.2.3+dfsg-1_amd64.deb 850b08025cc3202a2db25162958c3fd06e7a6697 6834 porechop_0.2.3+dfsg-1_amd64.buildinfo d36f817a0697722ac4407cf7bc006fde26498733 47696 porechop_0.2.3+dfsg-1_amd64.deb Checksums-Sha256: f4b6295920a080d56b98e80143debecc874bc4d0bdfc7b54dd25320ec7ccf5e0 2071 porechop_0.2.3+dfsg-1.dsc 221a89900f5e8f83eca3d88d219c7ac6c42f300ac4576d78281ef89adcda76df 724712 porechop_0.2.3+dfsg.orig.tar.xz 5d9eed0808d210a88255e9f4689235c134d43bf2ea8777e4b5767f42f9a0 4960 porechop_0.2.3+dfsg-1.debian.tar.xz ec1a1c9ee10d67e81eb0c254f923ac4679df407c30aa8e9cef2a721ba1d9ea9b 412550 porechop-dbgsym_0.2.3+dfsg-1_amd64.deb d37d50d5b945ccd851533fb8c2cbc26903156125ac0075829d877fec1b47751f 6834 porechop_0.2.3+dfsg-1_amd64.buildinfo e3ea2eaf1c01dfbda1962686e128bdaecda31652ed959375724003b227aa9d7c 47696 porechop_0.2.3+dfsg-1_amd64.deb Files: e9816fe57a71bb02fa3a7d12209e8252 2071 science optional porechop_0.2.3+dfsg-1.dsc 6022a271e30ba1b84fb6b123aef9ac85 724712 science optional porechop_0.2.3+dfsg.orig.tar.xz f41e50acf6fbef835fa47f1f2535dd82 4960 science optional porechop_0.2.3+dfsg-1.debian.tar.xz c6280df3aa75c753fa5eda636b676089 412550 debug optional porechop-dbgsym_0.2.3+dfsg-1_amd64.deb 21c1f2885219a3c293df24219570ca6c 6834 science optional porechop_0.2.3+dfsg-1_amd64.buildinfo 5d826d117af29f4ee88be78a436aa97d 47696 science optional porechop_0.2.3+dfsg-1_amd64.deb -BEGIN PGP SIGNATURE- iQJEBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAluDvJURHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGP8A/3Xya2mf1DYlAiH7NPRDLnb96MDiBypqlT
Bug#890187: marked as done (ITP: racon -- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads)
Your message dated Fri, 03 Aug 2018 14:10:37 + with message-id and subject line Bug#890187: fixed in racon 1.3.1-1 has caused the Debian Bug report #890187, regarding ITP: racon -- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads 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.) -- 890187: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890187 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med * Package name: racon Version : 0.5.0 Upstream Author : Ivan Sovic * URL : https://github.com/isovic/racon/ * License : MIT Programming Lang: C++, Python Description : Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads Racon is intended as a standalone consensus module to correct raw contigs generated by rapid assembly methods which do not include a consensus step, such as Miniasm. The goal of Racon is to generate genomic consensus which is of similar or better quality compared to the output generated by assembly methods which employ both error correction and consensus steps, while providing a speedup of several times compared to those methods. More information and download links are on the racon repository: https://github.com/isovic/racon The package is relevant to the field of genome assembly and will be maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: racon Source-Version: 1.3.1-1 We believe that the bug you reported is fixed in the latest version of racon, 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 890...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille (supplier of updated racon 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, 10 Jun 2018 11:21:59 +0200 Source: racon Binary: racon Architecture: source amd64 Version: 1.3.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: racon - consensus module for raw de novo DNA assembly of long uncorrected Closes: 890187 Changes: racon (1.3.1-1) unstable; urgency=medium . * Initial release (Closes: #890187) Checksums-Sha1: f80318373dc9552d8044b2eacc467fad544b104a 2033 racon_1.3.1-1.dsc 9861e01019da3d84f4062924e5c58cca8786aa58 3066673 racon_1.3.1.orig.tar.gz e20b98eb72ef2bdb1423836378a6269689324df9 4236 racon_1.3.1-1.debian.tar.xz ab173a8ef8d072be2d86ce3527eb83f6b7b7fe76 682574 racon-dbgsym_1.3.1-1_amd64.deb 5045db0597a0e91465ec6c0cc52149b0a289e8f8 7014 racon_1.3.1-1_amd64.buildinfo 5e5990958a0edd64add1c51b7158672d36151c33 51388 racon_1.3.1-1_amd64.deb Checksums-Sha256: afca64d14011f65ff59a6895a13a702fa4f0c7d93685e59540e1634558446927 2033 racon_1.3.1-1.dsc cd8855940b494cd88fb201869a952a92473c8fdd553274952baee96c46c65ed1 3066673 racon_1.3.1.orig.tar.gz 69d58b2bbda3ecdef1664258d56668b049b74b430aac69ca069da1bca3ae1c3a 4236 racon_1.3.1-1.debian.tar.xz 1ac6cac068f4999ec927083d46548537e86959e85ba3b63b3492d750c15fe52b 682574 racon-dbgsym_1.3.1-1_amd64.deb 2d6dce51913483278cc5a42960e9c08a1e09be7c7af554c3d00d554ed07fb6ed 7014 racon_1.3.1-1_amd64.buildinfo bb159c9c23040a048bd5d37324c637d46b46049cbc1a5aab5b9b47ea09e43803 51388 racon_1.3.1-1_amd64.deb Files: cc6c8faebce8b51a7b55ce088396062e 2033 science optional racon_1.3.1-1.dsc 4ec9962ae2b1389af3ddbfe1d846458e 3066673 science optional racon_1.3.1.orig.tar.gz 7033db55de2cd1ab3e0f0ceaf9a45d30 4236 science optional racon_1.3.1-1.debian.tar.xz ec9d0285137d252c3ade68bf7907df14 682574 debug optional racon-dbgsym_1.3.1-1_amd64.deb 68b3e8e2daeaeefa3ff4e4cb9bde6954 7014 science optional racon_1.3.1-1_amd64.buildinfo daa70562f523e263e52dc27208e57028 51388 science optional racon_1.3.1-1_amd64.deb -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlsc8V4RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHimw/+Kgl0PcR145ETR0ycwBHgQca9drYeMnTs OYl1Bpy1PIPLPOa0qfcSa/8UWMD27m7aP+QEnwwLiwgU4/0LIgMzwNWmWf08sdtM oWr3HFN7XQkNHRLR8dj+zXV+/T7kNVkeV6Il/exUEI94cD7wAXbGOhB5h1MGy9aa k3fABaC9
Bug#900752: marked as done (ITP: genometester -- toolkit for performing set operations on k-mer lists)
Your message dated Sat, 09 Jun 2018 21:00:11 + with message-id and subject line Bug#900752: fixed in genometester 4.0-1 has caused the Debian Bug report #900752, regarding ITP: genometester -- toolkit for performing set operations on k-mer lists 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.) -- 900752: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=900752 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Liubov Chuprikova * Package name: genometester Version : 4.0 Upstream Author : University of Tartu * URL : https://github.com/bioinfo-ut/GenomeTester4 * License : GPL-3+ Programming Lang: C Description : toolkit for performing set operations on k-mer lists Toolkit for performing set operations - union, intersection and complement - on k-mer lists. . GenomeTester4 toolkit, which contains a novel tool GListCompare for performing union, intersection and complement (difference) set operations on k-mer lists. It contains examples of how these general operations can be combined to solve a variety of biological analysis tasks. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/genometester --- End Message --- --- Begin Message --- Source: genometester Source-Version: 4.0-1 We believe that the bug you reported is fixed in the latest version of genometester, 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 900...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Liubov Chuprikova (supplier of updated genometester 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, 04 Jun 2018 16:33:48 +0200 Source: genometester Binary: genometester Architecture: source amd64 Version: 4.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Liubov Chuprikova Description: genometester - toolkit for performing set operations on k-mer lists Closes: 900752 Changes: genometester (4.0-1) unstable; urgency=medium . * Initial release (Closes: #900752) * Add manpages * Add autopkgtest Checksums-Sha1: 0ae7d499d84450e110146023789e935cc69dcd48 2039 genometester_4.0-1.dsc c239c5a029757efd30bf897e945fc3c9f611016a 234779 genometester_4.0.orig.tar.gz 02d7c14fde357013f0026c88c8227094fcc56e8b 231984 genometester_4.0-1.debian.tar.xz c47bb5594274d4fea5a13f3df93ad69d89200afc 238146 genometester-dbgsym_4.0-1_amd64.deb 4a86286fd0460f421668c11dc314d94bac12be88 5812 genometester_4.0-1_amd64.buildinfo f118e2552e71b108f512e55367f670d8236526ce 305912 genometester_4.0-1_amd64.deb Checksums-Sha256: b072d613596f7b257c1df417a6737e2c5b7b91eb5ecdceef48c5b67a01b50ff1 2039 genometester_4.0-1.dsc 1849c4c6f2e6542679aa1831fa39d5be99786488309a3d2e674aa0b60dbe4863 234779 genometester_4.0.orig.tar.gz a113acf287d25d6db8dbb1900d1dca58ad69c7d77452fd0e6c2fc5154fed7d78 231984 genometester_4.0-1.debian.tar.xz 44fefc7daf2bca9b02dfb7be3687b3bdbe8e79708748c577e4e19ec6c4864e52 238146 genometester-dbgsym_4.0-1_amd64.deb 4efd820b1b4032941940f01fa10f06a118b0a8d7a4f3b3a5a891a81e1885c2a4 5812 genometester_4.0-1_amd64.buildinfo 6bfc3bfb685823776b84be6408e8add816793bf24dfc8fb38a583358ea971701 305912 genometester_4.0-1_amd64.deb Files: 03a7273934c869b0a80eab2f14a9e702 2039 science optional genometester_4.0-1.dsc c8f03b7f0e3ec1e2db4c390a28b050c5 234779 science optional genometester_4.0.orig.tar.gz 294791b60fb276790e38bcc0e42995bd 231984 science optional genometester_4.0-1.debian.tar.xz ec61a4a0347f3dab4f115ba211df7197 238146 debug optional genometester-dbgsym_4.0-1_amd64.deb d8cff23d6b4a7ee1001ec401f2d82edf 5812 science optional genometester_4.0-1_amd64.buildinfo 8dfc4ef0f0c60095bebffa0a2a1ec3f8 305912 science optional genometester_4.0-1_amd64.deb -BEGIN PGP SIGNATURE- iQJCBAEBCAAsFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlsX3B4OHHRpbGxlYUBy a2kuZGUACgkQV4oElNHGRtEwpg/+IK51Q2IesrowkATegeBlJ+xCvsVSN6Qw33gt UErtmr7/7gGLKd0Aamvsl06eJkNAYByEO/LwJywG+0EezbneRfglJtwT/yoMOxQK rdBzpuZPyFe8QxJ3037vlCNXva5NLnVZtD40clUy+2NvIoFVKaZruceCLDhShI80
Processed: Bug#900752: ITP: genometester -- toolkit for performing set operations on k-mer lists
Processing commands for cont...@bugs.debian.org: > owner 900752 Debian Med Bug #900752 [wnpp] ITP: genometester -- toolkit for performing set operations on k-mer lists Owner changed from Liubov Chuprikova to Debian Med . > End of message, stopping processing here. Please contact me if you need assistance. -- 900752: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=900752 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#873044: marked as done (ITP: gatb-core -- The Genome Analysis Toolbox with de-Bruijn graph)
Your message dated Mon, 04 Jun 2018 10:00:11 + with message-id and subject line Bug#873044: fixed in gatb-core 1.4.1+dfsg-1 has caused the Debian Bug report #873044, regarding ITP: gatb-core -- The Genome Analysis Toolbox with de-Bruijn graph 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.) -- 873044: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=873044 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med * Package name : gatb-core Version : 1.3.0 * URL : https://github.com/GATB/gatb-core * License : GPL3 Programming Lang: C++ Description : The Genome Analysis Toolbox with de-Bruijn graph The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ The package is relevant to the field of NGS analysis and will be maintained by the Debian Med Team. --- End Message --- --- Begin Message --- Source: gatb-core Source-Version: 1.4.1+dfsg-1 We believe that the bug you reported is fixed in the latest version of gatb-core, 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 873...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille (supplier of updated gatb-core 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: SHA512 Format: 1.8 Date: Mon, 14 May 2018 21:57:34 +0200 Source: gatb-core Binary: gatb-core libgatbcore0 libgatbcore-dev gatb-core-testdata Architecture: source amd64 all Version: 1.4.1+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: gatb-core - Genome Analysis Toolbox with de-Bruijn graph gatb-core-testdata - Genome Analysis Toolbox with de-Bruijn graph (test data) libgatbcore-dev - development library of the Genome Analysis Toolbox libgatbcore0 - dynamic library of the Genome Analysis Toolbox Closes: 873044 Changes: gatb-core (1.4.1+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #873044) Checksums-Sha1: 302fe252b6d2641ea9f8325d0edb6a450415779d 2312 gatb-core_1.4.1+dfsg-1.dsc 6b368683411cce9639189ad28340bba1303d38ab 2938536 gatb-core_1.4.1+dfsg.orig.tar.xz 77cdc38db1d580fd68a22ee1b4dbb7435b6c368f 19148 gatb-core_1.4.1+dfsg-1.debian.tar.xz 192e519af5a168f81e96d991ade0394b7dac1d49 72088136 gatb-core-dbgsym_1.4.1+dfsg-1_amd64.deb 648c968040a5e42cc0eaa37094e4533268aa0dff 1793972 gatb-core-testdata_1.4.1+dfsg-1_all.deb 6d71508fa9fa9ebefa981c450e81f04cfa61c99d 10186 gatb-core_1.4.1+dfsg-1_amd64.buildinfo 92e056a2a02d1e5083f7e18c1332164af98407b1 3443700 gatb-core_1.4.1+dfsg-1_amd64.deb 5ae54e8bbb077f290606bc049d372ce691641bc8 3671512 libgatbcore-dev_1.4.1+dfsg-1_amd64.deb a8a11b685ce9f3014fb54dcee6141632ab40ae64 40306604 libgatbcore0-dbgsym_1.4.1+dfsg-1_amd64.deb 1719aba827a02ebb24c22db31ee7bbe9a4acc8e9 1662520 libgatbcore0_1.4.1+dfsg-1_amd64.deb Checksums-Sha256: be91f132441d69533083189b36da2335c32caf9a9c3a9f1b977da6488aac0120 2312 gatb-core_1.4.1+dfsg-1.dsc 40ef74dcacf9a4bb0f55b06cd8cf41ac37cc6e45743880a4255047cbf2e64be2 2938536 gatb-core_1.4.1+dfsg.orig.tar.xz 345c057ca45eab7917da05434ebf29169fe85daea03ca5f7bddc3ac72acfc0e6 19148 gatb-core_1.4.1+dfsg-1.debian.tar.xz 6268f5c106cb3495708ce94ca5725ed26ab4e1b8cfb9c733bcdc4c1e310f74ca 72088136 gatb-core-dbgsym_1.4.1+dfsg-1_amd64.deb 79a3b73052420ad95d5fe3232ea213ddda143c36233d311a11ab9909fc285631 1793972 gatb-core-testdata_1.4.1+dfsg-1_all.deb 0248197e18bbbdb97adecffe478b9ddcbb18b49d41f3ba0d17cc435b574d4d40 10186 gatb-core_1.4.1+dfsg-1_amd64.buildinfo
Processed: retitle to RFP: emperor -- analysis and visualization of large microbial ecology datasets
Processing commands for cont...@bugs.debian.org: > retitle 843022 RFP: emperor -- analysis and visualization of large microbial > ecology datasets Bug #843022 [wnpp] ITP: emperor -- analysis and visualization of large microbial ecology datasets Changed Bug title to 'RFP: emperor -- analysis and visualization of large microbial ecology datasets' from 'ITP: emperor -- analysis and visualization of large microbial ecology datasets'. > noowner 843022 Bug #843022 [wnpp] RFP: emperor -- analysis and visualization of large microbial ecology datasets Removed annotation that Bug was owned by "Kerim ÖLÇER" <debian-med@lists.debian.org>. > stop Stopping processing here. Please contact me if you need assistance. -- 843022: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=843022 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#890752: marked as done (ITP: ctdopts -- Gives your Python tools a CTD-compatible interface)
Your message dated Thu, 22 Feb 2018 09:00:11 + with message-id <e1eomjb-00010l...@fasolo.debian.org> and subject line Bug#890752: fixed in ctdopts 1.2-1 has caused the Debian Bug report #890752, regarding ITP: ctdopts -- Gives your Python tools a CTD-compatible interface 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.) -- 890752: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890752 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: ctdopts Version : 1.2 Upstream Author : Andras Szolek et al. * URL : https://github.com/WorkflowConversion/CTDopts * License : GPL-3+ Programming Lang: Python Description : Gives your Python tools a CTD-compatible interface Common Tool Descriptors (CTDs) are XML documents that represent the inputs, outputs, parameters of command line tools in a platform-independent way. CTDopts is a module for enabling tools with CTD reading/writing, argument parsing, validating and manipulating capabilities. Needed for CTDConverter to convert CTD to CWL (and Galaxy) as part of including CWL descriptions in the seqan-apps, openms/topp, flexbar, and lambda-align packages Will be team-maintained by Debian Med --- End Message --- --- Begin Message --- Source: ctdopts Source-Version: 1.2-1 We believe that the bug you reported is fixed in the latest version of ctdopts, 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 890...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated ctdopts 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 Feb 2018 03:30:59 -0800 Source: ctdopts Binary: python3-ctdopts Architecture: source all Version: 1.2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: python3-ctdopts - Gives your Python tools a CTD-compatible interface Closes: 890752 Changes: ctdopts (1.2-1) unstable; urgency=medium . * Initial release. (Closes: #890752) Checksums-Sha1: 45e8d2d2e2122e51d08012875c0dec19d825a6cf 2035 ctdopts_1.2-1.dsc 02c306f6e08fba97a5325cb6bb3a25e039ac8d2d 33461 ctdopts_1.2.orig.tar.gz 0c9d83630adc92040d8ea408034378c10fda42c3 2172 ctdopts_1.2-1.debian.tar.xz 9a1d1c2242cf28598c5fe81f1d098ed876e2f171 5936 ctdopts_1.2-1_amd64.buildinfo a6b3ee59839c0a5e80f7d2d67605cacb2f1eb59c 17122 python3-ctdopts_1.2-1_all.deb Checksums-Sha256: 45ba81ce05a694c5f54d22d0ba58a226d6be2427432ee3fc9b37f9c0eabccb8b 2035 ctdopts_1.2-1.dsc 85d7a77bc781509eb31657cb0b0ffecfd8f8b0161aacd22ff3ad1395eb4b136b 33461 ctdopts_1.2.orig.tar.gz 2fbbc1b6a97f4736e5d4c1e39768f083e99b7ae8a2e28c22d38be50348d63684 2172 ctdopts_1.2-1.debian.tar.xz ed6bbc0cd6a0d15e71e12c9943b41cf651b088744116911a406112bf34df0b41 5936 ctdopts_1.2-1_amd64.buildinfo d9d5f1fc678fc1cde3881c973eee66b7ecca41ad87b6d7eb59225e7cf664a875 17122 python3-ctdopts_1.2-1_all.deb Files: f9c895624ebbf991a534f5f3e1237015 2035 python optional ctdopts_1.2-1.dsc 4434506326994623fb567d66d66bf9c4 33461 python optional ctdopts_1.2.orig.tar.gz 6d23ff97e41c4f75638f19606cb934d9 2172 python optional ctdopts_1.2-1.debian.tar.xz baba72f177b8c4cbc7ae13b2bd6552cc 5936 python optional ctdopts_1.2-1_amd64.buildinfo 0b045de5641238b95ff51e4eee8f5f33 17122 python optional python3-ctdopts_1.2-1_all.deb -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlqOcHMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFXMhAAlhw0RaXgECVNJStfi+59ipOp5o50UZcE 6fbrhMQkEtltXbuze5ucRNsvq36sA7+2SeFlFT2htmq/LDFc4a+7IMcx2fNrLe7F og2pkcciu4lSMzks9RpHJFlvMGLqbBEL2deD9/Y0MdQz05IXQSfc9K/fBO1i945Q SeUsjbM5MRHBxmCEhqKhBz3dWV34X11NjBf91lmGOaUCi+eV4X6/GINN6qJctUu0 BCc2luVkOovMMJyedHnH1XozWNq2wQtxIakGBS3CuZWSyrKt5q8K2eKqeB4KJrO9 +Zu8dvsGXL9GYhSyXZCyApMKqeoMXJ93YyQO82PCqYNJTmQs9BZ0j8juq9W1yKxr 1jvxhedDNQz/9cG2CnDSdKIp+Tb/zDwbDU
Bug#890755: marked as done (ITP: ctdconverter -- Convert CTD files into Galaxy tool and CWL CommandLineTool files)
