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r-bioc-dada2_1.12.1+dfsg-1_amd64.changes (click to toggle)
Format:1.8
Date:Wed, 11 Sep 2019 22:48:09 +0200
Source:r-bioc-dada2
Binary:r-bioc-dada2 r-bioc-dada2-dbgsym
Architecture:source amd64
Version:1.12.1+dfsg-1
Distribution:unstable
Urgency:medium
Maintainer:Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Changed-By:Steffen Moeller <moeller@debian.org>
Description:
r-bioc-dada2 - sample inference from amplicon sequencing data
Closes:940061
Changes:
r-bioc-dada2 (1.12.1+dfsg-1) unstable; urgency=medium

  * Initial release (closes: #940061)
    Second upload fixing the copyright - thanks go to
    ftpadmin Thorsten for spotting this.
Files:
290c15d83111886a5cbe1e7ac302f12b 2332 gnu-r optional r-bioc-dada2_1.12.1+dfsg-1.dsc
edc329f8dd77165fc16665c4f743841e 1316216 gnu-r optional r-bioc-dada2_1.12.1+dfsg.orig.tar.xz
d6308d6a5b4f9116a5691dad70d0e78a 2932 gnu-r optional r-bioc-dada2_1.12.1+dfsg-1.debian.tar.xz
2d6622bdf5d3f1c7ec7f228f21be8133 1922320 debug optional r-bioc-dada2-dbgsym_1.12.1+dfsg-1_amd64.deb
caf9aa33f9a8621ad48a49e30ee614d1 11494 gnu-r optional r-bioc-dada2_1.12.1+dfsg-1_amd64.buildinfo
a3f211aa3c7103c34905ebe9a05a3499 1793500 gnu-r optional r-bioc-dada2_1.12.1+dfsg-1_amd64.deb
r-bioc-dada2_1.12.1+dfsg-1.dsc (click to toggle)
Format:3.0 (quilt)
Source:r-bioc-dada2
Binary:r-bioc-dada2
Architecture:any
Version:1.12.1+dfsg-1
Maintainer:Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Uploaders:Steffen Moeller <moeller@debian.org>
Homepage:https://bioconductor.org/packages/dada2/
Standards-Version:4.4.0
Vcs-Browser:https://salsa.debian.org/r-pkg-team/r-bioc-dada2
Vcs-Git:https://salsa.debian.org/r-pkg-team/r-bioc-dada2.git
Testsuite:autopkgtest-pkg-r
Build-Depends:debhelper-compat (=12), r-cran-rcppparallel, dh-r, r-base-dev, r-cran-rcpp (>=0.12.0), r-bioc-biostrings (>=2.42.1), r-cran-ggplot2 (>=2.1.0), r-cran-reshape2 (>=1.4.1), r-bioc-shortread (>=1.32.0), r-bioc-iranges (>=2.6.0), r-bioc-xvector (>=0.16.0), r-bioc-biocgenerics (>=0.22.0)
Package-List:r-bioc-dada2 deb gnu-r optional arch=any
Files:
edc329f8dd77165fc16665c4f743841e 1316216 r-bioc-dada2_1.12.1+dfsg.orig.tar.xz
d6308d6a5b4f9116a5691dad70d0e78a 2932 r-bioc-dada2_1.12.1+dfsg-1.debian.tar.xz
lintian 2.25.0~bpo9+2 check for r-bioc-dada2_1.12.1+dfsg-1.dsc (click to toggle)
README.source for r-bioc-dada2_1.12.1+dfsg-1.dsc (click to toggle)
Explanation for binary files inside source package according to
  https://lists.debian.org/debian-devel/2013/09/msg00332.html

Files: data/errBalancedF.rda
Documented: man/errBalancedF.Rd
  An empirical error matrix.

Files: data/errBalancedR.rda
Documented: man/errBalancedR.Rd
  An empirical error matrix.

Files: data/tperr1.rda
Documented: man/tperr1.Rd
  An empirical error matrix.