Your message dated Mon, 19 Feb 2018 11:01:30 + with message-id <e1enjcm-wv...@fasolo.debian.org> and subject line Bug#890755: fixed in ctdconverter 2.0-1 has caused the Debian Bug report #890755, regarding ITP: ctdconverter -- Convert CTD files into Galaxy tool and CWL CommandLineTool files 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.) -- 890755: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890755 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: ctdconverter Version : 2.0 Upstream Author : WorkflowConversion * URL : https://github.com/WorkflowConversion/CTDConverter/ * License : GPL-3 / Apache-2.0 Programming Lang: Python Description : Convert CTD files into Galaxy tool and CWL CommandLineTool files Common Tool Descriptors (CTDs) are XML documents that represent the inputs, outputs, parameters of command line tools in a platform-independent way. CTDConverter, given one or more Common Tool Descriptors (CTD) XML files, generates Galaxy tool wrappers and Common Workflow Language (CWL) Command Line Tool v1.0 standard descriptions from CTD files. Will assist in including CWL descriptions in the seqan-apps, openms/topp, flexbar, and lambda-align packages Will be team-maintained by Debian Med --- End Message --- --- Begin Message --- Source: ctdconverter Source-Version: 2.0-1 We believe that the bug you reported is fixed in the latest version of ctdconverter, 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 890...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated ctdconverter 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 Feb 2018 02:17:55 -0800 Source: ctdconverter Binary: ctdconverter Architecture: source all Version: 2.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: ctdconverter - Convert CTD files into Galaxy tool and CWL CommandLineTool files Closes: 890755 Changes: ctdconverter (2.0-1) unstable; urgency=medium . * Initial release. (Closes: #890755) Checksums-Sha1: f6e5d7f45fb008532b5296e4cedc557a3dd8b48f 2137 ctdconverter_2.0-1.dsc 55edbbcacf3e8b0289bf000a9eec31261563c9fc 38060 ctdconverter_2.0.orig.tar.gz f06b881461a37f88aad41f3af5214f409b9f3f8a 5880 ctdconverter_2.0-1.debian.tar.xz 3cc165cffee6a19cbc48c2abaa4784b71dd9bbfd 26842 ctdconverter_2.0-1_all.deb f69e0b3386e355172cf121d5952f2479db1a291c 6148 ctdconverter_2.0-1_amd64.buildinfo Checksums-Sha256: 2af3f475c52940a62b37bfe228a950fa833496c56c2ef504c58b5cd79aa21b9c 2137 ctdconverter_2.0-1.dsc 2c7ca72b160b668ea5baf258279e2a7760edcf0cf562d4d47579d64840ce8ab3 38060 ctdconverter_2.0.orig.tar.gz 6f593092656305dc46fb7265207f46d7209f73759d87709df27287cc3e53808f 5880 ctdconverter_2.0-1.debian.tar.xz cbd26e0944a80f94d9e3e09f8f5403d024bcfa337ad4c7e5b8a0ff9dce942563 26842 ctdconverter_2.0-1_all.deb 40affc5e1e4fc1d5b5fc85b85da236efa93059f66f4f93a26d04fe3e4bc05475 6148 ctdconverter_2.0-1_amd64.buildinfo Files: dfae7ed9235d00655247dbc4a954a57d 2137 science optional ctdconverter_2.0-1.dsc 72c8c33317ba8c7757564952064b589e 38060 science optional ctdconverter_2.0.orig.tar.gz d4efb88ece331579f07f91ba5c99810d 5880 science optional ctdconverter_2.0-1.debian.tar.xz 98fee3652a709f5b9a268819a6e171e1 26842 science optional ctdconverter_2.0-1_all.deb ae14bb7dbe10c5d3bb0d4dd68852139f 6148 science optional ctdconverter_2.0-1_amd64.buildinfo -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlqJllQRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtG0rw/8DIxSXDLx3CJHSDPCTIc6N7j4oEvm/VdB aG6ZwL+XQLZAGNDPi+s2C5gh7rkRs94Z4TikzK9fLtTOmk/iSIFX2f9Mb4TBnHwb AA28c3BjGWDqpT8UAIfHksjsE9i0I6ErF8puVVe1eFrJvXlVzqxkvZQPsE8KvvbN LFd73gjm/BeYW/thzcCYTW4Qw9mYQIVZsCVO9LsxpBfx09Xs+saa3nLISPkd9ISz YvtO3ztmHWBTFz7/wyQcclouESIMPPu0d5
Processed: retitle to RFP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & other functional sequencing data
Processing commands for cont...@bugs.debian.org: > retitle 841047 RFP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & > other functional sequencing data Bug #841047 [wnpp] ITP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & other functional sequencing data Changed Bug title to 'RFP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & other functional sequencing data' from 'ITP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & other functional sequencing data'. > noowner 841047 Bug #841047 [wnpp] RFP: r-hms-dbmi-spp -- GNU R package for processing ChIP-seq & other functional sequencing data Removed annotation that Bug was owned by Debian Med team <debian-med@lists.debian.org>. > stop Stopping processing here. Please contact me if you need assistance. -- 841047: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=841047 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: retitle to RFP: cnvkit -- Copy number variant detection from targeted DNA sequencing
Processing commands for cont...@bugs.debian.org: > retitle 828176 RFP: cnvkit -- Copy number variant detection from targeted DNA > sequencing Bug #828176 [wnpp] ITP: cnvkit -- Copy number variant detection from targeted DNA sequencing Changed Bug title to 'RFP: cnvkit -- Copy number variant detection from targeted DNA sequencing' from 'ITP: cnvkit -- Copy number variant detection from targeted DNA sequencing'. > noowner 828176 Bug #828176 [wnpp] RFP: cnvkit -- Copy number variant detection from targeted DNA sequencing Removed annotation that Bug was owned by Debian Med team <debian-med@lists.debian.org>. > stop Stopping processing here. Please contact me if you need assistance. -- 828176: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828176 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#851358: marked as done (ITP: python-pybedtools -- Python wrapper around BEDTools for bioinformatics work)
Your message dated Wed, 08 Feb 2017 07:00:15 + with message-id <e1cbmeh-000ejc...@fasolo.debian.org> and subject line Bug#851358: fixed in python-pybedtools 0.7.8-1 has caused the Debian Bug report #851358, regarding ITP: python-pybedtools -- Python wrapper around BEDTools for bioinformatics work 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.) -- 851358: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=851358 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: python-pybedtools Version : 0.7.8 Upstream Author : Ryan Dale <dal...@niddk.nih.gov> * URL : https://github.com/daler/pybedtools * License : GPL 2+ Programming Lang: Python, Cython, Description : Python wrapper around BEDTools for bioinformatics work The BEDTools suite of programs is widely used for genomic interval manipulation or “genome algebra”. pybedtools wraps and extends BEDTools and offers feature-level manipulations from within Python. Dependency for bcbio; and will be team maintained by Debian Med --- End Message --- --- Begin Message --- Source: python-pybedtools Source-Version: 0.7.8-1 We believe that the bug you reported is fixed in the latest version of python-pybedtools, 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 851...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated python-pybedtools 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: Sat, 14 Jan 2017 01:51:01 -0800 Source: python-pybedtools Binary: python3-pybedtools Architecture: source amd64 Version: 0.7.8-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: python3-pybedtools - Python 3 wrapper around BEDTools for bioinformatics work Closes: 851358 Changes: python-pybedtools (0.7.8-1) unstable; urgency=medium . * Initial release. (Closes: #851358) Checksums-Sha1: d390cc68060930dfa6ce4bb80ecf94406b295876 2322 python-pybedtools_0.7.8-1.dsc 42dfd8d0a4a334a950e47bc709c42f78de382dd3 12446946 python-pybedtools_0.7.8.orig.tar.gz 9b0110e2a3a02ec90397390cd17d377b5583d239 27500 python-pybedtools_0.7.8-1.debian.tar.xz 5514acda5af64547f7309d112b155760d525466e 8898 python-pybedtools_0.7.8-1_amd64.buildinfo 53ce43dcf8dacaf232cee9b30e1abeea234aadf3 840218 python3-pybedtools-dbgsym_0.7.8-1_amd64.deb 3aeded54055341603b07c85ce570fa57bed68ef1 12415912 python3-pybedtools_0.7.8-1_amd64.deb Checksums-Sha256: b702223fb34fa5b07bd2c1bc0222bd3c0f75871b064ba3bb169ca2b571e8a23b 2322 python-pybedtools_0.7.8-1.dsc 0d49d92ba6d6cec85956cc4f947c9f431dc30aeea05125643a1b8786a59dc402 12446946 python-pybedtools_0.7.8.orig.tar.gz 7a265ebf82826e315e05accf4d2d073c5bc8389328788c713025ae7000672a91 27500 python-pybedtools_0.7.8-1.debian.tar.xz 00b4ce930cf68c33aab10ecb5dfc2acc3ddf45aad440caef56e77c9b0088ba31 8898 python-pybedtools_0.7.8-1_amd64.buildinfo d4cd71e1f1186a9aa968be46c3dfa6bef84f663964046a2021b32d42d938a536 840218 python3-pybedtools-dbgsym_0.7.8-1_amd64.deb 9fbbd2a95520ef7c4d9b071e5109d83f775d855fea78f65323cb1e9f0468dc7a 12415912 python3-pybedtools_0.7.8-1_amd64.deb Files: ace779a9fd697a28c6e3e0a18b716eb6 2322 python optional python-pybedtools_0.7.8-1.dsc 029718004b8fd01db910bfdaf7706522 12446946 python optional python-pybedtools_0.7.8.orig.tar.gz b519cded25b3fba94609594c8028b709 27500 python optional python-pybedtools_0.7.8-1.debian.tar.xz a79517dbfc3efdee5f0bce4ab6bb8022 8898 python optional python-pybedtools_0.7.8-1_amd64.buildinfo 3ecc0dfe70075861b42f9a18c7923a69 840218 debug extra python3-pybedtools-dbgsym_0.7.8-1_amd64.deb 82d70b1b4338a0facfd2cf99a9616d14 12415912 python optional python3-pybedtools_0.7.8-1_amd64.deb -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlh7lCYRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGr
Bug#851488: marked as done (ITP: python-gffutils -- Work with GFF and GTF files in a flexible database framework)
Your message dated Wed, 08 Feb 2017 07:00:14 + with message-id <e1cbmeg-000ej1...@fasolo.debian.org> and subject line Bug#851488: fixed in python-gffutils 0.8.7.1-1 has caused the Debian Bug report #851488, regarding ITP: python-gffutils -- Work with GFF and GTF files in a flexible database framework 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.) -- 851488: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=851488 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: python-gffutils Version : 0.8.7.1 Upstream Author : Ryan Dale <dal...@niddk.nih.gov> * URL : http://daler.github.io/gffutils/ * License : MIT Programming Lang: Python Description : Work with GFF and GTF files in a flexible database framework A Python package for working with and manipulating the GFF and GTF format files typically used for genomic annotations. Files are loaded into a sqlite3 database, allowing much more complex manipulation of hierarchical features (e.g., genes, transcripts, and exons) than is possible with plain-text methods alone. Dependency of bcbio, to be team maintained by Debian Med --- End Message --- --- Begin Message --- Source: python-gffutils Source-Version: 0.8.7.1-1 We believe that the bug you reported is fixed in the latest version of python-gffutils, 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 851...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated python-gffutils 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, 15 Jan 2017 06:54:17 -0800 Source: python-gffutils Binary: python3-gffutils Architecture: source all Version: 0.8.7.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: python3-gffutils - Work with GFF and GTF files in a flexible database framework Closes: 851488 Changes: python-gffutils (0.8.7.1-1) unstable; urgency=medium . * Initial release. (Closes: #851488) Checksums-Sha1: 2a91e8a8cecb40aa8e447f1ca6ff7683971cb732 2257 python-gffutils_0.8.7.1-1.dsc 4906dcac3f247600cf29f449ae56e72cab9e190c 1452613 python-gffutils_0.8.7.1.orig.tar.gz 6351101ba0967dfabb22afda221dfdb3da4c71b5 2008 python-gffutils_0.8.7.1-1.debian.tar.xz 3278430cd5dd65993d58b71704b34484adbd9e73 5526 python-gffutils_0.8.7.1-1_amd64.buildinfo 6180258c3d7b0ac956a5244ee685019c35289b53 947076 python3-gffutils_0.8.7.1-1_all.deb Checksums-Sha256: 252121dea38f17a7e634adddedd97e22b14e5d9d0c8ca5489b66d9bb75fc7d0f 2257 python-gffutils_0.8.7.1-1.dsc 0fd612cdf37b9aeb0d3504bd45acde1b00574554b84095a683688595337e94e6 1452613 python-gffutils_0.8.7.1.orig.tar.gz 4f56d574be9de0370912c3f08961a1c4d5d4f7a15aa7cf6a40ff79f938eb561f 2008 python-gffutils_0.8.7.1-1.debian.tar.xz 36f5321a08877ebbff58f016656928eba51210c7f8c95dc016feb3fca959d3d8 5526 python-gffutils_0.8.7.1-1_amd64.buildinfo 06d26a367c70e60cab730ae642677d0343f84525016e4628722a56f1a6a0c185 947076 python3-gffutils_0.8.7.1-1_all.deb Files: 64f4ddfc6073e49afad4bbc7b7da77d9 2257 python optional python-gffutils_0.8.7.1-1.dsc 99e1c97d52b3ee38870431f8606d8985 1452613 python optional python-gffutils_0.8.7.1.orig.tar.gz 03a97427c5a9054a1d297f5450dd7590 2008 python optional python-gffutils_0.8.7.1-1.debian.tar.xz 936db9794a2de4b81ad1815ad1a02a49 5526 python optional python-gffutils_0.8.7.1-1_amd64.buildinfo 39aef82b029dd69ff387b22e647bbd69 947076 python optional python3-gffutils_0.8.7.1-1_all.deb -BEGIN PGP SIGNATURE- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlh7nikRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFFpQ//Yb6z5coIUUtmUHiLqDbV3lQKtn6TATG7 3bPPdsXCQAZqgdtVzYEJUsh6t95UBE25qHRzD0cBumJhdbKfDnSOF+QnmxIaQzuf 44BhRLAN2xXhq4ZyMqwcG101apb4WnTOHibaT7HwTjHd37PftsRNKQ6UTm7BrFlA UIgwCQxpKVrA8J1h4QOl2fFlIdhlNGh0Za3mK5Enkgs0LAbqZylU/j7
Processed: retitle 843022 to ITP: emperor -- analysis and visualization of large microbial ecology datasets
Processing commands for cont...@bugs.debian.org: > retitle 843022 ITP: emperor -- analysis and visualization of large microbial > ecology datasets Bug #843022 [wnpp] ITP: emperor -- new version Changed Bug title to 'ITP: emperor -- analysis and visualization of large microbial ecology datasets' from 'ITP: emperor -- new version'. > thanks Stopping processing here. Please contact me if you need assistance. -- 843022: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=843022 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#842633: marked as done (ITP: r-cran-qqman -- R package for visualizing GWAS results using Q-Q and manhattan plots)
Your message dated Mon, 07 Nov 2016 10:00:27 + with message-id <e1c3gj5-0008z9...@fasolo.debian.org> and subject line Bug#842633: fixed in r-cran-qqman 0.1.2-1 has caused the Debian Bug report #842633, regarding ITP: r-cran-qqman -- R package for visualizing GWAS results using Q-Q and manhattan plots 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.) -- 842633: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=842633 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med Packaging Team <debian-med@lists.debian.org> Package name: r-cran-qqman URL: https://cran.r-project.org/package=qqman License: GPL-3 Description: R package for visualizing GWAS results using Q-Q and manhattan plots This package will be maintained by the Debian Med Packaging Team at: https://anonscm.debian.org/git/debian-med/r-cran-qqman.git/ --- End Message --- --- Begin Message --- Source: r-cran-qqman Source-Version: 0.1.2-1 We believe that the bug you reported is fixed in the latest version of r-cran-qqman, 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 842...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Dylan Aïssi <bob.dyb...@gmail.com> (supplier of updated r-cran-qqman 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: Thu, 27 Oct 2016 22:11:05 +0200 Source: r-cran-qqman Binary: r-cran-qqman Architecture: source all Version: 0.1.2-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Dylan Aïssi <bob.dyb...@gmail.com> Description: r-cran-qqman - R package for visualizing GWAS results using Q-Q and manhattan pl Closes: 842633 Changes: r-cran-qqman (0.1.2-1) unstable; urgency=medium . * Initial release. (Closes: #842633) Checksums-Sha1: 3182d0214b928e20297bf33eb80870147ec44a72 1990 r-cran-qqman_0.1.2-1.dsc 06a40d73b007a4aff9db49f6e921b2ccbe626317 1034271 r-cran-qqman_0.1.2.orig.tar.gz 3d8172eed0342c7b55af01ab4bec32736ece4a76 2248 r-cran-qqman_0.1.2-1.debian.tar.xz 4403a74439d461a4889b7f22f747f256ca1f3045 1033752 r-cran-qqman_0.1.2-1_all.deb Checksums-Sha256: a08cca67f8e2dcb16a7a8034970d6446f71bc85d565f1496c01d983da5ed69dc 1990 r-cran-qqman_0.1.2-1.dsc 7aa9806728f5fea2202ba6a36484e750f46fbcc9c690c13c7bafbc08d3b19408 1034271 r-cran-qqman_0.1.2.orig.tar.gz ba07cfd69928d73f5b7d65c96690f64754109e7d7b947b96cb4447ce9e06001a 2248 r-cran-qqman_0.1.2-1.debian.tar.xz 341d7ad4640c41c58bcb308395d1e8454f02fdad43738d002c5333bebe3e2d64 1033752 r-cran-qqman_0.1.2-1_all.deb Files: 2cb869e26ee3393cd8717905536a81bd 1990 gnu-r optional r-cran-qqman_0.1.2-1.dsc 944feef31dcba16ea295ae7f9ccc0588 1034271 gnu-r optional r-cran-qqman_0.1.2.orig.tar.gz 60d8e6f451fbd439a9442553729deb4e 2248 gnu-r optional r-cran-qqman_0.1.2-1.debian.tar.xz 23dc64bb7d259ed6b57a11ca4eea3f7b 1033752 gnu-r optional r-cran-qqman_0.1.2-1_all.deb -BEGIN PGP SIGNATURE- iQIuBAEBCAAYBQJYGRYvERx0aWxsZUBkZWJpYW4ub3JnAAoJEFeKBJTRxkbRZnUP /2DZW4GcirU9O1SCxTftyoVcUlY9q1rnYxRUz/MvjMOhePYv/tONSC5Fyb1xn/jE Ql2qrxUIlg5P8PP7fvI2ey73hlbJWUz7sPC2YAqNxnv9f+Q2fDZlA9Zh99+gv3EF NAS/TWmdEN/hnuV14WPci9fFfv3A1gFMYUG2km30buGsfkSdwXws4KZEcEwDUI/G GhDPQI82K9wh8Fxt4q9uFogxPEKw72oWs1quA8J5vOK15UiVv8Ank+csBE0IO+BN 8YQqidp5EFXsAlR7jPNcjVUsKhXmWbLMYfWWkjhPNoXyRi1mYkri5Ir/gBQQE6T4 YYiwBkytOT0QRg393qB6N8xbRoRA4ouW32szduBuFnoaNJeZ34kajOv1H0ahLkiG GF7vXYerq+8mdpSPCWez0tAmQBg8otIiV/+DNRJxQzL/hRhaEfU2S2sfdD5R3/5G g4noov5d+zRxAe7FnCrSpAGC6/xCEgVCf7AmYbrVwnj6kftXA6PLphkqat4r8/gv U3Aj9EzbSyHW4fPenc1iopl878csPMmwBj+vmNEiu/tJ0c8DwQ+aFDVbh6Revh9i +4QhYwXKll0WqsW9/2RD6xsnDXtTGXNIU+CCtq0NblEMQ9l7HlPiN/LjbNmjk1dY xKu9FDFZGg+KpRsbiMcBSy8vULGmklcR7Tp3DnzzYvbj =xg8i -END PGP SIGNATURE End Message ---
Processed: retitle to RFP: prokka -- rapid annotation of prokaryotic genomes
Processing commands for cont...@bugs.debian.org: > retitle 778246 RFP: prokka -- rapid annotation of prokaryotic genomes Bug #778246 [wnpp] ITP: prokka -- rapid annotation of prokaryotic genomes Changed Bug title to 'RFP: prokka -- rapid annotation of prokaryotic genomes' from 'ITP: prokka -- rapid annotation of prokaryotic genomes'. > noowner 778246 Bug #778246 [wnpp] RFP: prokka -- rapid annotation of prokaryotic genomes Removed annotation that Bug was owned by Debian Med team <debian-med@lists.debian.org>. > stop Stopping processing here. Please contact me if you need assistance. -- 778246: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778246 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#834592: marked as done (ITP: hisat2 -- graph-based alignment of short nucleotide reads to many genomes)
Your message dated Fri, 19 Aug 2016 08:00:09 + with message-id <e1baein-0001ve...@franck.debian.org> and subject line Bug#834592: fixed in hisat2 2.0.4-1 has caused the Debian Bug report #834592, regarding ITP: hisat2 -- graph-based alignment of short nucleotide reads to many genomes 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.) -- 834592: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=834592 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: hisat2 Version : 2.0.4 Upstream Author : HISAT2 team <hisat2.genom...@gmail.com> * URL : https://ccb.jhu.edu/software/hisat2/index.shtml * License : GPL-3+ Programming Lang: Perl, Python, C++ Description : graph-based alignment of short nucleotide reads to many genomes HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as against a single reference genome). Based on an extension of BWT for graphs a graph FM index (GFM) was designed and implementd. In addition to using one global GFM index that represents a population of human genomes, HISAT2 uses a large set of small GFM indexes that collectively cover the whole genome (each index representing a genomic region of 56 Kbp, with 55,000 indexes needed to cover the human population). These small indexes (called local indexes), combined with several alignment strategies, enable rapid and accurate alignment of sequencing reads. This new indexing scheme is called a Hierarchical Graph FM index (HGFM). hisat2 will be team-maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: hisat2 Source-Version: 2.0.4-1 We believe that the bug you reported is fixed in the latest version of hisat2, 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 834...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated hisat2 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: SHA512 Format: 1.8 Date: Wed, 17 Aug 2016 05:15:40 -0700 Source: hisat2 Binary: hisat2 Architecture: source amd64 Version: 2.0.4-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: hisat2 - graph-based alignment of short nucleotide reads to many genomes Closes: 834592 Changes: hisat2 (2.0.4-1) unstable; urgency=medium . * Initial release. (Closes: #834592) Checksums-Sha1: 54616c4725b3e9a2fd3db7d83b681ebd937b93a2 1939 hisat2_2.0.4-1.dsc 1ae4350591d00dd6915a6c70a4774a79b32f0edc 4076037 hisat2_2.0.4.orig.tar.bz2 6f96232f10834e7845fea80a9581f52d0dbd7f7f 4420 hisat2_2.0.4-1.debian.tar.xz 8398e18ce2e55381209292c67536e2ccdeb90757 9793642 hisat2-dbgsym_2.0.4-1_amd64.deb d76780d689aac70b0e5de174e4f8c2e749721686 1345280 hisat2_2.0.4-1_amd64.deb Checksums-Sha256: 9b1e1a9076e0ef0b1f47d390d245bd2b5ae6962cc6fe5df7270fbdb4fdf507cb 1939 hisat2_2.0.4-1.dsc 22d5a149177c4941ae5f7823a974b8785c0c1e0a9bbe67094b4a740a6553db5c 4076037 hisat2_2.0.4.orig.tar.bz2 6237d8141c64da9d07056d5f9f46db77c717ad0a5cdffc3287a69d8aaea9f679 4420 hisat2_2.0.4-1.debian.tar.xz 12c04d6a3e866d0250b66fbb0c1717bca6af0e23216fc9ffc116a54117df8e84 9793642 hisat2-dbgsym_2.0.4-1_amd64.deb ada31d84815718b8ec9a2b16713b6406498c8dad07463d3acc827deb0d0b8962 1345280 hisat2_2.0.4-1_amd64.deb Files: 2ca9f4562e8613e9aa21f838a80074a5 1939 science optional hisat2_2.0.4-1.dsc bf71583efbe260b12e100af7b16f088d 4076037 science optional hisat2_2.0.4.orig.tar.bz2 bc436ac91d782a01a5b6353f89c69b86 4420 science optional hisat2_2.0.4-1.debian.tar.xz 3043b0eb1bf9f06dbdb1b77e157dafd7 9793642 debug extra hisat2-dbgsym_2.0.4-1_amd64.deb e1823ded0e92696d9d04f4144f4f22bc 1345280 science optional hisat2_2.0.4-1_amd64.deb -BEGIN PGP SIGNATURE- iQIcBAEBCgAGBQJXtbsOAAoJEOjT
Bug#834590: marked as done (ITP: python3-typed-ast -- AST with PEP 484 type comments support)
Your message dated Fri, 19 Aug 2016 08:00:12 + with message-id <e1baeir-0001xg...@franck.debian.org> and subject line Bug#834590: fixed in python3-typed-ast 0.5.5-1 has caused the Debian Bug report #834590, regarding ITP: python3-typed-ast -- AST with PEP 484 type comments support 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.) -- 834590: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=834590 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: python3-typed-ast Version : 0.5.5 Upstream Author : David Fisher <ddfis...@dropbox.com> * URL : https://pypi.python.org/pypi/typed-ast * License : Python, Apache-2.0 Programming Lang: Python, C Description : AST with PEP 484 type comments support A fork of the CPython 2.7 and 3.5 ast modules with the ability to parse PEP 484 type comments. The primary goals of this package are correctness and speed. This enhances the package mypy which is team-maintained by Debian Med, as will this package. --- End Message --- --- Begin Message --- Source: python3-typed-ast Source-Version: 0.5.5-1 We believe that the bug you reported is fixed in the latest version of python3-typed-ast, 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 834...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated python3-typed-ast 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: SHA512 Format: 1.8 Date: Mon, 15 Aug 2016 09:13:00 -0700 Source: python3-typed-ast Binary: python3-typed-ast Architecture: source amd64 Version: 0.5.5-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: python3-typed-ast - AST with PEP 484 type comments support Closes: 834590 Changes: python3-typed-ast (0.5.5-1) unstable; urgency=medium . * Initial release. (Closes: #834590) Checksums-Sha1: b4cecfe074d7f74941f3fbdf25cd7b63c3754969 2055 python3-typed-ast_0.5.5-1.dsc b05502712a00e71ca8a30f757f888d8464e5f3ab 233699 python3-typed-ast_0.5.5.orig.tar.gz ba115564990f7c3151b020ef150f798acd7525cc 3320 python3-typed-ast_0.5.5-1.debian.tar.xz d4e0ec7f648cc02512034ce532882721df3d442b 435880 python3-typed-ast-dbgsym_0.5.5-1_amd64.deb 4ccd627dd1a6eab4976927dd8ddba7dd2e5b865f 124306 python3-typed-ast_0.5.5-1_amd64.deb Checksums-Sha256: 24106b0c2394f36aa41a4a53df671edfe6c12d7cb61ad021dd9ff1f9b5524e1a 2055 python3-typed-ast_0.5.5-1.dsc cfca8c3a0459260c9e437fe73b568766a69adf5d05d8fd7a56cab3230f8e4dfe 233699 python3-typed-ast_0.5.5.orig.tar.gz 313a373f4b8189f25a2c21afef6216c07ec743db4ba41c6d868bb1d28ee6f25c 3320 python3-typed-ast_0.5.5-1.debian.tar.xz f1ed130099fd8a87b65f3f0dcff3dff56bafbb2056672cfdeb0fa8fe66ee3bda 435880 python3-typed-ast-dbgsym_0.5.5-1_amd64.deb 0be984fb78e5ee53f4ad2e653e18fa69969087b84a7de83eb2376016546e983e 124306 python3-typed-ast_0.5.5-1_amd64.deb Files: dbd7c4e037d66fc05ec3de21ccfc36be 2055 python optional python3-typed-ast_0.5.5-1.dsc cef8defa6139299d4c25dd86d18ec95c 233699 python optional python3-typed-ast_0.5.5.orig.tar.gz 81c145b04870af9770dff38bc3e7d10a 3320 python optional python3-typed-ast_0.5.5-1.debian.tar.xz 5672b3177d7cd5b97047a53bb5cab39f 435880 debug extra python3-typed-ast-dbgsym_0.5.5-1_amd64.deb e9d146577ff0a7dcb8bcbddf8aa17927 124306 python optional python3-typed-ast_0.5.5-1_amd64.deb -BEGIN PGP SIGNATURE- iQIcBAEBCgAGBQJXtcmgAAoJEOjTeuLwn0hy+yoP/2+1dMOjh5rAqxp6JODIF8lR unQ2jxur8A9hfhOMgBDeQ/oMYbw7BUXIYP71D5G80BEZBMkQE3ZIGGOan8bq7uWu p0QWY6MznLO/8j3Y2tgKSd82lwVgjmBUEwGHPWqMRxQK4IKzYERPPXcJvmqFAkBh TgW/2JVrOzKiIgtZnC5FTOUw7JNMmSobKIrVqUWezBFa/EWIgG6e6LSfPQnDQzS1 W6BUH1pwwCnLtfOqRUEJHbXJKppw27F6nk9pvpmLsInOFYgBjJoGEtjpzRm+/K5Z +Veuwl2Vl94hRByCgOz5/sH48HZjqwgJbFNeHoxVXleYFOX4Gqelu2UAX6fu7zzJ Lwoh1cX+d479baf2dth26kcANYN+rE6gLnDX3W6MFznaPpS+0MO32xk2InMZtno/ UXYrBg7jUXcvsPgVScBkNOdN3gR6
Bug#828850: marked as done (ITP: r-bioc-deseq2 -- R package for RNA-Seq Differential Expression Analysis)
Your message dated Thu, 30 Jun 2016 18:00:31 + with message-id <e1biggn-to...@franck.debian.org> and subject line Bug#828850: fixed in r-bioc-deseq2 1.12.3-1 has caused the Debian Bug report #828850, regarding ITP: r-bioc-deseq2 -- R package for RNA-Seq Differential Expression Analysis 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.) -- 828850: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828850 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-bioc-deseq2 Version : 1.12.3 Upstream Author : Michael Love <michaelisaiahl...@gmail.com> * URL : https://bioconductor.org/packages/DESeq2 * License : LGPL-3+ Programming Lang: R Description : R package for RNA-Seq Differential Expression Analysis Differential gene expression analysis based on the negative binomial distribution. Estimate variance-mean dependence in count data from high-throughput sequencing assays and test for differential expression based on a model using the negative binomial distribution. Popular bioinformatics tool/library; team maintained by Debian Med --- End Message --- --- Begin Message --- Source: r-bioc-deseq2 Source-Version: 1.12.3-1 We believe that the bug you reported is fixed in the latest version of r-bioc-deseq2, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-bioc-deseq2 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, 27 Jun 2016 13:42:38 -0700 Source: r-bioc-deseq2 Binary: r-bioc-deseq2 Architecture: source amd64 Version: 1.12.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-bioc-deseq2 - R package for RNA-Seq Differential Expression Analysis Closes: 828850 Changes: r-bioc-deseq2 (1.12.3-1) unstable; urgency=medium . * Initial release (Closes: #828850) Checksums-Sha1: 5c8f8d750417d917bfb336e108f2290e8e4f 2236 r-bioc-deseq2_1.12.3-1.dsc 05500d7a293d2613514a14533eeaf743c4f611cf 1324782 r-bioc-deseq2_1.12.3.orig.tar.gz 62d9ba568726636893069649a031098f917a4a00 5956 r-bioc-deseq2_1.12.3-1.debian.tar.xz c21adf8732d1d86fd31963390de9a9405645b119 558352 r-bioc-deseq2-dbgsym_1.12.3-1_amd64.deb b6df4194c5f145aba81eb215288c8a8680be5d46 1547678 r-bioc-deseq2_1.12.3-1_amd64.deb Checksums-Sha256: 3fe57aac1e62c42560e72277bfc483ab81818b2c1dd1bc2055656bfcf60a18a3 2236 r-bioc-deseq2_1.12.3-1.dsc 03bb9ad96f783c29c5385db9299067c1a721a771a6d023c51f117b665a08e61b 1324782 r-bioc-deseq2_1.12.3.orig.tar.gz 341a107ca5ae1e4bebc6b9cedecf22e45b7fcedfb40e6560829d6a9caf0f9087 5956 r-bioc-deseq2_1.12.3-1.debian.tar.xz eaa7274981ed23f1c6be28503e066cec4a684d04f8832da613781d46551d2400 558352 r-bioc-deseq2-dbgsym_1.12.3-1_amd64.deb 57f3242166797d9893aac6708149c20c89b0a95e431cfbaa8d61fd772ed895c0 1547678 r-bioc-deseq2_1.12.3-1_amd64.deb Files: d358f4e4418fec4c3e34ca01962c0ecb 2236 gnu-r optional r-bioc-deseq2_1.12.3-1.dsc 05913ad6ba6bc8b5b73e3b107fd53b1d 1324782 gnu-r optional r-bioc-deseq2_1.12.3.orig.tar.gz d3d24a70dd67ab95bcde87d6237293af 5956 gnu-r optional r-bioc-deseq2_1.12.3-1.debian.tar.xz 2dcf23b3ae55656128c28f407a92becf 558352 debug extra r-bioc-deseq2-dbgsym_1.12.3-1_amd64.deb 050bf0b6a5baadac925e743d4797f6f1 1547678 gnu-r optional r-bioc-deseq2_1.12.3-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXdNH+AAoJEFeKBJTRxkbReg0QAJhnoo/CApXcc3nxvVh2OkCW R2Bn9dRwHZ4Z0JPC25gLQn4O/Wg36R3JgJPQyFDC1JOqBjYkuAC0Y05tKM4mHviG Oz9sLjfMM53gp+b7NnMxrV+A4TIPU+Gdo0q3E1ZlOir8HyJlBbxKqNiUEqBxNJG8 DqxY5G5HcUvNJdsNTOjfR7vFqgiQlqEA6x/6TfUxg7EsrRhHKlVZxKWwybM/9R+K ORp2Hfwq8RhckGJ7FgP/KR9BTs1UGBCKKV6n8ls+HG62U6iZG4VhwIdtjJLhunlO J+JExPVztTyoCswPz/hpVVfTCyxGzgDZIkAYX/Uc71Qh7Uct8PKcy19aURWP84dA /OrqxSUxMieFUthjZlmLJZSZzR8L
Bug#828796: marked as done (ITP: r-bioc-geneplotter -- R package of functions for plotting genomic data)
Your message dated Wed, 29 Jun 2016 13:01:52 + with message-id <e1bif7o-00055a...@franck.debian.org> and subject line Bug#828796: fixed in r-bioc-geneplotter 1.50.0-1 has caused the Debian Bug report #828796, regarding ITP: r-bioc-geneplotter -- R package of functions for plotting genomic data 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.) -- 828796: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828796 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-bioc-geneplotter Version : 1.50.0 Upstream Author : Bioconductor Package Maintainer <maintai...@bioconductor.org> * URL : http://bioconductor.org/packages/geneplotter/ * License : Artistic-2.0 Programming Lang: R Description : R package of functions for plotting genomic data geneplotter contains plotting functions for microarrays Dependency for r-bioc-deseq2; team mainted by Debian Med --- End Message --- --- Begin Message --- Source: r-bioc-geneplotter Source-Version: 1.50.0-1 We believe that the bug you reported is fixed in the latest version of r-bioc-geneplotter, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-bioc-geneplotter 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, 27 Jun 2016 14:08:52 -0700 Source: r-bioc-geneplotter Binary: r-bioc-geneplotter Architecture: source all Version: 1.50.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-bioc-geneplotter - R package of functions for plotting genomic data Closes: 828796 Changes: r-bioc-geneplotter (1.50.0-1) unstable; urgency=medium . * Initial release (Closes: #828796) Checksums-Sha1: 01b9bb2a9bab176cb912ec6ead2666e312c5d754 2203 r-bioc-geneplotter_1.50.0-1.dsc d6e1d99a960401b9ff9aa86d1569fbd05c0f6743 1401620 r-bioc-geneplotter_1.50.0.orig.tar.gz eee1ee15f24c60438d90e92937111e62b9bc51f3 2564 r-bioc-geneplotter_1.50.0-1.debian.tar.xz 2b24da9e20e9159dc9864f9c350a143f457b330f 1465018 r-bioc-geneplotter_1.50.0-1_all.deb Checksums-Sha256: a4d74bcc58225dfa2ee0992ae2fe40752e03497df2c511681e3b577fd53b743c 2203 r-bioc-geneplotter_1.50.0-1.dsc 82e1788e8f1d832179f80531424a5172204ade9a8f620081272f140128f77953 1401620 r-bioc-geneplotter_1.50.0.orig.tar.gz 6494a5dd418762b54e740b700dd55847f5d361b9fe54e7cf370bed1feb8b5204 2564 r-bioc-geneplotter_1.50.0-1.debian.tar.xz 6d55a242604ac692c67993f80dc4536d9b07afd84612e92c62923fe700909c08 1465018 r-bioc-geneplotter_1.50.0-1_all.deb Files: f6324ddb692767da8ab0b0b3eae6086e 2203 gnu-r optional r-bioc-geneplotter_1.50.0-1.dsc f4a584445918efbc90f2dc44f07aefb8 1401620 gnu-r optional r-bioc-geneplotter_1.50.0.orig.tar.gz 881e99d75f4b19ec07784d2ecaeebc56 2564 gnu-r optional r-bioc-geneplotter_1.50.0-1.debian.tar.xz 3750384665f477d3023e1d1f882a5a07 1465018 gnu-r optional r-bioc-geneplotter_1.50.0-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXc3bTAAoJEFeKBJTRxkbRF3sP/ixp4XtvDlfX43FIbtg3KTJs V00QsJ5R27knWapi9l7/QUczyY4be7PojF5uVNBwCFQKYvb1G+qVOPsR/kzRqQu2 2lSUHEEM+/1XGf27YGbodB06KjTT6Ht0Orjnh1nwrmedJMU6J7ftOsIq+1X/pMb/ 8sBpXk9bnB0+79Yc/u1pmTHKLmuTYk+Qurs+YedNvKWc2lsNhmKqd4pG4DhY9Q/J MW80LuCZbmpRXYbhUzE7jPI1SL45obd0TIu1INfdX3heVfxBtbliEuWMQlK8zJm1 z6aYyUUYvHSbZzduxKj07sUqxWG9uUG/cL7Nhdd5s364A1OIAHMB06D1IAfsKo+a nD+jWh1qSthepf+q4P8QixIBFlW+hLAB6ihI5PSppVTCTBbnDSepm8Kf906yCVJd 5Y8loBNjFneXtgFt7NZxeCkbbUS9ajsqb+HpgIr0MLAMQdWK1eL8v8ZDuHYINPlw OYqOMfEA+Z/YLhcjTHycItlwsqSxqVq5hOkWC9UiTrxJNg71I3FMc+gTRnh0Vxfd H0U+3ivv19WWQtCEo96/GPz9cCB+iAhEMnvPopxmENzWpNBAquBI/LsD6UuE5vk6 Lkl2V9jKQ07jxMHGC0LcXxf/64FT860XgqK91zqhbqqFqkKMn8QzD2AxfPeAjdsH 1rYIP4obv6HbTBB4H3Bd =L+bx -END PGP SIGNATURE End Message ---
Bug#828690: marked as done (ITP: r-cran-pscbs -- R package: Analysis of Parent-Specific DNA Copy Numbers)
Your message dated Tue, 28 Jun 2016 08:00:21 + with message-id <e1bhnwt-0005ls...@franck.debian.org> and subject line Bug#828690: fixed in r-cran-pscbs 0.61.0-1 has caused the Debian Bug report #828690, regarding ITP: r-cran-pscbs -- R package: Analysis of Parent-Specific DNA Copy Numbers 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.) -- 828690: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828690 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-cran-pscbs Version : 0.61.0 Upstream Author : Henrik Bengtsson <henr...@braju.com> * URL : https://github.com/HenrikBengtsson/PSCBS * License : GPL-2+ Programming Lang: R Description : R package: Analysis of Parent-Specific DNA Copy Numbers Segmentation of allele-specific DNA copy number data and detection of regions with abnormal copy number within each parental chromosome. Both tumor-normal paired and tumoronly analyses are supported. Prerequisite for cnvkit, to be maintained by Debian Med --- End Message --- --- Begin Message --- Source: r-cran-pscbs Source-Version: 0.61.0-1 We believe that the bug you reported is fixed in the latest version of r-cran-pscbs, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-cran-pscbs 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: Sat, 25 Jun 2016 13:58:30 -0700 Source: r-cran-pscbs Binary: r-cran-pscbs Architecture: source amd64 Version: 0.61.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-cran-pscbs - R package: Analysis of Parent-Specific DNA Copy Numbers Closes: 828690 Changes: r-cran-pscbs (0.61.0-1) unstable; urgency=medium . * Initial release. (Closes: #828690) Checksums-Sha1: 88f1087f22172675166efffb06affa3d1f995e9c 2134 r-cran-pscbs_0.61.0-1.dsc b5ce2d041219ee00841196486f799ed8d66335bd 3540447 r-cran-pscbs_0.61.0.orig.tar.gz 7438eff2b40ddeea8aefb6870701832ab22d32b2 2228 r-cran-pscbs_0.61.0-1.debian.tar.xz aa6370be8426613a1954ac96349f9e508fe2ba29 4055126 r-cran-pscbs_0.61.0-1_amd64.deb Checksums-Sha256: e01e9e15575f20b62f27501e1b93ce0081eb8092ecca7d531cd0ff65ff62a10a 2134 r-cran-pscbs_0.61.0-1.dsc 0497e728d8c12896dbd2cf89a7262718ad1cb5a87f6155ea92acad6c3391ba12 3540447 r-cran-pscbs_0.61.0.orig.tar.gz 35abbc42d50750afe8cec999fe79aad318cd40d935644955f408ee6b982f0fe9 2228 r-cran-pscbs_0.61.0-1.debian.tar.xz 1ba0b0478113727f96648e37d94b086c6e914d6e4e01460da1dce2f595bf5cb8 4055126 r-cran-pscbs_0.61.0-1_amd64.deb Files: 0f0b6475d3516bca98e278f3b2213202 2134 gnu-r optional r-cran-pscbs_0.61.0-1.dsc 51c82cb8e114951ee8d76cc1b58a4408 3540447 gnu-r optional r-cran-pscbs_0.61.0.orig.tar.gz 0e78fe5a9726085220cf661e11baa778 2228 gnu-r optional r-cran-pscbs_0.61.0-1.debian.tar.xz 523bba0e26e85f5ec470973d5eeb0ecb 4055126 gnu-r optional r-cran-pscbs_0.61.0-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIbBAEBCAAGBQJXch76AAoJEFeKBJTRxkbRCkYP+Nrz5oS2KtZSu46Nq4Ek+Y82 vmPgOr4dAhc8MCK2KzWbtu2AXoRi8sEAVY/VLAI8Njn4GjUMm8dBMpq5KUbJmcmZ sZ2+OCin/lGn2AP2DT+Zm7UBlxevKycT6w4HXYyM+ix/TXcyO53DxjtU9OdtTSg6 L7XgCAvy3EqOIrfh5ibFfVsB5tmBrIUBens9TlajiVnFWntnLF1n3J4un8JLyJ9G N2EMx/ieKGA/gq0wZJ1A+cokFIXriU/Os8SzlGy7mWdRc6SDHq2MUAXiGTxjkD/q msMu+fGQG2+UgSudJSgZnLDKYiKqg0lJXyixs06f07/R6O6+t92ICX3JFfDSfRIK Nvy3fLM7Tv5H77TmBUOd0n+BOTGMD8hgQz5UpjXLV+P6cEhqSC+U1s2RICKLqRE/ eqPak0/82xHv7DVzMm6QPvwWU1KXjNBpOiKbJQ7BO9LiVNKIhNLpZMdA61yQLYqB 86TsLD2UZ1YxJvNxsFsOcgSufncnRiUbd0wCWkzBO+bIgNnH+0Hp1iyxz8fui/VU lf5co5Wx+wwRa2X3a3xEOzL929D7iG2TW0cj0dUU1393kbGWTJh4TZ1kCVsSVf/z B0I5MCsXYxH+NsuOFnRS0i3P/v/8EQ6PFjCbnbLvnMlD+H2TreD1bMPDG8B0XDTD YJZUhijOK/k3bHMWH2U= =78zo -END PGP SIGNATURE End Message ---
Bug#828197: marked as done (ITP: r-cran-future -- R package: A Future API for R)