 -- Steffen Moeller <moeller@debian.org>  Wed, 11 Sep 2019 22:48:12 +0200
control file for r-bioc-dada2_1.12.1+dfsg-1_amd64.deb (click to toggle)
Package:r-bioc-dada2
Version:1.12.1+dfsg-1
Architecture:amd64
Maintainer:Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size:2104
Depends:r-base-core (>=3.6.1-6), r-api-3.5, r-api-bioc-3.9, r-cran-rcpp (>=0.12.0), r-bioc-biostrings (>=2.42.1), r-cran-ggplot2 (>=2.1.0), r-cran-reshape2 (>=1.4.1), r-bioc-shortread (>=1.32.0), r-cran-rcppparallel (>=4.3.0), r-bioc-iranges (>=2.6.0), r-bioc-xvector (>=0.16.0), r-bioc-biocgenerics (>=0.22.0), libc6 (>=2.29), libgcc1 (>=1:3.0), libstdc++6 (>=5.2), libtbb2 (>=2017~U7)
Suggests:r-cran-knitr, r-cran-rmarkdown, libjs-jquery
Section:gnu-r
Priority:optional
Homepage:https://bioconductor.org/packages/dada2/
Description:
sample inference from amplicon sequencing data
 The dada2 package contributes to software workflows to interpret
 sequencing data from microbiota - the relative abundance of
 bacterial and/or yeast, typically measured in the gut.
 It infers exact amplicon sequence
 variants (ASVs) from high-throughput amplicon sequencing data,
 replacing the coarser and less accurate OTU clustering approach.
 The dada2 pipeline takes as input demultiplexed fastq files, and
 outputs the sequence variants and their sample-wise abundances
 after removing substitution and chimera errors. Taxonomic
 classification is available via a native implementation of the RDP
 naive Bayesian classifier, and species-level assignment to 16S
 rRNA gene fragments by exact matching.
lintian 2.25.0~bpo9+2 check for r-bioc-dada2_1.12.1+dfsg-1_amd64.deb (click to toggle)
W: r-bioc-dada2: executable-not-elf-or-script usr/lib/R/site-library/dada2/extdata/phix_genome.fa
contents of r-bioc-dada2_1.12.1+dfsg-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2019-09-11 20:48 ./
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/
-rw-r--r-- root/root       321 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/CITATION
-rw-r--r-- root/root      2061 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/DESCRIPTION
-rw-r--r-- root/root      4519 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/INDEX
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/
-rw-r--r-- root/root      2565 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/Rd.rds
-rw-r--r-- root/root       130 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/data.rds
-rw-r--r-- root/root       132 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/features.rds
-rw-r--r-- root/root      2337 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/hsearch.rds
-rw-r--r-- root/root       898 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/links.rds
-rw-r--r-- root/root       993 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/nsInfo.rds
-rw-r--r-- root/root      1748 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/package.rds
-rw-r--r-- root/root       213 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/Meta/vignette.rds
-rw-r--r-- root/root      2547 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/NAMESPACE
-rw-r--r-- root/root     13922 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/NEWS
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/R/
-rw-r--r-- root/root      1056 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/R/dada2
-rw-r--r-- root/root    376985 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/R/dada2.rdb
-rw-r--r-- root/root      1964 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/R/dada2.rdx
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/data/
-rw-r--r-- root/root     10619 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/data/Rdata.rdb
-rw-r--r-- root/root       107 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/data/Rdata.rds
-rw-r--r-- root/root       180 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/data/Rdata.rdx
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/doc/
-rw-r--r-- root/root      2685 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/doc/dada2-intro.R
-rw-r--r-- root/root     12215 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/doc/dada2-intro.Rmd
-rw-r--r-- root/root      1342 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/doc/index.html
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/
-rw-r--r-- root/root      1580 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/example_seqs.fa
-rw-r--r-- root/root      2948 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/example_species_assignment.fa.gz
-rw-r--r-- root/root     30183 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/example_train_set.fa.gz
-rwxr-xr-x root/root      5469 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/phix_genome.fa
-rw-r--r-- root/root    188420 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/sam1F.fastq.gz
-rw-r--r-- root/root    252597 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/sam1R.fastq.gz
-rw-r--r-- root/root    192858 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/sam2F.fastq.gz
-rw-r--r-- root/root    254627 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/sam2R.fastq.gz
-rw-r--r-- root/root    246248 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/samPB.fastq.gz
-rw-r--r-- root/root     30321 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/extdata/samPBprimers.fastq.gz
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/
-rw-r--r-- root/root      1606 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/AnIndex
-rw-r--r-- root/root       608 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/aliases.rds
-rw-r--r-- root/root    139722 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/dada2.rdb
-rw-r--r-- root/root      1420 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/dada2.rdx
-rw-r--r-- root/root       646 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/help/paths.rds
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/html/
-rw-r--r-- root/root      8346 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/html/00Index.html
-rw-r--r-- root/root      1335 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/html/R.css
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/include/
-rw-r--r-- root/root       242 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/include/dada2.h
-rw-r--r-- root/root       920 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/include/dada2_RcppExports.h
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/libs/
-rw-r--r-- root/root    307440 2019-09-11 20:48 ./usr/lib/R/site-library/dada2/libs/dada2.so
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/share/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/share/doc/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/share/doc/r-bioc-dada2/
-rw-r--r-- root/root       224 2019-09-11 20:48 ./usr/share/doc/r-bioc-dada2/changelog.Debian.gz
-rw-r--r-- root/root      2146 2019-09-11 20:48 ./usr/share/doc/r-bioc-dada2/copyright
control file for r-bioc-dada2-dbgsym_1.12.1+dfsg-1_amd64.deb (click to toggle)
Package:r-bioc-dada2-dbgsym
Source:r-bioc-dada2
Version:1.12.1+dfsg-1
Auto-Built-Package:debug-symbols
Architecture:amd64
Maintainer:Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Installed-Size:1949
Depends:r-bioc-dada2 (=1.12.1+dfsg-1)
Section:debug
Priority:optional
Description:
debug symbols for r-bioc-dada2
Build-Ids:f635562fced84d51763f3bf595d6818abd568522
lintian 2.25.0~bpo9+2 check for r-bioc-dada2-dbgsym_1.12.1+dfsg-1_amd64.deb (click to toggle)
contents of r-bioc-dada2-dbgsym_1.12.1+dfsg-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2019-09-11 20:48 ./
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/debug/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/lib/debug/.build-id/f6/
-rw-r--r-- root/root   1984720 2019-09-11 20:48 ./usr/lib/debug/.build-id/f6/35562fced84d51763f3bf595d6818abd568522.debug
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/share/
drwxr-xr-x root/root         0 2019-09-11 20:48 ./usr/share/doc/
lrwxrwxrwx root/root         0 2019-09-11 20:48 ./usr/share/doc/r-bioc-dada2-dbgsym -> r-bioc-dada2

Timestamp: 17.10.2019 / 00:01:32 (UTC)