Your message dated Mon, 27 Jun 2016 13:00:52 + with message-id <e1bhw9k-0004h7...@franck.debian.org> and subject line Bug#828197: fixed in r-cran-future 1.0.0-1 has caused the Debian Bug report #828197, regarding ITP: r-cran-future -- R package: A Future API for R 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.) -- 828197: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828197 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-cran-future Version : 1.0.0 Upstream Author : Henrik Bengtsson <henr...@braju.com> * URL : https://github.com/HenrikBengtsson/future * License : LGPL-2.1+ Programming Lang: R Description : R package: A Future API for R In programming, a future is an abstraction for a value that may be available at some point in the future. The state of a future can either be unresolved or resolved. As soon as it is resolved, the value is available. Futures are useful constructs in for instance concurrent evaluation, e.g. parallel processing and distributed processing on compute clusters. The purpose of this package is to provide a lightweight interface for using futures in R. A dependency of r-cran-pscbs, team maintained by Debian Med --- End Message --- --- Begin Message --- Source: r-cran-future Source-Version: 1.0.0-1 We believe that the bug you reported is fixed in the latest version of r-cran-future, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-cran-future 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: Sat, 25 Jun 2016 13:58:30 -0700 Source: r-cran-future Binary: r-cran-future Architecture: source all Version: 1.0.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-cran-future - R package: A Future API for R Closes: 828197 Changes: r-cran-future (1.0.0-1) unstable; urgency=medium . * Initial release. (Closes: #828197) Checksums-Sha1: 982a5f29c59836f0dbcc9d657bb188f8d42e7820 2085 r-cran-future_1.0.0-1.dsc b6061776a24753af47a321845ffa703f815b482c 131078 r-cran-future_1.0.0.orig.tar.gz 487be94066cb77795bd20a1b3eeb88eb578d8340 2004 r-cran-future_1.0.0-1.debian.tar.xz 567e2cefd0f12e8e2c54e831490559a8527018fc 213944 r-cran-future_1.0.0-1_all.deb Checksums-Sha256: f03c65a0f4f3bca952a7749caa4bbe7a519c4672ca9fb9bfbb6f448aed79d271 2085 r-cran-future_1.0.0-1.dsc 6275d3b4acf1e3320964488a70b50c30d20aebdeb3488c2eaaf3d812cb60f6ff 131078 r-cran-future_1.0.0.orig.tar.gz a8423ea7ce57c64b710261d7d2b78957860bb00a1b90829f8535e3ec18b377f6 2004 r-cran-future_1.0.0-1.debian.tar.xz 4d0eca8d5b9030653ae6793d016971f1bd147e923c77ebff38c25ed3a2583add 213944 r-cran-future_1.0.0-1_all.deb Files: 60e598667f1c9b019e74386f9b8b4d8c 2085 gnu-r optional r-cran-future_1.0.0-1.dsc 8ed4e635b8512b1a0edf62356f4d62fa 131078 gnu-r optional r-cran-future_1.0.0.orig.tar.gz 099b39c48f1b9c16ebeac20a670f4a32 2004 gnu-r optional r-cran-future_1.0.0-1.debian.tar.xz b58928bc80d89ffa3fceb919bb730f6b 213944 gnu-r optional r-cran-future_1.0.0-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXcN+pAAoJEFeKBJTRxkbRWsIP/0XWEmV4sYTl85TUpFtD/uJ7 8rw4luL4xAE7T9jycxdxxwz6TLniv4QAgdMu5LzncS2pf4kDEKYPr2105cuvclUu rzHT51ckjqLkg9TQdQwzLFO8Vy8/gyuZDy1YYzUwzHcl1lYHRVzY6E0k2PK1s89k Hm0rP9oBbxcjzlhvAkAUFo8mOMRZdVDBrg3dGnPzEFUuz+7Y6xZuITq6aO2Il5Di XUjJOFWX0ZHZnopgMlaBm0Ai2TR+H7OgW0XlrvQKxnXOg3okbYUONbaibXFeLHnc QtxebdacMSV9UIfHTHYrYSF1AcGEhSX2kaCzO5M36jD1hDjiG6paMgrDPEymLJ4k XU6YmD7nsY99wzSbC2DyUeMbB1OrPUtX836h4fIKqLGiVwRyZT38TA9Xf3HndTPI 6tgP+j9O5R8c1PCwOldt56wzxsogeT5Sb2T8QIVdHIJdrHIywar1EeBBwotPTI1Y Q2udyPrixEsuGe75TPo3YFZ/xQgrvH4uWPmNBoPPOk1MqrjNlkhp81OEuBSSW3Iw qycYvXEdtuelVgdvTAAOwgP0sIrJSAbdWHMM7Ohl5qS9Xr6g
Bug#828189: marked as done (ITP: r-bioc-dnacopy -- R package: DNA copy number data analysis)
Your message dated Mon, 27 Jun 2016 08:02:14 + with message-id <e1bhruk-0001dg...@franck.debian.org> and subject line Bug#828189: fixed in r-bioc-dnacopy 1.46.0-1 has caused the Debian Bug report #828189, regarding ITP: r-bioc-dnacopy -- R package: DNA copy number data analysis 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.) -- 828189: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828189 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-bioc-dnacopy Version : 1.46.0 Upstream Author : Venkatraman E. Seshan <sesh...@mskcc.org> * URL : http://www.bioconductor.org/packages/release/bioc/html/DNAcopy.html * License : GPL-2.0+ Programming Lang: R Description : R package: DNA copy number data analysis Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number. . This package is for analyzing array DNA copy number data, which is usually (but not always) called array Comparative Genomic Hybridization (array CGH) data It implements a methodology for finding change-points in these data which are points after which the (log) test over reference ratios have changed location. This model is that the change-points correspond to positions where the underlying DNA copy number has changed. Therefore, change-points can be used to identify regions of gained and lost copy number. We also provide a function for making relevant plots of these data. This is a dependency for r-cran-pscbs and will be team maintained by the Debian Med team --- End Message --- --- Begin Message --- Source: r-bioc-dnacopy Source-Version: 1.46.0-1 We believe that the bug you reported is fixed in the latest version of r-bioc-dnacopy, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-bioc-dnacopy 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: Sat, 25 Jun 2016 13:58:30 -0700 Source: r-bioc-dnacopy Binary: r-bioc-dnacopy Architecture: source amd64 Version: 1.46.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-bioc-dnacopy - R package: DNA copy number data analysis Closes: 828189 Changes: r-bioc-dnacopy (1.46.0-1) unstable; urgency=medium . * Initial release. (Closes: #828189) Checksums-Sha1: bfa0e13a0f719a47928629cc7cb57a393c08c06b 2042 r-bioc-dnacopy_1.46.0-1.dsc 25ce5968a423648c31ec2002ab28af44f21a2dbe 335346 r-bioc-dnacopy_1.46.0.orig.tar.gz f63e75e8ae8e1321cf667d2423ed0f167cb2a754 2056 r-bioc-dnacopy_1.46.0-1.debian.tar.xz ddc0a16e4bedf9c926ce1f982cbdea487e030761 39138 r-bioc-dnacopy-dbgsym_1.46.0-1_amd64.deb 92dc80e5590cecd3c24c5a6d61ebb96857f2514a 375548 r-bioc-dnacopy_1.46.0-1_amd64.deb Checksums-Sha256: 27b17fc0664bf80233778bf4bb3e3f3dfc6bd1438f2f13940a1a563f5a6ded78 2042 r-bioc-dnacopy_1.46.0-1.dsc 37b2eac7600876334f38537ec4fd47ddf6c3962ae72dafc995ec4ad76c159b6f 335346 r-bioc-dnacopy_1.46.0.orig.tar.gz 6c72da512feed1a3efa4fca09faf3b7b5d4d31aea3f20887c1a86bb43c888944 2056 r-bioc-dnacopy_1.46.0-1.debian.tar.xz f67f541245844bab670cb06489118c952121e7210f5ead44fd5ad82f3e6528e5 39138 r-bioc-dnacopy-dbgsym_1.46.0-1_amd64.deb 3ad4b31a2795f17207ba60a19c71d31ea23a56d7d8e34e470fb4bb769418a782 375548 r-bioc-dnacopy_1.46.0-1_amd64.deb Files: 6f1cc93c14ac0d0f5b222c3a02f97995 2042 gnu-r optional r-bioc-dnacopy_1.46.0-1.dsc 32c9f6f5d5d45d6aa9b6a2a9857f33dd 335346 gnu-r optional r-bioc-dnacopy_1.46.0.orig.tar.gz 69eaf014ec0111f53f971a8641af11c1 2056 gnu-r optional r-bioc-dnacopy_1.46.0-1.debian.tar.xz 25e038e3dfa4db3a40acd83de9245d08 39138 debug extra r-bioc-dnacopy-dbgsym_1.46.0-1_amd64.deb 362804630bdee42fc1d7e73cb9b6752b 375548 gnu-r optional r-bioc-dnacop
Bug#828184: marked as done (ITP: r-cran-r.cache -- R package: Fast and Light-Weight Caching of Objects and Results)
Your message dated Sun, 26 Jun 2016 20:00:49 + with message-id <e1bhgeb-0005dr...@franck.debian.org> and subject line Bug#828184: fixed in r-cran-r.cache 0.12.0-1 has caused the Debian Bug report #828184, regarding ITP: r-cran-r.cache -- R package: Fast and Light-Weight Caching of Objects and Results 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.) -- 828184: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828184 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-cran-r.cache Version : 0.12.0 Upstream Author : Henrik Bengtsson <henr...@braju.com> * URL : https://github.com/HenrikBengtsson/R.cache * License : LGPL (>= 2.1) Programming Lang: R Description : R package: Fast and Light-Weight Caching of Objects and Results Memoization can be used to speed up repetitive and computational expensive function calls. The first time a function that implements memoization is called the results are stored in a cache memory. The next time the function is called with the same set of parameters, the results are momentarily retrieved from the cache avoiding repeating the calculations. With this package, any R object can be cached in a key-value storage where the key can be an arbitrary set of R objects. The cache memory is persistent (on the file system). Dependency of r-cran-pscbs, will be team maintained by the Debian Med team --- End Message --- --- Begin Message --- Source: r-cran-r.cache Source-Version: 0.12.0-1 We believe that the bug you reported is fixed in the latest version of r-cran-r.cache, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-cran-r.cache 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: Sat, 25 Jun 2016 13:58:30 -0700 Source: r-cran-r.cache Binary: r-cran-r.cache Architecture: source amd64 Version: 0.12.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-cran-r.cache - R package: Fast and Light-Weight Caching of Objects and Results Closes: 828184 Changes: r-cran-r.cache (0.12.0-1) unstable; urgency=medium . * Initial release. (Closes: #828184) Checksums-Sha1: 0e69c50f169906da730a4d180b4b7567617917ce 2100 r-cran-r.cache_0.12.0-1.dsc 9ca8094de954500a92552cf6c9e50ae63c81ae3f 38062 r-cran-r.cache_0.12.0.orig.tar.gz 540b4db43a5dcb61e551f2f88e744f46c83599cd 2056 r-cran-r.cache_0.12.0-1.debian.tar.xz bd4942ef380e651df3e7b7d871b0f6302f4d63d4 76890 r-cran-r.cache_0.12.0-1_amd64.deb Checksums-Sha256: 740af2af321fbeef144c46de27eda8b3e72f63553eaf6f9c7e69355bd280e935 2100 r-cran-r.cache_0.12.0-1.dsc 9e80b7fb06ec99106aaf1b77b4306db2f98b408fee5bd26f8e5f9b93a96642ee 38062 r-cran-r.cache_0.12.0.orig.tar.gz a13d9e4dfa04cf9dc6be9a7592fcd3508cd0a3639a0011a548c06f9eb0464eaf 2056 r-cran-r.cache_0.12.0-1.debian.tar.xz b1a8547c7212ab7a9e272730927abaad08af8f402faed9af3f70ffb9609807d7 76890 r-cran-r.cache_0.12.0-1_amd64.deb Files: ec34675d8efc85da22917225f5c2006c 2100 gnu-r optional r-cran-r.cache_0.12.0-1.dsc c45006db7a95b1af472fbc4cec43c6ba 38062 gnu-r optional r-cran-r.cache_0.12.0.orig.tar.gz d8a6883e849a0d5c8e74cd312f3dd1de 2056 gnu-r optional r-cran-r.cache_0.12.0-1.debian.tar.xz 9771ce253d0158fc13f356d19ec4b2f2 76890 gnu-r optional r-cran-r.cache_0.12.0-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXcCmlAAoJEFeKBJTRxkbRscIP/Au+3Wucv54uEWzjUfdin4Ud mXuxBFKcdeLLz7JRDuU7NMjCNNkV/t+PjoP31rwCFmslRvbJr/eLa/y5gBf2xYu9 DLIJkWIMU+ADG3uuA2RAxF8xFHFxR16hcN47y/Fqz2J9oyrEUj70JkcB9RQNNmiu N++bkwlZhCxmxDkud/rbiXnT5NwC7vFMtas6dgSQO+Q+E4opTGWv1GnyvUOlVgFW xkd3Z51Q7GUNF/TnSUbybauU+XZHsPLRq8vVGL3h09dKWst9jO+seJasg+3US2Wn dy2j9izuOSY6qBCQgLBonFRmBFx5TFP4Nf+F7gSIeGGO0Knjy49oOqrnMOjrlCdm y6HOyweu2PndO
Bug#828194: marked as done (ITP: r-cran-listenv -- R package: Environments Behaving (Almost) as Lists)
Your message dated Sun, 26 Jun 2016 20:00:48 + with message-id <e1bhgea-0005dj...@franck.debian.org> and subject line Bug#828194: fixed in r-cran-listenv 0.6.0-1 has caused the Debian Bug report #828194, regarding ITP: r-cran-listenv -- R package: Environments Behaving (Almost) as Lists 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.) -- 828194: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=828194 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: r-cran-listenv Version : 0.6.0 Upstream Author : Henrik Bengtsson <henr...@braju.com> * URL : https://github.com/HenrikBengtsson/listenv * License : LGPL 2.1+ Programming Lang: R Description : R package: Environments Behaving (Almost) as Lists List environments are environments that have list-like properties. For instance, the elements of a list environment are ordered and can be accessed and iterated over using index subsetting, e.g. 'x <- listenv(a=1, b=2); for (i in seq_along(x)) x[[i]] <- x[[i]]^2; y <- as.list(x)'. A dependency of r-cran-pscbs, will be team maintained by Debian Med. --- End Message --- --- Begin Message --- Source: r-cran-listenv Source-Version: 0.6.0-1 We believe that the bug you reported is fixed in the latest version of r-cran-listenv, 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 828...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated r-cran-listenv 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: Sat, 25 Jun 2016 13:58:30 -0700 Source: r-cran-listenv Binary: r-cran-listenv Architecture: source amd64 Version: 0.6.0-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: r-cran-listenv - R package: Environments Behaving (Almost) as Lists Closes: 828194 Changes: r-cran-listenv (0.6.0-1) unstable; urgency=medium . * Initial release. (Closes: #828194) Checksums-Sha1: 224e0bb71c2fa6bf5c3d20a5ecd982a96e987c98 2030 r-cran-listenv_0.6.0-1.dsc 5bd1e0f098e5787df1045891e57605f5253e909e 31182 r-cran-listenv_0.6.0.orig.tar.gz 614f34e015a2eaed06670364c605bab938e4c265 1928 r-cran-listenv_0.6.0-1.debian.tar.xz 333a9e7726e6acb420c6b2fbbad1c6f7d3e95d44 56322 r-cran-listenv_0.6.0-1_amd64.deb Checksums-Sha256: 03682a663c25d92b85de6f92cdee92e12e961c4ff26b7d6f12af53b1e8770ab6 2030 r-cran-listenv_0.6.0-1.dsc a737f08123b8bd67b63bb9843d0b6316408516d831203df8c369f3e32a48d84f 31182 r-cran-listenv_0.6.0.orig.tar.gz ab1881706943a82e621e07f4320375e0dadd49752bce8b88a817cd6cb25d4c0a 1928 r-cran-listenv_0.6.0-1.debian.tar.xz cc7d6002cea9e1b94895055e2375a372c86f0f9c6c91bd3a4a3b49470ad4bb12 56322 r-cran-listenv_0.6.0-1_amd64.deb Files: e46f6817eabc8b64feeb446a14d3025d 2030 gnu-r optional r-cran-listenv_0.6.0-1.dsc b6392412709154b0ee25be1a5da9d4b6 31182 gnu-r optional r-cran-listenv_0.6.0.orig.tar.gz d17553ebbe4b5b0a914ad0f2f901f14b 1928 gnu-r optional r-cran-listenv_0.6.0-1.debian.tar.xz 42a88ddae0238781239380abb97053b4 56322 gnu-r optional r-cran-listenv_0.6.0-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXcCq3AAoJEFeKBJTRxkbR4E4P/j3NoyL/ceuW0gy5+hTLS8Y7 BNI83oSLvByKLom2l63g0f/2vT1VhZfcxcGqX8t79+w8feTXN6s3Jz4eSlg0cpaB /UzcZo0kQ25VfqkuoDuQHGisURMBOij05poGbmNhlZO/2CzKI6/wuqAEsMZCHxKH rCYcsiIg6P+kWJw0Qg4QJmeu6XGIfOJMCsjWIG/uafy6cjPn9f02NcAzVHVbBt7h C8KsMO2x60q3q8kozJ0Jl2zc5QAB1cNxbgJCNLJABx+vUtKLRaEO3qu68MHSeup0 b1EDujpTttsCQAeQbwIFpv/hciRbbUmGR1bDFnc1xFtLB8fIjZ3mR9iVKqYjEI1O q7VdZqitG3yiI9+cExgRQx2m2jxcu4g8ehakjH1R3AD8l6xkIBtMyHEXTKRhP9tQ qQX0CvSLvIha6Ao0IiBCvoNWmLP5tXo1+yxKU2Gy/5SYJX/x0zsqMA6zWzY91Ox9 stk5Tds7ayeh4G88l5EUjDY1S4BIkzE7IXH59h716T0VezRzSOK0bT6Nic+i2QMs nn8NGoaaUq82U27ZKe6Y1f5bZdCkbq+BBiNPcwc+9b6f4aXzQiA6hMSfNTiWK9XY amwiTPymbZLDIl1cWY2iyE3MRtzeLaV7TuwAkN0rInSRykP0aiMnEMvaUzOWvLvt CIFV
Bug#823512: marked as done (ITP: mypy -- Optional static typing for Python)
Your message dated Fri, 06 May 2016 11:00:26 + with message-id <e1aydug-00034p...@franck.debian.org> and subject line Bug#823512: fixed in mypy 0.3.1-1 has caused the Debian Bug report #823512, regarding ITP: mypy -- Optional static typing for Python 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.) -- 823512: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=823512 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: mypy Version : 0.3.1 Upstream Author : Jukka Lehtosalo <jlehtos...@gmail.com> * URL : http://www.mypy-lang.org/ * License : MIT Programming Lang: Python Description : Optional static typing for Python Add type annotations to your Python programs, and use mypy to type check them. Mypy is essentially a Python linter on steroids, and it can catch many programming errors by analyzing your program, without actually having to run it. Mypy has a powerful type system with features such as type inference, gradual typing, generics and union types. This package is useful for every Python developer. It will be group maintained by the Debain Med team. --- End Message --- --- Begin Message --- Source: mypy Source-Version: 0.3.1-1 We believe that the bug you reported is fixed in the latest version of mypy, 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 823...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <michael.cru...@gmail.com> (supplier of updated mypy 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: Thu, 05 May 2016 06:00:25 -0700 Source: mypy Binary: mypy Architecture: source all Version: 0.3.1-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <michael.cru...@gmail.com> Description: mypy - Optional static typing for Python Closes: 823512 Changes: mypy (0.3.1-1) unstable; urgency=medium . * Initial release. (Closes: #823512) Checksums-Sha1: e08a4331a568bfcc87c3026c2c9810d4d853e82d 1923 mypy_0.3.1-1.dsc ce4186edd4e17fa81f59bbc37fd6dec995823186 419477 mypy_0.3.1.orig.tar.gz 027661c8b6d8199f0b932494dd217b64df9f4d9d 2188 mypy_0.3.1-1.debian.tar.xz da1ba7383615f628fd86ed8ce3cf560d5bdaa2f0 315366 mypy_0.3.1-1_all.deb Checksums-Sha256: 2ab0124967a299862c0c428708ae7f815196480c2e95b1292714a1ce17a0e865 1923 mypy_0.3.1-1.dsc 7fc53b6ea2ca7a291f90dc0369c20a764d5f7b264b46f8e1cc9b29f2bb4747b5 419477 mypy_0.3.1.orig.tar.gz 8af383b4ed273a537e913cd613a217f28d3b2f87d31128b8cc3c2e516bbbec88 2188 mypy_0.3.1-1.debian.tar.xz 6c739caba6d3bcc029b88a4dffa2ccc1b7d240c6246eea2f9b891f5376bccdaa 315366 mypy_0.3.1-1_all.deb Files: 6f8288722c6559d15475fac0ad04bed2 1923 python optional mypy_0.3.1-1.dsc ef35f7fb86f4a8fca9b7292d0b03a443 419477 python optional mypy_0.3.1.orig.tar.gz ee9e71da66bc0fb1773c39610a44e761 2188 python optional mypy_0.3.1-1.debian.tar.xz ccdd370ea5071aac4433475408b63fd4 315366 python optional mypy_0.3.1-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJXK6MpAAoJEFeKBJTRxkbRGKQP/0+KLe7prcbOLo5/07ls0EG3 8LcBp8J/+cm//7k6J7D3ObIZ5fr5zbr/ExI5yPJEYOti+l6wAPtUFios5pQzdR5X Qu+NRcdtO26q8i1UC7Mtkl/v2N9iNbMEa9lo2s21wHJCeCIl/e1ZcY3xUrgkYjyS WJZlFPw78443m6Lgq/Z8rfstfFqoYkrqLvw5e9EZr/eu7DcqssFI8d2DATEjkAeZ JT2nx2K2hCqTOFd6KnUFEUmPC84RRmVU66ztt6dXq54mnTa6i6+pKsqxJIzSFkLz FfAbwKMP3krwIFlenyMSJLEKuJRUUfrep1Ks6ntrC2/eqlharUArrvyamMJhprCR dNJnVLXWfNBVT3nEMpnvszekBxcTVkGfrJs4UsbP+ioRvZwD14oSDjjuzEHCX2fI brahaXaXjfbKG/YqMgwUViNl9DVuvBY9PhY93u6SDiIeFeK8rMHEAW2YmHq4JsY1 CRhsHF8FLq2WtAQ2ByQPdDR3VkOTZjj05lMY+TW/82O3QeRy5b3a+nY7rD0IIZUL BdQYAEfg9ybt4r9x4L7sFqz5Ws5VqKAhPn3mCv7aM7Z+DRimffgL/XC/5Gj5Fd4J vqW0Ui4UMAKusLkzotXvLGf+bptGnYAtQsmM1pQD6sNn5IEM77iVLlWV7/YcDMQZ /9g7JPhrWGbIUpPXAlsF =Yobe -END PGP SIGNATURE End Message ---
Bug#800828: marked as done (ITP: macs2 -- Model Based Analysis for ChIP-Seq data)
Your message dated Mon, 25 Apr 2016 10:50:16 +0200 with message-id
Bug#815672: marked as done (ITP: spaced -- alignment-free sequence comparison using spaced words)
Your message dated Wed, 30 Mar 2016 11:00:22 + with message-id <e1aldrk-0007dq...@franck.debian.org> and subject line Bug#815672: fixed in spaced 1.0.2+dfsg-1 has caused the Debian Bug report #815672, regarding ITP: spaced -- alignment-free sequence comparison using spaced words 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.) -- 815672: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=815672 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med Team <debian-med@lists.debian.org> * Package name: spaced Version : 1.0.2 Upstream Author : Lars Hahn <lars.h...@stud.uni-goettingen.de> * URL : http://spaced.gobics.de/ * License : GPL Programming Lang: C++ Description : alignment-free sequence comparison using spaced words Spaced (Words) is a new approach to alignment-free sequence comparison. While most alignment-free algorithms compare the word-composition of sequences, spaced uses a pattern of care and don't care positions. The occurrence of a spaced word in a sequence is then defined by the characters at the match positions only, while the characters at the don't care positions are ignored. Instead of comparing the frequencies of contiguous words in the input sequences, this new approach compares the frequencies of the spaced words according to the pre-defined pattern. An information-theoretic distance measure is then used to define pairwise distances on the set of input sequences based on their spaced-word frequencies. Systematic test runs on real and simulated sequence sets have shown that, for phylogeny reconstruction, this multiple-spaced-words approach is far superior to the classical alignment-free approach based on contiguous word frequencies. This package will be maintained by the DebianMed Team. --- End Message --- --- Begin Message --- Source: spaced Source-Version: 1.0.2+dfsg-1 We believe that the bug you reported is fixed in the latest version of spaced, 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 815...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Fabian Klötzl <kloe...@evolbio.mpg.de> (supplier of updated spaced 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, 28 Mar 2016 19:41:33 +0200 Source: spaced Binary: spaced Architecture: source amd64 Version: 1.0.2+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Fabian Klötzl <kloe...@evolbio.mpg.de> Description: spaced - alignment-free sequence comparison using spaced words Closes: 815672 Changes: spaced (1.0.2+dfsg-1) unstable; urgency=medium . * Initial release (Closes: #815672) * Remove the precompiled binary via get-orig-source script * Add a manpage * Fix a problem if the compiler does not support OpenMP * Add autotools as proper build system Checksums-Sha1: 5c9ddb5e5f6b9b5922f69d68843e38297335e304 1932 spaced_1.0.2+dfsg-1.dsc b044b89c9c4e9ef76d7b4da64dcce5689d4892b5 28332 spaced_1.0.2+dfsg.orig.tar.xz 4d2c495b9f588277671aabd7ef9349b4837be0b6 7336 spaced_1.0.2+dfsg-1.debian.tar.xz 43e1482210f90891f65081cbffb1df4f255a39d0 399248 spaced-dbgsym_1.0.2+dfsg-1_amd64.deb d005b3b552adf699a4db75f0776aa0cdfbd68643 48182 spaced_1.0.2+dfsg-1_amd64.deb Checksums-Sha256: 8be19fdbdc2b00cdc8c49aa0afcfa78a58013f25738de3441a01c98abf4b68be 1932 spaced_1.0.2+dfsg-1.dsc 15ef5281bc1b2833369831f808325da654a22868c09d0fe4d775cc1ae766def8 28332 spaced_1.0.2+dfsg.orig.tar.xz b576b3590098a03ba8271a208110c83f1b3c87db193a46b6e378df4809c3dc2b 7336 spaced_1.0.2+dfsg-1.debian.tar.xz f0b114b7fd15062d350887f2e9c3b25ed99e77cb5c02e4e6d743d5dc8b7b5a1c 399248 spaced-dbgsym_1.0.2+dfsg-1_amd64.deb a3807254c10750fc3c164b339e174d27438567307a84d884a46204a4bfe43724 48182 spaced_1.0.2+dfsg-1_amd64.deb Files: 9496a9942e302c9b82ea9409c5ccee2c 1932 science optional spaced_1.0.2+dfsg-1.dsc 85acbee379b8d45eb72f89c2eb4d1187 28332 science optional spaced_1.0.2+dfsg.orig.tar.xz ecc4fd9fb0d8880f28bd9c7450ca922e
Bug#817056: marked as done (ITP: python-typing -- Type Hints for Python)
Your message dated Tue, 8 Mar 2016 10:11:55 +0100 with message-id
Bug#814050: marked as done (ITP: varna -- Visualization Applet for RNA)
Your message dated Mon, 08 Feb 2016 14:00:25 + with message-id <e1asmmb-0007i9...@franck.debian.org> and subject line Bug#814050: fixed in varna 3-93+ds-1 has caused the Debian Bug report #814050, regarding ITP: varna -- Visualization Applet for RNA 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.) -- 814050: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=814050 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: Debian Med team <debian-med@lists.debian.org> Severity: wishlist * Package name: varna Version : 3-93 Upstream Author : Kevin Darty, Alain Denise and Yann Ponty <yann.po...@lri.fr> * URL : http://varna.lri.fr/ * License : GPL-3 Programming Lang: Java Description : Visualization Applet for RNA VARNA is Java lightweight Applet dedicated to drawing the secondary structure of RNA. It is also a Swing component that can be very easily included in an existing Java code working with RNA secondary structure to provide a fast and interactive visualization. . Being free of fancy external library dependency and/or network access, the VARNA Applet can be used as a base for a standalone applet. It looks reasonably good and scales up or down nicely to adapt to the space available on a web page, thanks to the anti-aliasing drawing primitives of Swing. This package is required to update jalview to version 2.9; it will be team maintained by the Debian Med group. --- End Message --- --- Begin Message --- Source: varna Source-Version: 3-93+ds-1 We believe that the bug you reported is fixed in the latest version of varna, 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 814...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated varna 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, 07 Feb 2016 13:51:38 -0800 Source: varna Binary: varna Architecture: source all Version: 3-93+ds-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: varna - Visualization Applet for RNA Closes: 814050 Changes: varna (3-93+ds-1) unstable; urgency=medium . * Initial release. (Closes: #814050) Checksums-Sha1: f358982e09a3098a3a5bf4b16ff823286fd69f3d 1909 varna_3-93+ds-1.dsc 320654e3ba085b5d0e9ec71502cab7629c15b893 412884 varna_3-93+ds.orig.tar.gz 2c1f42a90076af01e3b36b4f26ba773e2007b293 2264 varna_3-93+ds-1.debian.tar.xz a5a9a8d97b9838eb4762d7e636709b5417f90c2b 761230 varna_3-93+ds-1_all.deb Checksums-Sha256: 9709ca9c687fda3bcc55d8828e836ae21809a16dc60c13b9cb5b42d1590807bd 1909 varna_3-93+ds-1.dsc f1994388d19e391ca7fc14f54ac2e91eb8dc3c55924f047ce7ff301b973c00d5 412884 varna_3-93+ds.orig.tar.gz de27c17710155bba8076399014f19d2052af62ca2de830dfd12842c583c56b4c 2264 varna_3-93+ds-1.debian.tar.xz a1288baac67a6de45be7cf8d38815137ceeac87bae87a26612cccf8ef0d440cb 761230 varna_3-93+ds-1_all.deb Files: 931011a3c9441129c825389b8c3b1c9e 1909 science optional varna_3-93+ds-1.dsc 7c842353ec61bdb3f8dea48502ca22b5 412884 science optional varna_3-93+ds.orig.tar.gz 9289ff7481115ef9ba92c255b2ed32cb 2264 science optional varna_3-93+ds-1.debian.tar.xz 90185eb49e74608598b6a2c26bef8524 761230 science optional varna_3-93+ds-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v2 iQIcBAEBCAAGBQJWuC8rAAoJEFeKBJTRxkbRexsP/2CN+6cp+7xhe7OHUlAzc2PR +VWZDny7g9b6GTEhw988xA42U6kGic6nXjOHpfLSgWcqtz43HQmbr3Xtz3xBq7AX sNn+bLb8VkCPeWnqqqtm93LBPXqS0DpG4tsrWqa4IIpuIP/nXvhhmShprtKX1Knd mrhWSQvMZeB2oZ8IgsdvntLSErJo2G1Ox8r4YDFz1aWtf5NKLrkTwcJP84E1V0fu WVems+FmhjLLHzkxrSVDdv6Syulz9yf3pRzNA7GBDjD9lis0TzV3Tr/KFdgEMWj5 6BXZ6hNzf9vZpQq8zIZjKl8uSCTVDwcnLhWwoB9kB+AFIEVkVeQbqRdZJfXXcCp5 HzmRnCjxyrCzLAb2w5Numb1P737KEGgKFs/L3NYOsRxWyV2IIZ+mJQHIcLeea9nH Qo2RvmIrMGXU14m1aFAmM0v3mSxRYSGdhBRYh3vdNb865ha/TKakPXqL7aoE7Fa+ MItD511HVxKj1ahVCagQHvbBTlbJVg4KTDe+kt5ksNVntFdcr/bGtlSblAw+FP8e NwU0Oi26Oh2ixa7c5rqyCFMgHpmk
Bug#813839: marked as done (ITP: python-schema-salad -- rdflib extension adding JSON-LD parser and serializer)
Your message dated Mon, 08 Feb 2016 05:02:05 + with message-id <e1asdxd-0004ye...@franck.debian.org> and subject line Bug#813839: fixed in python-schema-salad 1.6.2016020448-1 has caused the Debian Bug report #813839, regarding ITP: python-schema-salad -- rdflib extension adding JSON-LD parser and serializer 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.) -- 813839: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=813839 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> * Package name: python-schema-salad Version : 1.6.2016020448 Upstream Author : Common workflow language working group <common-workflow-langu...@googlegroups.com> * URL : https://pypi.python.org/pypi/schema-salad * License : Apache-2.0 Programming Lang: Python Description : Schema Annotations for Linked Avro Data (SALAD) Salad is a schema language for describing JSON or YAML structured linked data documents. Salad is based originally on JSON-LD and the Apache Avro data serialization system. Salad schema describes rules for preprocessing, structural validation, and link checking for documents described by a Salad schema. Salad features for rich data modeling such as inheritance, template specialization, object identifiers, object references, documentation generation, and transformation to RDF. Salad provides a bridge between document and record oriented data modeling and the Semantic Web. A dependency of cwltool; will be co-maintained by the debian-med team. --- End Message --- --- Begin Message --- Source: python-schema-salad Source-Version: 1.6.2016020448-1 We believe that the bug you reported is fixed in the latest version of python-schema-salad, 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 813...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated python-schema-salad 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: Fri, 05 Feb 2016 02:18:38 -0800 Source: python-schema-salad Binary: python-schema-salad Architecture: source all Version: 1.6.2016020448-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: python-schema-salad - Schema Annotations for Linked Avro Data (SALAD) Closes: 813839 Changes: python-schema-salad (1.6.2016020448-1) unstable; urgency=medium . * Initial release. (Closes: #813839) Checksums-Sha1: b22b272400edf9b5f289a617da4c1e6eea2b8db0 2256 python-schema-salad_1.6.2016020448-1.dsc d2a2009603bfa53da77e38f6ecc4289f432cec3f 29682 python-schema-salad_1.6.2016020448.orig.tar.gz 30f64d674440875ff895fe7160205861996e52b0 2280 python-schema-salad_1.6.2016020448-1.debian.tar.xz 848e7e6c5dd013886b13cb0e6630e93823c91d01 27844 python-schema-salad_1.6.2016020448-1_all.deb Checksums-Sha256: 35d148604f721c22cdb98a827f7497d6a11e11ef1cacdc537f7b76387da4409b 2256 python-schema-salad_1.6.2016020448-1.dsc b9797865a2db9b87e0d8d1115bd2dbf60b9bd8844db50b67b42d65944fc7a59e 29682 python-schema-salad_1.6.2016020448.orig.tar.gz 51c7c2546bce4152423e892d31ee3b63d6e4dd4f785758069189e460cb9af3f1 2280 python-schema-salad_1.6.2016020448-1.debian.tar.xz 73f13d674701cb7e20cba3aebcb11d0a993ca08aed3e6747bf934583cc06e163 27844 python-schema-salad_1.6.2016020448-1_all.deb Files: 298ea4cf00af2988e6a2144ab2710a23 2256 python optional python-schema-salad_1.6.2016020448-1.dsc 4ef3fcb28541edd3c30bd134d29cb14d 29682 python optional python-schema-salad_1.6.2016020448.orig.tar.gz 27af185e740a451510d6732816a3774e 2280 python optional python-schema-salad_1.6.2016020448-1.debian.tar.xz 91217492d5b84f5485c3506c738c1393 27844 python optional python-schema-salad_1.6.2016020448-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v2 iQIcBAEBCAAGBQJWt1boAAoJEFeKBJTRxkbRYdUP/3n2KPqmwxEHgQRBi3
Bug#813827: marked as done (ITP: python-rdflib-jsonld -- rdflib extension adding JSON-LD parser and serializer)
Your message dated Sun, 07 Feb 2016 00:09:00 + with message-id <e1ascus-0004kb...@franck.debian.org> and subject line Bug#813827: fixed in python-rdflib-jsonld 0.3-1 has caused the Debian Bug report #813827, regarding ITP: python-rdflib-jsonld -- rdflib extension adding JSON-LD parser and serializer 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.) -- 813827: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=813827 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: Debian Med team <debian-med@lists.debian.org> Severity: wishlist * Package name: python-rdflib-jsonld Version : 0.3 Upstream Author : RDFLib Team * URL : https://github.com/RDFLib/rdflib-jsonld * License : BSD Programming Lang: Python Description : rdflib extension adding JSON-LD parser and serializer This parser/serialiser will . - read in an JSON-LD formatted document and create an RDF graph - serialize an RDF graph to JSON-LD formatted output This package is in the dependency chain for the cwltool and will be co-maintained by the debian-med team. --- End Message --- --- Begin Message --- Source: python-rdflib-jsonld Source-Version: 0.3-1 We believe that the bug you reported is fixed in the latest version of python-rdflib-jsonld, 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 813...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated python-rdflib-jsonld 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: Fri, 05 Feb 2016 02:18:38 -0800 Source: python-rdflib-jsonld Binary: python-rdflib-jsonld python3-rdflib-jsonld Architecture: source all Version: 0.3-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: python-rdflib-jsonld - rdflib extension adding JSON-LD parser and serializer in Python 2 python3-rdflib-jsonld - rdflib extension adding JSON-LD parser and serializer in Python 3 Closes: 813827 Changes: python-rdflib-jsonld (0.3-1) unstable; urgency=medium . * Initial release. (Closes: #813827) Checksums-Sha1: 5f3e35986462b2f9ad4e7a522b2434c471f66e47 2372 python-rdflib-jsonld_0.3-1.dsc 21c4e838667b0932705c9e7105dda3edf389c23a 57744 python-rdflib-jsonld_0.3.orig.tar.gz 7c5d9fbfddd82d4d48924d7d8000f639caacb35f 2356 python-rdflib-jsonld_0.3-1.debian.tar.xz fdc9d3cb9f3a164098df0cd2f054aae32b174160 6 python-rdflib-jsonld_0.3-1_all.deb 38889f1746c7c30c310890e4e60a68092a74f2e4 11164 python3-rdflib-jsonld_0.3-1_all.deb Checksums-Sha256: b5fbac706dcbd3795ebe42d331d1583cfc1e9449aecd0ae0e6e4239069b2c95a 2372 python-rdflib-jsonld_0.3-1.dsc 944a1cf22a217bd78acacc183ea329848cba3f24d0cfb86541b42732cd412a88 57744 python-rdflib-jsonld_0.3.orig.tar.gz 55b5c89b984e3cb63ff57a4b67ad14188aa2d63f761cbc5188ba80a46057d2ee 2356 python-rdflib-jsonld_0.3-1.debian.tar.xz 39750af2381f95c16b5931735e61a84464a4feef6b57d58f1e41925e0aebb4fd 6 python-rdflib-jsonld_0.3-1_all.deb 40d913769727bf0a64fcce2a29fd66adde9008dbcff09fb9753b282977531adf 11164 python3-rdflib-jsonld_0.3-1_all.deb Files: e8e74b591439373eafc3e0d7c031317f 2372 python optional python-rdflib-jsonld_0.3-1.dsc 653083508e904bfd2c240b03a446d6c2 57744 python optional python-rdflib-jsonld_0.3.orig.tar.gz c27ec214c80a6015709fcaef95bf603e 2356 python optional python-rdflib-jsonld_0.3-1.debian.tar.xz 7966ccdd264cc155bf7656c07f8e2a16 6 python optional python-rdflib-jsonld_0.3-1_all.deb 6b02921660ad7346edea96f5b67c72e4 11164 python optional python3-rdflib-jsonld_0.3-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v2 iQIcBAEBCAAGBQJWtQgYAAoJEFeKBJTRxkbRLi8P/1jH4iwSwrkjvR+UJh6Fc3Fb StLAV/K2nORpBb8K2SiolYEfYoiIdv6BObnrc6OgXGqg0WPRWtsBnLUdYhJi54bl XqkdB1d2DhrCp3ZBr/NAcNM23xDMzmddiBm8QhzQ7kz0jvsp/nrvqUTpr8QPFG7Q Bj3maxSEv4YNygM5J8AmcivJzdui0qXoCGx+9Gi4eEZiyztQ/4HzcAk0P3VTtybK BqvTCQMZp7lj1eWvM28Sq7SZsTVIVLyzG4e/IwLM2qYsOa+DOYhN8T7+0Bp4zBbi WvX
Bug#800339: marked as done (ITP: salmon -- wicked-fast transcript quantification from RNA-seq data)
Your message dated Fri, 05 Feb 2016 23:05:20 + with message-id <e1arpri-0004fw...@franck.debian.org> and subject line Bug#800339: fixed in salmon 0.4.2+ds1-1 has caused the Debian Bug report #800339, regarding ITP: salmon -- wicked-fast transcript quantification from RNA-seq data 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.) -- 800339: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800339 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: salmon Version : 0.4.2 Upstream Author : Rob Patro, Carl Kingsford and Steve Mount * URL : https://github.com/COMBINE-lab/salmon * License : GPL-3 Programming Lang: C++ Description : wicked-fast transcript quantification from RNA-seq data Salmon is a wicked-fast program to produce a highly-accurate, transcript-level quantification estimates from RNA-seq data. Salmon achieves is accuracy and speed via a number of different innovations, including the use of lightweight alignments (accurate but fast-to-compute proxies for traditional read alignments) and massively-parallel stochastic collapsed variational inference. The result is a versatile tool that fits nicely into many different pipelines. For example, you can choose to make use of our lightweight alignments by providing Salmon with raw sequencing reads, or, if it is more convenient, you can provide Salmon with regular alignments (e.g. computed with your favorite aligner), and it will use the same wicked-fast, state-of-the-art inference algorithm to estimate transcript-level abundances for your experiment. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: salmon Source-Version: 0.4.2+ds1-1 We believe that the bug you reported is fixed in the latest version of salmon, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated salmon 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: Fri, 18 Sep 2015 18:40:38 -0700 Source: salmon Binary: salmon Architecture: source amd64 Version: 0.4.2+ds1-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: salmon - wicked-fast transcript quantification from RNA-seq data Closes: 800339 Changes: salmon (0.4.2+ds1-1) unstable; urgency=low . * Initial release (Closes: #800339) Checksums-Sha1: 6c5073fb6a1da6902fda6261915daba023febb92 2296 salmon_0.4.2+ds1-1.dsc c6a43f86d009904946909adf953992200a5c3a66 865676 salmon_0.4.2+ds1.orig.tar.gz e837b7e063ce9dc95c39cc1369053ea027ebad34 13348 salmon_0.4.2+ds1-1.debian.tar.xz 4868f127e88c57d1d0b8fc1d56c995fb7b5b795f 167314 salmon-dbgsym_0.4.2+ds1-1_amd64.deb 2722bca663722bf679b5bf8641e7c02c2f552640 1277292 salmon_0.4.2+ds1-1_amd64.deb Checksums-Sha256: 708e86c90562a1ed5565bd5056ce44c19938d660e9145e241fdc352f6fb7996c 2296 salmon_0.4.2+ds1-1.dsc 44f75786b68e9b81f2a6ccffb0ee5aefb369362ce73d753fc40b68cea0df7f9b 865676 salmon_0.4.2+ds1.orig.tar.gz abb4a0cdab3fe74292399764be0d2a50c2ea3cc5ce7f44756b2ba5a6a73cc4ee 13348 salmon_0.4.2+ds1-1.debian.tar.xz 8109533ed0f2b452cf55cbdecf99fa199503a1c209dfc9bd7e0dc1c6fb1c5c4d 167314 salmon-dbgsym_0.4.2+ds1-1_amd64.deb 6c1bd7f6cd01b2a6ec8cb27b113a563754c7ff9f4c42d18c4d6e1c0d54174a40 1277292 salmon_0.4.2+ds1-1_amd64.deb Files: a30b2813d046c04d8979b91cd0080147 2296 science optional salmon_0.4.2+ds1-1.dsc 10375315ec2361c9eb64cba32efd1492 865676 science optional salmon_0.4.2+ds1.orig.tar.gz 9ce684a1b0e0c8687252680f1a2d38aa 13348 science optional salmon_0.4.2+ds1-1.debian.tar.xz ead55fb447ea4f7c0fbebcd8c230aef3 167314 debug extra salmon-dbgsym_0.4.2+ds1-1_amd64.deb dd1d03006fdbde8779b7053c423f99bd 1277292 science optional salmon_0.4.2+d
Bug#800335: marked as done (ITP: libcereal -- C++11 library for serialization)
Your message dated Fri, 29 Jan 2016 23:00:25 + with message-id <e1api1h-0006vr...@franck.debian.org> and subject line Bug#800335: fixed in libcereal 1.1.2-1 has caused the Debian Bug report #800335, regarding ITP: libcereal -- C++11 library for serialization 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.) -- 800335: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800335 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: cereal Version : 1.1.2 Upstream Author : Randolph Voorhies, Shane Grant < cereal...@googlegroups.com> * URL : https://github.com/USCiLab/cereal * License : bsd-3-clause Programming Lang: C++ Description : C++11 library for serialization cereal is a header-only C++11 serialization library. cereal takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, XML, or JSON. cereal was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone. This program is a dependency for salmon. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: libcereal Source-Version: 1.1.2-1 We believe that the bug you reported is fixed in the latest version of libcereal, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated libcereal 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: SHA512 Format: 1.8 Date: Fri, 18 Sep 2015 19:13:43 -0700 Source: libcereal Binary: libcereal-dev libcereal-doc Architecture: source amd64 all Version: 1.1.2-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: libcereal-dev - C++11 library for serialization libcereal-doc - C++11 library for serialization HTML documentation Closes: 800335 Changes: libcereal (1.1.2-1) unstable; urgency=low . * Initial release (Closes: #800335) Checksums-Sha1: 9a9d19386feed2928092abb662af9d1f6c331ebb 2068 libcereal_1.1.2-1.dsc fd65224cf628119fe1d85cbca63214c4f6a82e75 201978 libcereal_1.1.2.orig.tar.gz 44d3ed9ccbd606b9523c3055b09279e00766b561 4164 libcereal_1.1.2-1.debian.tar.xz 1712e7cebed82b9bcac8569d1407988c5324f098 103820 libcereal-dev_1.1.2-1_amd64.deb 4a0fdb2d8a5db5bc3bd9a8c090970257009a0ad4 345024 libcereal-doc_1.1.2-1_all.deb Checksums-Sha256: 73b8c774c8eb83bf384f6e0f1fa782e7bad97894751cead090a33767ceee39ed 2068 libcereal_1.1.2-1.dsc 45607d0de1d29e84d03bf8eecf221eb2912005b63f02314fbade9fbabfd37b8d 201978 libcereal_1.1.2.orig.tar.gz 9a4a071ba800bc7294757edf80f214959b854f836d803327503f62145390 4164 libcereal_1.1.2-1.debian.tar.xz a1b182ce2738fe38f63241ec920be9d02cf2428f8df3b8397e0ee9d74c0ad634 103820 libcereal-dev_1.1.2-1_amd64.deb 76ae251e5f974214224d22e7b4c3286667eaeb09e995c86742cf6d0eac6f7936 345024 libcereal-doc_1.1.2-1_all.deb Files: 362d54d7643e00fc2ee6bc76ec2a298c 2068 libdevel optional libcereal_1.1.2-1.dsc 34d4ad174acbff005c36d4d10e48cbb9 201978 libdevel optional libcereal_1.1.2.orig.tar.gz f5632584a2fd90f7e349fc447792a56c 4164 libdevel optional libcereal_1.1.2-1.debian.tar.xz 2d176bac5a95cb2f241224c8862b3415 103820 libdevel optional libcereal-dev_1.1.2-1_amd64.deb 75f8bdb6fe512ec8d76cbed7509733f6 345024 doc optional libcereal-doc_1.1.2-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCgAGBQJWq9GtAAoJEFeKBJTRxkbRsAIP/3o+GnU6tkVVS7PO4qo/W+ox Ze+WJ/Y6T05ku8CxLswEF294kBhfyOS76AWcbBZBQl3SqTe1MkcEkADqWtduaRbd B+8iThz3Por/eRW8KkTXAVwZwpbXWnccHMH2z+Xb6NhKjXtZqST50Xi1uGZghm7E tCL6Jgt7857tPGwiH01PT+WBjr9qPLVevVe/vz1WrynSfT6lzSBti9vpWREqTRAO 5jsUjgwlrjW7eOJzdq31Yy/E0JoJLGFPTkiUQgr1+j4Wt0bHPekHEJaZ2f+V+b4p CvpwdL2N1Kv
Bug#800340: marked as done (ITP: snap-aligner -- Scalable Nucleotide Alignment Program)
Your message dated Fri, 22 Jan 2016 11:00:48 + with message-id <e1amzss-0004pv...@franck.debian.org> and subject line Bug#800340: fixed in snap-aligner 0.18~1.0~beta.18+dfsg1-1 has caused the Debian Bug report #800340, regarding ITP: snap-aligner -- Scalable Nucleotide Alignment Program 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.) -- 800340: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800340 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: snap-aligner Version : 0.18~1.0~beta.18 Upstream Author : The SNAP Team * URL : http://snap.cs.berkeley.edu/ * License : Apache-2.0 Programming Lang: C++ Description : Scalable Nucleotide Alignment Program SNAP is a fast and accurate aligner for short DNA reads. It is optimized for modern read lengths of 100 bases or higher, and takes advantage of these reads to align data quickly through a hash-based indexing scheme. This package is a dependency for 'transrate'. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: snap-aligner Source-Version: 0.18~1.0~beta.18+dfsg1-1 We believe that the bug you reported is fixed in the latest version of snap-aligner, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated snap-aligner 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: Sat, 19 Sep 2015 20:20:26 -0700 Source: snap-aligner Binary: snap-aligner Architecture: source amd64 Version: 0.18~1.0~beta.18+dfsg1-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: snap-aligner - Scalable Nucleotide Alignment Program Closes: 800340 Changes: snap-aligner (0.18~1.0~beta.18+dfsg1-1) unstable; urgency=low . * Initial release (Closes: #800340) Checksums-Sha1: c5f70c549ea107a1d2871783cd22ebd10d3ce066 2092 snap-aligner_0.18~1.0~beta.18+dfsg1-1.dsc 619b4c4cc646a385e36c2b03fdf504bbca4c3c16 1975632 snap-aligner_0.18~1.0~beta.18+dfsg1.orig.tar.xz 5d83691309b291aaad7ec22b075c19dbdec18185 5932 snap-aligner_0.18~1.0~beta.18+dfsg1-1.debian.tar.xz b417c34a0d8b630096699dac0c117a8ad2941981 1739726 snap-aligner-dbgsym_0.18~1.0~beta.18+dfsg1-1_amd64.deb 8800ae6e8dc5b70b8c64a4659bbc733566cd73ba 1637696 snap-aligner_0.18~1.0~beta.18+dfsg1-1_amd64.deb Checksums-Sha256: 53d42ec15a6490afe8613483354790940c327ab02a031712346583a7060b8a96 2092 snap-aligner_0.18~1.0~beta.18+dfsg1-1.dsc a5ed636903d9c37cf51f09973003b39d571882ba399d437c263fd7f755f55fdb 1975632 snap-aligner_0.18~1.0~beta.18+dfsg1.orig.tar.xz c0a087e309c9424be55516af25b39f950c7a63926f76fd6fadfa104b1884157d 5932 snap-aligner_0.18~1.0~beta.18+dfsg1-1.debian.tar.xz bc9bc875394912089d9ded865ca3b2e46fd698e6624713144c60e84e8fd83ce4 1739726 snap-aligner-dbgsym_0.18~1.0~beta.18+dfsg1-1_amd64.deb 3e0b5e259b3cd4f154f2cd6167e307243aa05fcaeb8f4ebb8e0a5a0529255d14 1637696 snap-aligner_0.18~1.0~beta.18+dfsg1-1_amd64.deb Files: 80c09032177aec6371acbbfc28772eea 2092 science optional snap-aligner_0.18~1.0~beta.18+dfsg1-1.dsc a435cf84e55809d806f569778bf1ed45 1975632 science optional snap-aligner_0.18~1.0~beta.18+dfsg1.orig.tar.xz 53c70c12f38aec9a32b32c301209ae30 5932 science optional snap-aligner_0.18~1.0~beta.18+dfsg1-1.debian.tar.xz db4b6c0de0c65a213b4fcb2450a82c22 1739726 debug extra snap-aligner-dbgsym_0.18~1.0~beta.18+dfsg1-1_amd64.deb 34549f585349c5370b9a4ebcba733034 1637696 science optional snap-aligner_0.18~1.0~beta.18+dfsg1-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJWoKojAAoJEFeKBJTRxkbRx/AP/j9cP+63KF4hdN6ZRw/4xrVl 9DYAyl+pQ89pRGdr3T16kOry52jZpu80REMMRQ8Qf8ni7+DEN/mp06swGV1o/jWx 4++II76kG41RGojX5b7GTqIoDJk6S
Bug#777688: marked as done (ITP: khmer -- in-memory DNA sequence kmer counting, filtering & graph traversal)
Your message dated Sat, 19 Dec 2015 19:00:26 + with message-id <e1aamjy-0007tz...@franck.debian.org> and subject line Bug#777688: fixed in khmer 2.0+dfsg-1 has caused the Debian Bug report #777688, regarding ITP: khmer -- in-memory DNA sequence kmer counting, filtering & graph traversal 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.) -- 777688: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=777688 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: Debian Med mailing list <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-Cc: debian-med@lists.debian.org * Package name: khmer Version : 1.3 Upstream Author : Michael R. Crusoe & C. Titus Brown < khmer-proj...@idyll.org> * URL : http://khmer.readthedocs.org/ * License : BSD-3-Clause Programming Lang: C++, Python Description : in-memory DNA sequence kmer counting, filtering & graph traversal khmer is a library and suite of command line tools for working with DNA sequence. It is primarily aimed at short-read sequencing data such as that produced by the Illumina platform. khmer takes a k-mer-centric approach to sequence analysis, hence the name. Used by many bioinformatic processing pipelines. Co-maintained by the Debian Med team; I am also the lead upstream developer. --- End Message --- --- Begin Message --- Source: khmer Source-Version: 2.0+dfsg-1 We believe that the bug you reported is fixed in the latest version of khmer, 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 777...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated khmer 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: Wed, 09 Sep 2015 08:54:11 +0200 Source: khmer Binary: khmer-common khmer liboxli1 liboxli-dev Architecture: source amd64 Version: 2.0+dfsg-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: khmer - in-memory DNA sequence kmer counting, filtering & graph traversal khmer-common - common files for the khmer project tools liboxli-dev - in-memory DNA sequence analysis dev library liboxli1 - in-memory DNA sequence analysis library from the khmer project Closes: 777688 Changes: khmer (2.0+dfsg-1) unstable; urgency=low . * Initial upload (Closes: #777688) Checksums-Sha1: fbdc72bf5d10fe052147494bce6662a2588cc1bc 2408 khmer_2.0+dfsg-1.dsc 09f19e7345d54a7dc9a2b7413453c383ac3460d6 19288148 khmer_2.0+dfsg.orig.tar.xz e43b8e761300931e74d238d373bf55c080316cda 10196 khmer_2.0+dfsg-1.debian.tar.xz fd95a34ba0827d825efbbd123fc833de4dd87e61 239858 khmer-common_2.0+dfsg-1_amd64.deb 0523d10b20e5af55fc6b09bd2adf532db5f57e28 5960502 khmer_2.0+dfsg-1_amd64.deb 0ca3dd322aa98420de62345aaec243b9ad9bb0c1 275820 liboxli-dev_2.0+dfsg-1_amd64.deb b53c3e4922d058d89622885f96c168b669ac8e9d 220942 liboxli1_2.0+dfsg-1_amd64.deb Checksums-Sha256: c40f2dbf118cf3a32ecad0067c9243398959846c126f2543a5d1d15a3d623b73 2408 khmer_2.0+dfsg-1.dsc 0e408eccd62056c06a49731d029769b292057d0fa9b9758adff5de1c7a332ac0 19288148 khmer_2.0+dfsg.orig.tar.xz 9c32d5a12e1198b1bbe4c172d8359c5e9cef263147b91c2478486bb766c35075 10196 khmer_2.0+dfsg-1.debian.tar.xz 40411fd9436c3fb085d2771dc7c941be17c55c26c48c7a632a9602ba02995419 239858 khmer-common_2.0+dfsg-1_amd64.deb b6a85110e8a6af8ee6233d674f3177db9c97bf28afed3e17c2f471ff2bad92fd 5960502 khmer_2.0+dfsg-1_amd64.deb 583a5917fe17cc51bca5dad98b97daff4fce211bbc1e8dec06a188ed48ebc07e 275820 liboxli-dev_2.0+dfsg-1_amd64.deb 0054159222476ce93827872daef444e7db25e4831264c0f7488839bf38e6f3b6 220942 liboxli1_2.0+dfsg-1_amd64.deb Files: d0aa7edbe875e401d734209c30e70936 2408 science optional khmer_2.0+dfsg-1.dsc 3684c790194ed57d85404e81bee52cb1 19288148 science optional khmer_2.0+dfsg.orig.tar.xz 6737b6e50ddb137f277f12d545366d64 10196 science optional khmer_2.0+dfsg-1.debian.tar.xz 0e7a07a7477c29b10a61ca3a93b9491a 239858
Processed: Re: Bug#800335: cereal: source package name conflicts
Processing control commands: > retitle -1 ITP: libcereal -- C++11 library for serialization Bug #800335 [wnpp] ITP: cereal -- C++11 library for serialization Changed Bug title to 'ITP: libcereal -- C++11 library for serialization' from 'ITP: cereal -- C++11 library for serialization' -- 800335: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800335 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#692332 closed by Andreas Tille <ti...@debian.org> (Bug#692332: fixed in sga 0.10.13-1)
This is an automatic notification regarding your Bug report which was filed against the wnpp package: #692332: RFP: sga -- de novo genome assembler based on the concept of string graphs It has been closed by Andreas Tille <ti...@debian.org>. Their explanation is attached below along with your original report. If this explanation is unsatisfactory and you have not received a better one in a separate message then please contact Andreas Tille <ti...@debian.org> by replying to this email. -- 692332: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=692332 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Source: sga Source-Version: 0.10.13-1 We believe that the bug you reported is fixed in the latest version of sga, 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 692...@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 sga 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: Wed, 09 Sep 2015 10:44:48 +0200 Source: sga Binary: sga Architecture: source amd64 Version: 0.10.13-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Description: sga- de novo genome assembler that uses string graphs Closes: 692332 Changes: sga (0.10.13-1) unstable; urgency=low . * Initial release (Closes: #692332) Checksums-Sha1: 120df8360540035dd0db54975b49d2d74585747e 2005 sga_0.10.13-1.dsc 36d5a23a393c968120988dd94bad9d561b0e0c4e 6553197 sga_0.10.13.orig.tar.gz ba532c45e14ccae057056df1711a0a3ac2efa501 209544 sga_0.10.13-1.debian.tar.xz bdbc1965ea4c856db1727356de3b070abd1deca3 928838 sga_0.10.13-1_amd64.deb Checksums-Sha256: 69fa4ecc5027eedf4c6bdb1e545097daa73dc6ff3b5ff4a80d4fbc725fea4682 2005 sga_0.10.13-1.dsc 77859ab233980594941aa4c4cb5c2cbe1f5c43f2519f329c3a88a97865dee599 6553197 sga_0.10.13.orig.tar.gz d1313e08c180db83bde9bef7968fbeefcd30672968c50f44f953ba52275bed31 209544 sga_0.10.13-1.debian.tar.xz fe358941b228b86b58b22097c0efc6324b03731e92906e434c6b1d61f1e1f733 928838 sga_0.10.13-1_amd64.deb Files: 99e8b29cd3e984eea0302274d1549a86 2005 science optional sga_0.10.13-1.dsc d4f6aefc48c940dba96cc6513649ecdd 6553197 science optional sga_0.10.13.orig.tar.gz 1a2f42dcc89c5c01e3866b599f3882d9 209544 science optional sga_0.10.13-1.debian.tar.xz 3f83fb343728bbae88f215799212263e 928838 science optional sga_0.10.13-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJWPmlxAAoJEFeKBJTRxkbRSJwP/jPwW0v6pFrwrenm/oPyZ/rB H4vsFrv463xzuPeraWBxTXlr5TbiQeK95tS4o1MDeA5lVzFPauno2sA6NtcLooRo MNcqr2ofoAl8I8EtAJ7af/xbENkAWAaJJv+kONPWHhxh0nLHjhUSzjaHnS6h0dgk j7KISRE4k8qwrJUtcswK1DWZYRlYXvm23avfsUM2Lb1BbL03kH/f7B/iX9UAtbZk LkGUYse31Z4+iS6UKjAfDohFBMaxUHmUn3wFIJlHu5S4pw7eZYU3yDi1PttWvdwX lzhyTqILAF5g4imPUAxBEwKXViFw0U8MiIcoGfZCO6PKnZ6H6UlanUGaX8nnp+tr mrBD9s3rfliidS4hUfKZwfMX28c4LmApw08Ontm/ivm0WP/NJWSsoqSIOZ35CxM3 i7aoDBMJGve6D3LCPBD5FwaLTofLlj8kkidHMYgZ6p3DX3ta/XfdCfjlhJTpaung yFI3uwx0/MnsV+tjPhhrfmZ02c4EYcbOev1KZAdLle4+xiZ6a51ftmjy2djf3kgK qqo1DkA6Nb9VKfmZIvbzzwHQJJBwH/vabXeGEiJANAlMoUNlkYpX/Uk3ikOswO3W vZe/DnHseqze1Lve7IvfN3XYLE0WOfBG67vH1sDq57WgmNgHURU0c5IRoQqlKwLA 66xLAtK1guI2qbFRyKiI =uvaW -END PGP SIGNATURE End Message --- --- Begin Message --- Package: wnpp Severity: wishlist Owner: "Michael R. Crusoe" <mcru...@asu.edu> * Package name: sga Version : 0.9.35 Upstream Author : Jared Simpson <j...@sanger.ac.uk> * URL : https://github.com/jts/sga * License : GPLv3 Programming Lang: C++ Description : A de novo genome assembler based on the concept of string graphs. The major goal of SGA is to be very memory efficient, which is achieved by using a compressed representation of DNA sequence reads. SGA is a de novo assembler for DNA sequence reads. It is based on Gene Myers' string graph formulation of assembly and uses the FM-index/Burrows-Wheeler transform to efficiently find overlaps between sequence reads. The core algorithms are described in this paper: http://bioinformatics.oxfordjournals.org/cgi/content/abstract/26/12/i367 --- End Message ---
Bug#778578: marked as done (ITP: rsem -- RNA-Seq by Expectation-Maximization)
Your message dated Wed, 21 Oct 2015 11:00:18 + with message-id <e1zor7y-0002yu...@franck.debian.org> and subject line Bug#778578: fixed in rsem 1.2.22+dfsg-1 has caused the Debian Bug report #778578, regarding ITP: rsem -- RNA-Seq by Expectation-Maximization 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.) -- 778578: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778578 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: rsem Version : 1.2.19 Upstream Author : Bo Li * URL : http://deweylab.biostat.wisc.edu/rsem/ * License : GPL-3 Programming Lang: C++, Perl Description : RNA-Seq by Expectation-Maximization RSEM is a software package for estimating gene and isoform expression levels from RNA-Seq data. The RSEM package provides an user-friendly interface, supports threads for parallel computation of the EM algorithm, single-end and paired-end read data, quality scores, variable-length reads and RSPD estimation. In addition, it provides posterior mean and 95% credibility interval estimates for expression levels. For visualization, It can generate BAM and Wiggle files in both transcript-coordinate and genomic-coordinate. Genomic-coordinate files can be visualized by both UCSC Genome browser and Broad Institute’s Integrative Genomics Viewer (IGV). Transcript-coordinate files can be visualized by IGV. RSEM also has its own scripts to generate transcript read depth plots in pdf format. The unique feature of RSEM is, the read depth plots can be stacked, with read depth contributed to unique reads shown in black and contributed to multi-reads shown in red. In addition, models learned from data can also be visualized. Last but not least, RSEM contains a simulator. RSEM is a popular bioinformatics program and a dependency of trinityrnaseq. It will be maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: rsem Source-Version: 1.2.22+dfsg-1 We believe that the bug you reported is fixed in the latest version of rsem, 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 778...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated rsem 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: Thu, 27 Aug 2015 13:17:53 -0400 Source: rsem Binary: rsem Architecture: source amd64 Version: 1.2.22+dfsg-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: rsem - RNA-Seq by Expectation-Maximization Closes: 778578 Changes: rsem (1.2.22+dfsg-1) unstable; urgency=low . * Initial release (Closes: #778578) Checksums-Sha1: cf4465ffd932acdc4af9afd8adebe557a59bd7b3 1974 rsem_1.2.22+dfsg-1.dsc 9b042597f22ca80c2cd65602ba3e3b187f978653 128327 rsem_1.2.22+dfsg.orig.tar.gz 18ea6b1a85218aab8ad5014c2b90f8fb384e77ba 5728 rsem_1.2.22+dfsg-1.debian.tar.xz aa6bcb9aadd1b6f8ebbb69838027f3653e50e4cc 475010 rsem_1.2.22+dfsg-1_amd64.deb Checksums-Sha256: f2ea8f62bec5be9022420e972af311a90f096dd9e25105b5c6bd0d761e27ff95 1974 rsem_1.2.22+dfsg-1.dsc 72259849fb3303fd9998a9496925a0d4c3cee7b9eb4d2b660d06e9de83ad3651 128327 rsem_1.2.22+dfsg.orig.tar.gz 4feac9bb70392014fc065f251434795a66e10a6ed3f13cbfdacf4be3f5fb560f 5728 rsem_1.2.22+dfsg-1.debian.tar.xz 8a5cae64ce9bef8aa8a02f7b6a84884fb9a46b031c410fa765a9a704b4792f42 475010 rsem_1.2.22+dfsg-1_amd64.deb Files: a232d21f01a1340dc2d92e6a22159280 1974 science optional rsem_1.2.22+dfsg-1.dsc acce30151308dfc3d234a29ead6c3ee1 128327 science optional rsem_1.2.22+dfsg.orig.tar.gz cee89ad822a9501d4cc9d7157d9e5148 5728 science optional rsem_1.2.22+dfsg-1.debian.tar.xz 7b8e85a28b4fedca403a2aac8a7ab369 475010 science optional rsem_1.2.22+dfsg-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCA
Bug#800336: marked as done (ITP: libgff -- GFF/GTF parsing from cufflinks as a library)
Your message dated Mon, 19 Oct 2015 10:00:43 + with message-id <e1zo7fd-0004nc...@franck.debian.org> and subject line Bug#800336: fixed in libgff 1.0-1 has caused the Debian Bug report #800336, regarding ITP: libgff -- GFF/GTF parsing from cufflinks as a library 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.) -- 800336: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800336 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: libgff-dev Version : 1.0 Upstream Author : Rob Patro <rob.pa...@cs.stonybrook.edu> * URL : http://www.cs.cmu.edu/~robp/files/libgff.tgz * License : BSL-1.0 Programming Lang: C++ Description : GFF/GTF parsing from cufflinks as a library This is a simple "libraryfication" of the GFF/GTF parsing code that is used in the Cufflinks codebase. There are not many (any?) relatively lightweight GTF/GFF parsers exposing a C++ interface, and the goal of this library is to provide this functionality without the necessity of drawing in a heavy-weight dependency like SeqAn. This package is a dependency for salmon. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: libgff Source-Version: 1.0-1 We believe that the bug you reported is fixed in the latest version of libgff, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated libgff 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: SHA512 Format: 1.8 Date: Fri, 18 Sep 2015 20:31:46 -0700 Source: libgff Binary: libgff-dev Architecture: source amd64 Version: 1.0-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: libgff-dev - GFF/GTF parsing from cufflinks as a library Closes: 800336 Changes: libgff (1.0-1) unstable; urgency=low . * Initial release (Closes: #800336) Checksums-Sha1: a30a3e5164672d9ae8339eb44ed40d629228bf65 1897 libgff_1.0-1.dsc 969db70a9dc723e01395ee89f9e0ab135b5c2420 74903 libgff_1.0.orig.tar.bz2 1aec9606fcac96665042f4f5c486e01dde0cd86f 2156 libgff_1.0-1.debian.tar.xz ac255fbfc6b5923318a20e87578d7604f35fc31a 136042 libgff-dev_1.0-1_amd64.deb Checksums-Sha256: 1c423a4b830e4609666057a3b2de5a66d4b3c251bb34a4a4bf6b28683024c4dc 1897 libgff_1.0-1.dsc fff3722877ef262f20c3a4539bd9864bc583ad7d7e3a01ff2a8557ca3a8df360 74903 libgff_1.0.orig.tar.bz2 2fdd0f0ea9c20b5618a3ca8cf1fc315feb7cb5084b769b25046839ae43373a9d 2156 libgff_1.0-1.debian.tar.xz 73331c08b75978bbd15bbe2b343ae2448223e267923eeacce69f1177e300aee2 136042 libgff-dev_1.0-1_amd64.deb Files: 03116ccecad29e42f48f9eb738754802 1897 libdevel optional libgff_1.0-1.dsc 8d1e61d2fdf24e432b3ac8f43374301e 74903 libdevel optional libgff_1.0.orig.tar.bz2 f56f9126644a42fd8a4d0ff181eaf1f3 2156 libdevel optional libgff_1.0-1.debian.tar.xz 1fd62b1f74b7a6cb6f149a528ce41cb9 136042 libdevel optional libgff-dev_1.0-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCgAGBQJWCu7AAAoJEFeKBJTRxkbRcWcP/RrjB+F3t5Ch7KPwtA3O+Yc6 6k4WpAI8whp6sUZ+Mc4mhocvwOiZIjLKw6xvv+5x2Cd1+3arr+lBecMbn5C9NO5G lQYEVUZCIo55FD3EDY/oNyEL3LUcw6VQSEEnS5Sb30P22ZX40WuATFPWR3cxHVK5 kfzD5dWHYWk4w1e8AC6QQOvlXfPMxfC8HEHxoboUdAqiW1YHB2DgAyyPrYYqwTQh 9BEpK6X5tGERDylsugnlImJ7yG7KnhdbWtAJiqWAeap2I5PEIn2BKzKKad7SpRWx mz35E3KWNhrA7QinFi45j7fR7el7xToM/8LwgFzZ0S4ft2IHxzZLFtXXvcO5/xra x2VeDm67DRONEqD9QdNbCsW5OXWiOwmyS8acsT2v1s33AWEfjfvZoOqvCDvWaaZ2 usWqsbB8LVoCy1Xgd0mdKHA39mwm5tPi+NXUO/4WyVX6/R5Ttv8l1j7KeO6FDwHA MSD5ywFJtHG+BGKHAv3yDXQUg7/GjURA8OBLiSX93iibQGGt2jcSbLYZCAapSjEM 6LQbduVk6y1jUGLOcgdsXJuF3Wrx32E53fCGFaeAfCzEAD7JkaMu17YMlCrIocOU nMbyyF9vgV/bdvtWUq3W0UMfKtEfD7+oUpNL/wF0TRqW9qKt6fWYI3feeg5Oevlp xD53v3szk79bCesvFga3 =wXj8 -END PGP SIGNATURE End Message ---
Bug#800337: marked as done (ITP: libspdlog-dev -- Very fast, header only, C++ logging library)
Your message dated Sun, 18 Oct 2015 13:00:24 + with message-id <e1znnzy-00045d...@franck.debian.org> and subject line Bug#800337: fixed in spdlog 1.4-1 has caused the Debian Bug report #800337, regarding ITP: libspdlog-dev -- Very fast, header only, C++ logging library 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.) -- 800337: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800337 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: libspdlog-dev Version : 1.4 Upstream Author : Gabi Melman <gmelm...@gmail.com> * URL : https://github.com/COMBINE-lab/spdlog * License : MIT Programming Lang: C++ Description : Very fast, header only, C++ logging library Features: Very fast - performance is the primary goal; Headers only; No dependencies - just copy and use; call style using the excellent cppformat library; ostream call style is supported too; Optional extremely fast asynchronous mode - using lockfree queues and other tricks to reach millions of calls/sec; Custom formatting; Multi/Single threaded loggers; Easily extendable with custom log targets (just implement a single function in the sink interface). Severity based filtering - threshold levels can be modified in runtime as well as in compile time. Various log targets: Rotating log files, Daily log files, Console logging, Linux syslog. This package is a dependency for salmon. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: spdlog Source-Version: 1.4-1 We believe that the bug you reported is fixed in the latest version of spdlog, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated spdlog 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: Fri, 18 Sep 2015 20:31:46 -0700 Source: spdlog Binary: libspdlog-dev Architecture: source amd64 Version: 1.4-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: libspdlog-dev - Very fast, header only, C++ logging library Closes: 800337 Changes: spdlog (1.4-1) unstable; urgency=low . * Initial release (Closes: #800337) Checksums-Sha1: 536e5690aa8d60362304f67d576c215a9677ac3e 1889 spdlog_1.4-1.dsc 604f559cffcc673cf1168d426302525564d97c27 60338 spdlog_1.4.orig.tar.gz b33f3a5e892623bb3210fa6c810739283367b48e 2644 spdlog_1.4-1.debian.tar.xz db97ea7de1192101e228141a5198bbff674ac689 43876 libspdlog-dev_1.4-1_amd64.deb Checksums-Sha256: 5158f6bcaaa5998d15ed589f622724d04966e4433e5888b844aa3ea5f28b7c16 1889 spdlog_1.4-1.dsc 5fb3f3d06b19910cc4fe39eee162620fc37b248a024b917ff053bf3c7647729d 60338 spdlog_1.4.orig.tar.gz 80ae906a094d54416bafea8ab77e1b66996b70b397719993add7a4192c27631f 2644 spdlog_1.4-1.debian.tar.xz 33839870119fefb927458bfefb9b451cd2ee0bd417a8b012364933a7b6f30b7a 43876 libspdlog-dev_1.4-1_amd64.deb Files: dcfbd9708cfa0288078245f217c034ee 1889 libdevel optional spdlog_1.4-1.dsc 869ce93f46beabcaee9eda9de797 60338 libdevel optional spdlog_1.4.orig.tar.gz dc99d8085cda5f872fd77ba09b4a496f 2644 libdevel optional spdlog_1.4-1.debian.tar.xz f986988446487ed502b09761e75b6193 43876 libdevel optional libspdlog-dev_1.4-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJWIekEAAoJEFeKBJTRxkbRDcUP/0s8p2o9TWiUW4Dbz0fZWnYq +USWzs5yltm8m2GmMXxhtz/igfyOuPeiIFCEAkeQTpLN5rV5iA7umAY7QZikkkMP Qg/N15SpRXUCE2YaDSId7y42K+uXuSYjgWJwf+sW4hgq2GbqAV/cmn42N2YewFi3 k9gCcuplTcK09iXKoh+/dVgi8gmuh3LEw5Obaid5br5s8CHFSNIjZlWT+TU3NCpH HOQl1YtV4f6kI+lslgGCMTe2qlfxNd+vFJ2XecxkMeaNtKEyu2LHAgVRU9FFHh07 KBhfAD6Adj8FDqLpKPCbr1QYb+tTC/fqmiqqcEUloO7sA1kOipxrw2MnBeLVw/c3 T+9j1Rc5MA8iB2FZ/gFhBaQbfWRxLIaBLKDezaTpYkocO0WBV+MKN/mF1hdmjzTc FQObm158B73W2o/nt/
Bug#800412: marked as done (ITP: transrate-tools -- command line tool used by transrate to process BAM files)
Your message dated Thu, 01 Oct 2015 16:00:58 + with message-id <e1zhghy-00081j...@franck.debian.org> and subject line Bug#800412: fixed in transrate-tools 1.0.0-1 has caused the Debian Bug report #800412, regarding ITP: transrate-tools -- command line tool used by transrate to process BAM files 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.) -- 800412: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800412 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Owner: "Debian Med Team" <debian-med@lists.debian.org> Severity: wishlist X-Debbugs-CC: debian-med@lists.debian.org * Package name: transrate-tools Version : 1.0.0 Upstream Author : Richard Smith-Unna & Chris Boursnell <rd...@cam.ac.uk> * URL : https://github.com/Blahah/transrate-tools * License : MIT Programming Lang: C++ Description : command line tool used by transrate to process BAM files Transrate is a library and command-line tool for quality assessment of de-novo transcriptome assemblies. This program is a dependency for transrate and provides command line tools used to process BAM files. This package will be maintained as part of the Debian Med packaging team. --- End Message --- --- Begin Message --- Source: transrate-tools Source-Version: 1.0.0-1 We believe that the bug you reported is fixed in the latest version of transrate-tools, 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 800...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Charles Plessy <ple...@debian.org> (supplier of updated transrate-tools 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: SHA512 Format: 1.8 Date: Wed, 30 Sep 2015 20:03:17 +0900 Source: transrate-tools Binary: transrate-tools Architecture: source amd64 Version: 1.0.0-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Charles Plessy <ple...@debian.org> Description: transrate-tools - helper for transrate Closes: 800412 Changes: transrate-tools (1.0.0-1) unstable; urgency=low . * Team upload. . [ Michael R. Crusoe ] * Initial release (Closes: #800412) Checksums-Sha1: b48a4b7c56ebf2e0a493bf3c0c9b09aa15d0132b 2042 transrate-tools_1.0.0-1.dsc 84309a45a9770a22e4ef41a2930f9fb815c0b9fb 6167 transrate-tools_1.0.0.orig.tar.gz 09fda1bfd6d5ebf093c7bc0b42a401c8a821aa14 3292 transrate-tools_1.0.0-1.debian.tar.xz 28cfd45dbed79e88add21c94d4b0ec23a5f3fa4a 16174 transrate-tools_1.0.0-1_amd64.deb Checksums-Sha256: fbb115bd8aeea5342a852be067d7331a7ba756ea8b0b1b659e4b1cbde7c181f8 2042 transrate-tools_1.0.0-1.dsc cdaac24be4f9ad9caf36834e2bc464758afcb5e746c6e9851255c7ac92fad898 6167 transrate-tools_1.0.0.orig.tar.gz b6723f04620d01daa69918ecf1cf6bac352164bc30d531527cd7dc11d9d37669 3292 transrate-tools_1.0.0-1.debian.tar.xz 5d558373156a101448f0b069d5f9b9be8d9ae3fce8bcef3c9a96fbc2e8d7dc67 16174 transrate-tools_1.0.0-1_amd64.deb Files: 351e0d9208c7639f9565bdbd026b4ded 2042 science optional transrate-tools_1.0.0-1.dsc 76344f9a81b1fb7b9387306c5d6f0c63 6167 science optional transrate-tools_1.0.0.orig.tar.gz d880aba72bf28e8dd5dd395a1027fc11 3292 science optional transrate-tools_1.0.0-1.debian.tar.xz 69f0686b9cece399a00030bf220d5da8 16174 science optional transrate-tools_1.0.0-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCgAGBQJWC8GmAAoJEMW9bI8ildUCcwEP/jTh9F8phrrMrKs1S13FsJN3 Jsa7U0aSL5XTXxEPWJT38tVWXTIXCZwIzfcO+ZdMRjuQE8Fgpa7E6ViUXGoykGFA kJMMwS6arTDrs7zZI3at3CemNVvtphQxySOVTetqFrWbrMySDbOZx020PJbF3AeQ /pdxlLaZq3N6PE5J/+x14cgrt/3IDNoxhP+fPqN4nXF5lSfjDTmbBygGYbRMawGm 8nm9WaJz6naiFaYfMv3s0MvEp6PhFAhp0zINS/KVne22J+D76VB6b7NaqR2PZc4V 9TK9vbCtQQZhkN5T9cFmgiR5qS1nUag3N0poBHA4l3V3Slgs40VySMuctEFxdoO3 RPs7PeKCRInHVL7JdhomI5um05DUXiMsc5tq/3vszU0OlNOdt7gEnX3Z03cdR8RR f1OFlPPFmN1kaLiOv9stJggaUmumF2oEdtAilOkz0tGSKKM4icu4kp64pLS5tpjC YXX24k9dmU4JttUVC/uT/i29MgS6S3sYfB4Ukv5VCeom5NqtsIxizr7Wzfy5taiP ABxb6XG9iF8u9r3OQ8G9SBYjJWUbeJMvKNC6ywXL9J0H19LH/ddqjrLP/JQCI5HU HhHbZkulKHcaeeU5POnQrIzYjHYkGJZ+JvL38y7YAaF50y9Mp1q4Rq
Processed: retitle 778589 to ITP: berkeley-express -- Streaming quantification for high-throughput sequencing
Processing commands for cont...@bugs.debian.org:
> retitle 778589 ITP: berkeley-express -- Streaming quantification for
> high-throughput sequencing
Bug #778589 {Done: cru...@ucdavis.edu (Michael R. Crusoe)} [wnpp] "ITP:
berkeley-express -- Streaming quantification for high
Changed Bug title to 'ITP: berkeley-express -- Streaming quantification for
high-throughput sequencing' from '"ITP: berkeley-express -- Streaming
quantification for high'
> thanks
Stopping processing here.
Please contact me if you need assistance.
--
778589: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778589
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
Bug#778589: marked as done ("ITP: berkeley-express -- Streaming quantification for high)
Your message dated Tue, 29 Sep 2015 22:00:13 + with message-id <e1zh2wx-ti...@franck.debian.org> and subject line Bug#778589: fixed in berkeley-express 1.5.1-1 has caused the Debian Bug report #778589, regarding "ITP: berkeley-express -- Streaming quantification for high 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.) -- 778589: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778589 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: express Version : 1.5.1 Upstream Author : Adam Roberts & Lior Pachter <ask.x...@gmail.com> * URL : http://bio.math.berkeley.edu/eXpress/index.html * License : Artistic-2.0 Programming Lang: C++ Description : Streaming quantification for high-throughput sequencing eXpress is a streaming tool for quantifying the abundances of a set of target sequences from sampled subsequences. Example applications include transcript-level RNA-Seq quantification, allele-specific/haplotype expression analysis (from RNA-Seq), transcription factor binding quantification in ChIP-Seq, and analysis of metagenomic data. It is based on an online-EM algorithm that results in space (memory) requirements proportional to the total size of the target sequences and time requirements that are proportional to the number of sampled fragments. Thus, in applications such as RNA-Seq, eXpress can accurately quantify much larger samples than other currently available tools greatly reducing computing infrastructure requirements. eXpress can be used to build lightweight high-throughput sequencing processing pipelines when coupled with a streaming aligner (such as Bowtie), as output can be piped directly into eXpress, effectively eliminating the need to store read alignments in memory or on disk. . In an analysis of the performance of eXpress for RNA-Seq data, we have observed that this efficiency does not come at a cost of accuracy. eXpress is more accurate than other available tools, even when limited to smaller datasets that do not require such efficiency. Moreover, like the Cufflinks program, eXpress can be used to estimate transcript abundances in multi-isoform genes. eXpress is also able to resolve multi-mappings of reads across gene families, and does not require a reference genome so that it can be used in conjunction with de novo assemblers such as Trinity, Oases, or Trans-ABySS. The underlying model is based on previously described probabilistic models developed for RNA-Seq but is applicable to other settings where target sequences are sampled, and includes parameters for fragment length distributions, errors in reads, and sequence-specific fragment bias. . eXpress can be used to resolve ambiguous mappings in other high-throughput sequencing based applications. The only required inputs to eXpress are a set of target sequences and a set of sequenced fragments multiply-aligned to them. While these target sequences will often be gene isoforms, they need not be. Haplotypes can be used as the reference for allele-specific expression analysis, binding regions for ChIP-Seq, or target genomes in metagenomics experiments. eXpress is useful in any analysis where reads multi-map to sequences that differ in abundance. Express is a dependency of trinityrnaseq. The Debian Med team will be group maintaining it. --- End Message --- --- Begin Message --- Source: berkeley-express Source-Version: 1.5.1-1 We believe that the bug you reported is fixed in the latest version of berkeley-express, 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 778...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated berkeley-express 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: Fri, 21 Aug 2015 17:18:15 -0700 Source: berkeley-express Binary: berkeley-express berkeley-express-d
Processed (with 1 error): your mail
Processing commands for cont...@bugs.debian.org: > retitle 778589 "ITP: berkeley-express -- Streaming quantification for high Bug #778589 [wnpp] ITP: express -- Streaming quantification for high-throughput sequencing Changed Bug title to '"ITP: berkeley-express -- Streaming quantification for high' from 'ITP: express -- Streaming quantification for high-throughput sequencing' > throughput sequencing" Unknown command or malformed arguments to command. > End of message, stopping processing here. Please contact me if you need assistance. -- 778589: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778589 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: Re: Bug#778589: ITP: express -- Streaming quantification for high-throughput sequencing
Processing control commands: > block 777697 by -1 Bug #777697 [wnpp] ITP: trinityrnaseq -- RNA-Seq De novo Assembly 777697 was blocked by: 778578 778489 368931 777697 was not blocking any bugs. Added blocking bug(s) of 777697: 778589 -- 777697: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=777697 778589: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778589 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: your mail
Processing commands for cont...@bugs.debian.org: > block 800339 by 800335 Bug #800339 [wnpp] ITP: salmon -- wicked-fast transcript quantification from RNA-seq data 800339 was not blocked by any bugs. 800339 was not blocking any bugs. Added blocking bug(s) of 800339: 800335 > block 800339 by 800336 Bug #800339 [wnpp] ITP: salmon -- wicked-fast transcript quantification from RNA-seq data 800339 was blocked by: 800335 800339 was not blocking any bugs. Added blocking bug(s) of 800339: 800336 > block 800339 by 800337 Bug #800339 [wnpp] ITP: salmon -- wicked-fast transcript quantification from RNA-seq data 800339 was blocked by: 800335 800336 800339 was not blocking any bugs. Added blocking bug(s) of 800339: 800337 > End of message, stopping processing here. Please contact me if you need assistance. -- 800339: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800339 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#778586: marked as done (ITP: r-bioc-ebseq -- R package for RNA-Seq Differential Expression Analysis)
Your message dated Thu, 03 Sep 2015 10:00:26 + with message-id <e1zxrji-0004lu...@franck.debian.org> and subject line Bug#778586: fixed in r-bioc-ebseq 1.6.0-1 has caused the Debian Bug report #778586, regarding ITP: r-bioc-ebseq -- R package for RNA-Seq Differential Expression Analysis 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.) -- 778586: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778586 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: r-bioc-ebseq Version : 1.6.0 Upstream Author : Ning Leng <nl...@wisc.edu> * URL : https://www.biostat.wisc.edu/~kendzior/EBSEQ/ * License : Artistic-2.0 Programming Lang: R Description : R package for RNA-Seq Differential Expression Analysis r-bioc-ebseq is an R package for identifying genes and isoforms differentially expressed (DE) across two or more biological conditions in an RNA-seq experiment. EBSeq is an important program used in many bioinformatics pipelines. It is a dependency of the Trinity RNASeq assembler (trinityrnaseq). This package will be group maintained by the Debian Med team. ~ --- End Message --- --- Begin Message --- Source: r-bioc-ebseq Source-Version: 1.6.0-1 We believe that the bug you reported is fixed in the latest version of r-bioc-ebseq, 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 778...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <mcru...@msu.edu> (supplier of updated r-bioc-ebseq 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, 16 Feb 2015 19:26:42 -0500 Source: r-bioc-ebseq Binary: r-bioc-ebseq Architecture: source all Version: 1.6.0-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <mcru...@msu.edu> Description: r-bioc-ebseq - R package for RNA-Seq Differential Expression Analysis Closes: 778586 Changes: r-bioc-ebseq (1.6.0-1) unstable; urgency=low . * Initial release (Closes: #778586) Checksums-Sha1: 38e5aec2d8f21f68f99780ce73c415079817d171 1884 r-bioc-ebseq_1.6.0-1.dsc 001d78485b8abd2a88338bd76f37bf3849f4a21b 1056421 r-bioc-ebseq_1.6.0.orig.tar.gz 5cf4c4211e19d86eab4a2cc7b8dd8c6ac48f8263 3328 r-bioc-ebseq_1.6.0-1.debian.tar.xz d057cfd68b13dcbae08d8df32f1b3ff1bf9a9e05 951516 r-bioc-ebseq_1.6.0-1_all.deb Checksums-Sha256: 78e9af697fb8b0caee92ee3e79b27bc32dc595efe8b79152d592e8f3f8c57a0f 1884 r-bioc-ebseq_1.6.0-1.dsc bbaaf84e8079f3e5daa0612693b3e6109340eaf4201a31365d58f5eed7ffca4c 1056421 r-bioc-ebseq_1.6.0.orig.tar.gz 533d9394244e158d86a2527f7e6cd77e24699eca5abf6a8186aa6333e19b1a77 3328 r-bioc-ebseq_1.6.0-1.debian.tar.xz 465ed66fd780b528966328d25dd88269f4ebadc5bc920a563767ff6f14dfcc0e 951516 r-bioc-ebseq_1.6.0-1_all.deb Files: 721041e1fc36058f0097931bceb3fdae 1884 gnu-r optional r-bioc-ebseq_1.6.0-1.dsc 466df0b7f02334eabb938f3ecba0c276 1056421 gnu-r optional r-bioc-ebseq_1.6.0.orig.tar.gz 0d4498d7d3ec2286cb8a8f82f9280a8c 3328 gnu-r optional r-bioc-ebseq_1.6.0-1.debian.tar.xz 864a1dd9949ea9c05e3efc649feec4ed 951516 gnu-r optional r-bioc-ebseq_1.6.0-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJV2HuiAAoJEFeKBJTRxkbRUkAP/3bYuz7FOAAhUwwYnV4U7rgL 0aXdjWS3KoQWwB4hYq5A3YWwBud748H0KM/iI/Rrz5dlFGnX1P+KKV4OPuzY2Jwn HtNhEnnAr1QLW0IbYxHcsI1hS2JAiCG8JSPTMoYFnrFSDeHHrwe6v8Fa4e0hNuD3 fu52Gwwb8Jfy1wQT+IviVAKBkObQElBRwh2x/4iTE09Iu7p6sqWGNOLLxM1HSTEP D+VGe9ZHLp7gy1yWgWIWXwIRwsiSn90NkodRyJfPP4zwV3Y5FjPvZej5l2cBrpfE kmiRCm2aTqAb2CBBcZsWAg+BmP7r0knJpgvrFaM7mEywAsYGxeIvB2xOXH95Ko1R J/haXltlBpMRtCIj95uUv9o2uHwXdekhNpdLiPFnLs7Ap1VHOz6oAAtU6sk27Dgq TkCFz2h2ECeYt8LR6PnfHT3NkYLwumGfIVvap/6BY1gEUe4lh7hDd2LW8htUjgD2 QsvC3Rqx8btJfl2Uv63bgLCoNiOsl5OExiuFLEOS43jsgvFIWhSu93fYv+gS7Owx f6gPMI2jMovyu9h/ZXU0JGy4BEItNYNMLA9uxf6mxjzPWbd2WQww3G/TMQEMvJZy +8SvLH3Yj74RSi4sELSg1zsDEX7PZr0ykQHITMUHGmgpirBj9//yzbp
Bug#778489: marked as done (ITP: jaligner -- implementation of the Smith-Waterman algorithm with Gotoh's improvement)
Your message dated Wed, 02 Sep 2015 11:00:12 + with message-id <e1zx5m0-0007wv...@franck.debian.org> and subject line Bug#778489: fixed in jaligner 1.0+dfsg-1 has caused the Debian Bug report #778489, regarding ITP: jaligner -- implementation of the Smith-Waterman algorithm with Gotoh's improvement 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.) -- 778489: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=778489 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems --- Begin Message --- Package: wnpp Severity: wishlist Owner: Debian Med team <debian-med@lists.debian.org> X-Debbugs-Cc: debian-de...@lists.debian.org, debian-med@lists.debian.org * Package name: jaligner Version : 1.0 Upstream Author : Ahmed Moustafa <ah...@users.sf.net> * URL : http://jaligner.sf.net * License : GPL Programming Lang: Java Description : implementation of the Smith-Waterman algorithm with Gotoh's improvement JAligner is an open source Java implementation of the Smith-Waterman algorithm with Gotoh's improvement for biological local pairwise sequence alignment with the affine gap penalty model. jaligner is a dependency of many bioinformatic programs including trinityrnaseq. The packaging was started by Tim Booth and will be group maintained by the Debian Med team. --- End Message --- --- Begin Message --- Source: jaligner Source-Version: 1.0+dfsg-1 We believe that the bug you reported is fixed in the latest version of jaligner, 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 778...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Michael R. Crusoe <cru...@ucdavis.edu> (supplier of updated jaligner 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: SHA512 Format: 1.8 Date: Sat, 29 Aug 2015 13:21:31 -0700 Source: jaligner Binary: jaligner Architecture: source all Version: 1.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Michael R. Crusoe <cru...@ucdavis.edu> Description: jaligner - Smith-Waterman algorithm with Gotoh's improvement Closes: 778489 Changes: jaligner (1.0+dfsg-1) unstable; urgency=medium . * Initial release. (Closes: #778489) Checksums-Sha1: 87078504ff8fd26ef16e4845d7efbd71a0f6b9e7 2051 jaligner_1.0+dfsg-1.dsc b8f8fdda3b28946c6f4e140aa5a1c44935c6dcce 74741 jaligner_1.0+dfsg.orig.tar.gz 4d21082a4ea6daec706ef2700aebff47590f5dab 7024 jaligner_1.0+dfsg-1.debian.tar.xz 622a7e7e03a7c530d390f5969e8143c5d667c706 126952 jaligner_1.0+dfsg-1_all.deb Checksums-Sha256: fd2fa0e053581209802fee8d5055d0850852d62fc262bcc9b5691e2c4c2a80db 2051 jaligner_1.0+dfsg-1.dsc 1ac0c2fbf7e65db6769730bd80a0e5a572959844693c3182f4403eebfa14efc0 74741 jaligner_1.0+dfsg.orig.tar.gz f61ba75adafba7892279040de5074e0537afaf221f0ffc0b0557ccf4b5175310 7024 jaligner_1.0+dfsg-1.debian.tar.xz c48329c7c7339fd51514099e269df609e5016a9d473af488f6173997e3a3ef92 126952 jaligner_1.0+dfsg-1_all.deb Files: 8bfe4e003bf416d9cb027704392b0b37 2051 science optional jaligner_1.0+dfsg-1.dsc aab44f2bd684c244ac964bb8e953a0f7 74741 science optional jaligner_1.0+dfsg.orig.tar.gz 787f49327121f41c8049777d92608e8f 7024 science optional jaligner_1.0+dfsg-1.debian.tar.xz f87e4ef2abdb415c989f22ce695fbf3e 126952 science optional jaligner_1.0+dfsg-1_all.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCgAGBQJV5gatAAoJEFeKBJTRxkbRauYQAI3CQUhmDgMxAH/Tgeuyic+C JYiipM761SXk14mCTfmVpiRNu78IaCPf2WbfTTiiTs026HqSJhFAJtxIeJjILq2j nvXfYYOeZYGEO/95/XbjDa1+v73JaUhHiMhsSjhOrMDJQeohkzgM6zSPwmcwqGGp +kFEkW1zpadmQvJOtPEUHe5EB1e6tsf3+MYJsk2IpW8PspYij7Y1GneAe94BBzwH nwd9Oz/lXOMj/VgMqc9jIR6mtAv7AfL+a9wZLGoLihG7S2PCniQPt0Tc59LdAMrB v3jcNrv0AKXYYjq1S4VhscLDi3Gn/eEtNvC4NRuUOuGraGhWiLNdgfh87Q/l/jTa ZAkbiJ83i5rSS3x1+Gw42WeKOL9jIqIVJAcTPtBdZyH2CTPSo8VoMONveDgaChbx YrUmCmdl1NqsWO7AZHmHyFSfv9E8yc0knovK7vYhebc3B0GDYiJZy4c6jfyVavoO 7a2YcoJqxGe2atRU0h0Dzgp9LcWudgZJftEBsJzAbNG7F7B5/lw1AcvQCJKwpT2Z ZEfJLJdzOZY0gMtFJpsl09H9dO0sQFbkIkD8t0jDKinS18hCweisNhiS+N+/xvmO IQS/cAgbc6a1vwvpy8aqgMrZM8GmwdnC9i4SDSu3sCOFJaO/7TELy5xz66PE37mR ZdtfJ47U1CBWS
Processed: block 796640 with 778489
Processing commands for cont...@bugs.debian.org: block 796640 with 778489 Bug #796640 [wnpp] ITP: mhap -- locality-sensitive hashing to detect long-read overlaps 796640 was not blocked by any bugs. 796640 was blocking: 395843 Added blocking bug(s) of 796640: 778489 thanks Stopping processing here. Please contact me if you need assistance. -- 796640: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=796640 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Processed: block 395843 with 778489
Processing commands for cont...@bugs.debian.org: block 395843 with 778489 Bug #395843 [wnpp] RFP: wgs-assembler -- Whole-Genome Shotgun Assembler 395843 was blocked by: 793763 784863 395843 was blocking: 787977 Added blocking bug(s) of 395843: 778489 thanks Stopping processing here. Please contact me if you need assistance. -- 395843: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=395843 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
Bug#793392: marked as done (ITP: dcmtkpp -- Wrappers around DCMTK to have an easier API)
Your message dated Sat, 15 Aug 2015 16:00:16 + with message-id e1zqdsw-0006mt...@franck.debian.org and subject line Bug#793392: fixed in dcmtkpp 0.2.1-1 has caused the Debian Bug report #793392, regarding ITP: dcmtkpp -- Wrappers around DCMTK to have an easier API 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.) -- 793392: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=793392 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems ---BeginMessage--- Package: wnpp Severity: wishlist Owner: Debian Med team debian-med@lists.debian.org * Package name: dcmtkpp Version : 0.2.1 Upstream Author : Julien Lamy l...@unistra.fr * URL : https://github.com/lamyj/dcmtkpp * License : CeCILL-B Programming Lang: C++ Description : Wrappers around DCMTK to have an easier API DCMTK++ is a set of wrappers around DCMTK, leveraging C++ constructs to have an easier API, notably for the networking part. Included are exception-based error handling, generic access to datasets elements, standard JSON representation of datasets, explicit messages and generic implementation of SCU and SCP. ---End Message--- ---BeginMessage--- Source: dcmtkpp Source-Version: 0.2.1-1 We believe that the bug you reported is fixed in the latest version of dcmtkpp, 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 793...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Julien Lamy l...@unistra.fr (supplier of updated dcmtkpp 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: Thu, 16 Jul 2015 15:18:46 +0200 Source: dcmtkpp Binary: libdcmtkpp0 libdcmtkpp0-dev libdcmtkpp0-doc Architecture: source amd64 all Version: 0.2.1-1 Distribution: unstable Urgency: low Maintainer: Debian Med Packaging Team debian-med-packag...@lists.alioth.debian.org Changed-By: Julien Lamy l...@unistra.fr Description: libdcmtkpp0 - C++ wrapper library for the DCMTK DICOM toolkit libdcmtkpp0-dev - C++ wrapper library for the DCMTK DICOM toolkit (development file libdcmtkpp0-doc - C++ wrapper library for the DCMTK DICOM toolkit (documentation) Closes: 793392 Changes: dcmtkpp (0.2.1-1) unstable; urgency=low . * Initial release (Closes: #793392) Checksums-Sha1: a45e3a4d4f0aa4bc3e1a32816b21eb1c42cf1830 2213 dcmtkpp_0.2.1-1.dsc e12996d4bd36d490fbd3264aef8e90119e858efa 125911 dcmtkpp_0.2.1.orig.tar.gz e36ba8906f3d517c04df33e15523bd60e92fbbf0 9472 dcmtkpp_0.2.1-1.debian.tar.xz 8e9161d02b612c50f5617a41fade2ca241cfa66c 51416 libdcmtkpp0-dev_0.2.1-1_amd64.deb fe43b17824f40e54b479da6e0157458ec64ddbe3 231094 libdcmtkpp0-doc_0.2.1-1_all.deb d57badfee884011122385a59bba29b9c444c70a3 308316 libdcmtkpp0_0.2.1-1_amd64.deb Checksums-Sha256: 9eb1538da9143c5a89c1ff99e42d048f60238b729a9c6623d0866a279979070b 2213 dcmtkpp_0.2.1-1.dsc b44dd0677d4599879750256d160cc38e15e7e4ae3e42e8d16d6c4056d6738f79 125911 dcmtkpp_0.2.1.orig.tar.gz 371233d3949bfacce5ede17b1ab5c598d2e3e234b0bbab295910a80b8f1a972b 9472 dcmtkpp_0.2.1-1.debian.tar.xz c6e0845affa81bc076c34314bd10eca9fe32830456539a295f3107be26fa5a63 51416 libdcmtkpp0-dev_0.2.1-1_amd64.deb fef123a5e47a133cc1a58a4c591b7ae76d8a824e97f3555f7efc954ba2fd4ce7 231094 libdcmtkpp0-doc_0.2.1-1_all.deb 9d01d3c0f6f2042635272f1bfa29a99aadd4a8fc85648d2a0983bc68b239329c 308316 libdcmtkpp0_0.2.1-1_amd64.deb Files: d3726452ba7edf1a4499aba4a79ab492 2213 science optional dcmtkpp_0.2.1-1.dsc f90a49ecfdc399a75a46c14e3e2299a5 125911 science optional dcmtkpp_0.2.1.orig.tar.gz f32aeed623955e73eb772d4a939161a4 9472 science optional dcmtkpp_0.2.1-1.debian.tar.xz 1c50845f4fff3c6e055bb8a037a22a05 51416 libdevel optional libdcmtkpp0-dev_0.2.1-1_amd64.deb b0bbdad4ff9c6f0845e3fbeb7a6fc5ac 231094 doc optional libdcmtkpp0-doc_0.2.1-1_all.deb 010fc3c629176039f71d4cbc9f880d15 308316 libs optional libdcmtkpp0_0.2.1-1_amd64.deb -BEGIN PGP SIGNATURE- Version: GnuPG v1 iQIcBAEBCAAGBQJVulFuAAoJEFeKBJTRxkbRqQEQAJWIca6J820YHHEXL2YpoydS /NZbMck3FJ13bfcm+MeTop2vsJMqD4Og+j9WEZQK9HdHLu+M/UDFJnxzmCXa7cmp famkoktnrwPPsdBTrQa9b+KlPRz8IZY6y02lFjcv+JDQI568ZGdqvGF5Le7lt41I cTyRw+HiugAczW/YUvlGHq7vDOVHdDqo20hQveMG6oNM4AQrV6e/3xROcy1dHmRO
Processed: your mail
Processing commands for cont...@bugs.debian.org: owner 787977 debian-med-packag...@lists.alioth.debian.org Bug #787977 [wnpp] ITP: smrtanalysis -- software suite for single molecule, real-time sequencing Owner changed from Debian Med Packaging Team debian-med@lists.debian.org to debian-med-packag...@lists.alioth.debian.org. owner 787982 debian-med-packag...@lists.alioth.debian.org Bug #787982 [wnpp] ITP: python-pbh5tools -- tools for manipulating HDF5 files produced by, Pacific Biosciences sequencing instruments Owner changed from Debian Med Packaging Team debian-med@lists.debian.org to debian-med-packag...@lists.alioth.debian.org. -- Stopping processing here. Please contact me if you need assistance. -- 787977: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787977 787982: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787982 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/handler.s.c.14380695928589.transcr...@bugs.debian.org
Processed (with 1 errors): Fix issues caused by bad email formatting
Processing commands for cont...@bugs.debian.org: block 787977 by 793763 Bug #787977 [wnpp] ITP: smrtanalysis -- software suite for single molecule, real-time sequencing 787977 was blocked by: 787982 787981 395843 787977 was not blocking any bugs. Added blocking bug(s) of 787977: 793763 owner 793763 Debian Med Packaging Team Bug #793763 [wnpp] ITP: blasr -- mapping single-molecule sequencing reads Ignoring request to set the owner of bug #793763 to the same value debian-med-packag...@lists.alioth.debian.org Unknown command or malformed arguments to command. -- Stopping processing here. Please contact me if you need assistance. -- 787977: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787977 793763: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=793763 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/handler.s.c.143799051229700.transcr...@bugs.debian.org
Processed: Declare ITP dependencies
Processing commands for cont...@bugs.debian.org: block 787977 by 395843 787982 787981 Bug #787977 [wnpp] ITP: smrtanalysis -- software suite for single molecule, real-time sequencing 787977 was not blocked by any bugs. 787977 was not blocking any bugs. Added blocking bug(s) of 787977: 787981, 787982, and 395843 block 787982 by 787981 Bug #787982 [wnpp] ITP: python-pbh5tools -- tools for manipulating HDF5 files produced by, Pacific Biosciences sequencing instruments 787982 was not blocked by any bugs. 787982 was blocking: 787977 Added blocking bug(s) of 787982: 787981 block 395843 by 784863 Bug #395843 [wnpp] RFP: wgs-assembler -- Whole-Genome Shotgun Assembler 395843 was not blocked by any bugs. 395843 was blocking: 787977 Added blocking bug(s) of 395843: 784863 -- Stopping processing here. Please contact me if you need assistance. -- 395843: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=395843 787977: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787977 787982: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787982 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/handler.s.c.143786713112207.transcr...@bugs.debian.org
Bug#787407: Info received (Status of castxml [and ITK] packaging?)
Thank you for the additional information you have supplied regarding this Bug report. This is an automatically generated reply to let you know your message has been received. Your message is being forwarded to the package maintainers and other interested parties for their attention; they will reply in due course. Your message has been sent to the package maintainer(s): Steve M. Robbins s...@debian.org If you wish to submit further information on this problem, please send it to 787...@bugs.debian.org. Please do not send mail to ow...@bugs.debian.org unless you wish to report a problem with the Bug-tracking system. -- 787407: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787407 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems -- To UNSUBSCRIBE, email to debian-med-requ...@lists.debian.org with a subject of unsubscribe. Trouble? Contact listmas...@lists.debian.org Archive: https://lists.debian.org/handler.787407.b787407.143724673531839.acki...@bugs.debian.org
Bug#787981: marked as done (ITP: python-pbcore -- Python library for processing Pacific Biosciences data, files)
Your message dated Sat, 11 Jul 2015 23:00:14 + with message-id e1ze3kk-0006jx...@franck.debian.org and subject line Bug#787981: fixed in python-pbcore 1.0.0-1 has caused the Debian Bug report #787981, regarding ITP: python-pbcore -- Python library for processing Pacific Biosciences data, files 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.) -- 787981: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=787981 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems ---BeginMessage--- Package: wnpp Severity: wishlist Owner: Debian Med Packaging Team debian-med@lists.debian.org X-Debbugs-Cc: debian-de...@lists.debian.org * Package name: python-pbcore Version : 1.0.0 Upstream Author : Pacific Biosciences dev...@pacificbiosciences.com * URL : https://github.com/PacificBiosciences/pbcore * License : BSD Programming Lang: Python Description : Python library for processing Pacific Biosciences data files The pbcore package provides Python modules for processing Pacific Biosciences data files and building PacBio bioinformatics applications. These modules include tools to read/write PacBio data formats, sample data files for testing and debugging, base classes, and utilities for building bioinformatics applications. . This package is part of the SMRTAnalysis suite ( http://bugs.debian.org/787977 ) Maintenance will be by the Debian Med team at Vcs-Git: git://anonscm.debian.org/debian-med/python-pbcore.git Vcs-Browser: http://anonscm.debian.org/cgit/debian-med/python-pbcore.git -- Afif Elghraoui | عفيف الغراوي http://afif.ghraoui.name ---End Message--- ---BeginMessage--- Source: python-pbcore Source-Version: 1.0.0-1 We believe that the bug you reported is fixed in the latest version of python-pbcore, 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 787...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Afif Elghraoui a...@ghraoui.name (supplier of updated python-pbcore 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: Sat, 06 Jun 2015 23:35:12 -0700 Source: python-pbcore Binary: python-pbcore python3-pbcore python-pbcore-data python-pbcore-doc Architecture: source all Version: 1.0.0-1 Distribution: experimental Urgency: low Maintainer: Debian Med Packaging Team debian-med-packag...@lists.alioth.debian.org Changed-By: Afif Elghraoui a...@ghraoui.name Description: python-pbcore - Python library for processing PacBio data files (Python 2) python-pbcore-data - Python library for processing PacBio data files (data) python-pbcore-doc - Python library for processing PacBio data files (documentation) python3-pbcore - Python library for processing PacBio data files (Python 3) Closes: 787981 Changes: python-pbcore (1.0.0-1) experimental; urgency=low . * Initial release (Closes: #787981) * Add material for autopkgtest * Use packaged javascript libraries for HTML documentation where available * Use dh pybuild rather than the upstream-provided Makefile * Use default documentation theme rather than upstream's with corporate logo * Provide python3 package * Prepare python-pbcore-data package * Prepare documentation package * Add autopkgtest for python3 package * Update uscan calls to append suffix to package name for next release Checksums-Sha1: a6910ec93f7a18db6ebd22e67c2a7e2a02ea3299 2283 python-pbcore_1.0.0-1.dsc 057bc51d5766f361994f6a4adeabf1d82f24a9eb 6717473 python-pbcore_1.0.0.orig.tar.gz 971e8ce74ec0e828ef9cab6489d23341f7266ac8 17744 python-pbcore_1.0.0-1.debian.tar.xz 3edbbe46026c4c3ae27265f5174d4e71c4c49fd1 6238786 python-pbcore-data_1.0.0-1_all.deb 8e7ef12367f807e900be1fe6168fe456e6d43053 36214 python-pbcore-doc_1.0.0-1_all.deb 6cc2f752ea4b55b23ffd889a2d2b8d50ba9e673a 45388 python-pbcore_1.0.0-1_all.deb 3b611a96476587fcdff8ce6cd3912fc60bb6ab41 45462 python3-pbcore_1.0.0-1_all.deb Checksums-Sha256: c449c6fdcefd080880f7b04795277d6451038ba4ed2130d0e54e4ba2775fc675 2283 python-pbcore_1.0.0-1.dsc 81743f3f223dec74da98526f95625d5ddaaee4ee5a8c46b6f589264f1a6ace5d 6717473 python-pbcore_1.0.0.orig.tar.gz
