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simka_1.5.1-1_amd64.changes (click to toggle)
Format:1.8
Date:Sun, 08 Sep 2019 22:20:14 +0100
Source:simka
Binary:simka simkamin
Architecture:source amd64 all
Version:1.5.1-1
Distribution:unstable
Urgency:medium
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By:Shayan Doust <hello@shayandoust.me>
Description:
simka      - comparative metagenomics method dedicated to NGS datasets
simkamin   - approximate comparative metagenomics method dedicated to NGS data
Closes:940559
Changes:
simka (1.5.1-1) unstable; urgency=medium

  * Initial release (Closes: #940559)
Files:
a5724addc059cb4ec6e7b788d7517f4e 2073 science optional simka_1.5.1-1.dsc
a478cfd5e1d61be56072a8f54bb786a4 163816 science optional simka_1.5.1.orig.tar.gz
09a96bd27975bf90f2d87040b6a39c61 20272 science optional simka_1.5.1-1.debian.tar.xz
a228dbcb5613a474c8ef0d45af5667fc 8779954 debug optional simka-dbgsym_1.5.1-1_amd64.deb
bba1910d43a801257f22eb6dc4be1dec 8034 science optional simka_1.5.1-1_amd64.buildinfo
3c297a0f2f2bebca671230afb3c0679b 422112 science optional simka_1.5.1-1_amd64.deb
288f1cd266636a9973f77c9c6de38880 59968 science optional simkamin_1.5.1-1_all.deb
simka_1.5.1-1.dsc (click to toggle)
Format:3.0 (quilt)
Source:simka
Binary:simka, simkamin
Architecture:any all
Version:1.5.1-1
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders:Shayan Doust <hello@shayandoust.me>
Homepage:https://github.com/GATB/simka
Standards-Version:4.4.0
Vcs-Browser:https://salsa.debian.org/med-team/simka
Vcs-Git:https://salsa.debian.org/med-team/simka.git
Testsuite:autopkgtest
Build-Depends:debhelper-compat (=12), cmake, libgatbcore-dev, zlib1g-dev, libhdf5-dev, libboost-dev, python3-all, dh-python, chrpath
Package-List:simka deb science optional arch=any simkamin deb science optional arch=all
Files:
a478cfd5e1d61be56072a8f54bb786a4 163816 simka_1.5.1.orig.tar.gz
09a96bd27975bf90f2d87040b6a39c61 20272 simka_1.5.1-1.debian.tar.xz
lintian 2.21.0~bpo9+1 check for simka_1.5.1-1.dsc (click to toggle)
README.source for simka_1.5.1-1.dsc (click to toggle)
No README.source in this package
control file for simka_1.5.1-1_amd64.deb (click to toggle)
Package:simka
Version:1.5.1-1
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:2487
Depends:libc6 (>=2.29), libgatbcore2 (>=1.4.1+git20190813.a73b6dd+dfsg), libgcc1 (>=1:3.0), libhdf5-103, libstdc++6 (>=6), zlib1g (>=1:1.1.4)
Section:science
Priority:optional
Homepage:https://github.com/GATB/simka
Description:
comparative metagenomics method dedicated to NGS datasets
 Simka is a de novo comparative metagenomics tool. Simka represents each
 dataset as a k-mer spectrum and compute several classical ecological
 distances between them.
lintian 2.21.0~bpo9+1 check for simka_1.5.1-1_amd64.deb (click to toggle)
contents of simka_1.5.1-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2019-09-08 21:20 ./
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/bin/
-rwxr-xr-x root/root    563688 2019-09-08 21:20 ./usr/bin/simka
-rwxr-xr-x root/root    584176 2019-09-08 21:20 ./usr/bin/simkaCount
-rwxr-xr-x root/root    326104 2019-09-08 21:20 ./usr/bin/simkaCountProcess
-rwxr-xr-x root/root    555496 2019-09-08 21:20 ./usr/bin/simkaMerge
-rwxr-xr-x root/root    432624 2019-09-08 21:20 ./usr/bin/simkaMinCore
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simka/
-rw-r--r-- root/root       154 2019-09-08 21:20 ./usr/share/doc/simka/changelog.Debian.gz
-rw-r--r-- root/root     35168 2019-09-08 21:20 ./usr/share/doc/simka/copyright
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simka/example/
-rw-r--r-- root/root      2000 2019-09-05 07:53 ./usr/share/doc/simka/example/A.fasta.gz
-rw-r--r-- root/root      3530 2019-09-05 07:53 ./usr/share/doc/simka/example/B.fasta.gz
-rw-r--r-- root/root      3608 2019-09-05 07:53 ./usr/share/doc/simka/example/C.fasta.gz
-rw-r--r-- root/root      3250 2019-09-05 07:53 ./usr/share/doc/simka/example/D_paired_1.fasta.gz
-rw-r--r-- root/root      2019 2019-09-05 07:53 ./usr/share/doc/simka/example/D_paired_2.fasta.gz
-rw-r--r-- root/root        82 2019-09-05 07:53 ./usr/share/doc/simka/example/dataset_metadata.csv
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/sge/
-rw-r--r-- root/root        83 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/sge/job_count.bash
-rw-r--r-- root/root        83 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/sge/job_merge.bash
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/tgcc/
-rw-r--r-- root/root       102 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/tgcc/job_count.bash
-rw-r--r-- root/root       102 2019-09-05 07:53 ./usr/share/doc/simka/example/potara_job/tgcc/job_merge.bash
-rw-r--r-- root/root       112 2019-09-05 07:53 ./usr/share/doc/simka/example/simka_input.txt
-rw-r--r-- root/root      1326 2019-09-08 21:20 ./usr/share/doc/simka/example/simple_test.sh
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/man/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/man/man1/
-rw-r--r-- root/root      1091 2019-09-08 21:20 ./usr/share/man/man1/simka.1.gz
-rw-r--r-- root/root      1135 2019-09-08 21:20 ./usr/share/man/man1/simkaCount.1.gz
-rw-r--r-- root/root       363 2019-09-08 21:20 ./usr/share/man/man1/simkaCountProcess.1.gz
-rw-r--r-- root/root       594 2019-09-08 21:20 ./usr/share/man/man1/simkaMerge.1.gz
-rw-r--r-- root/root       525 2019-09-08 21:20 ./usr/share/man/man1/simkaMinCore.1.gz
control file for simka-dbgsym_1.5.1-1_amd64.deb (click to toggle)
Package:simka-dbgsym
Source:simka
Version:1.5.1-1
Architecture:amd64
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:9465
Depends:simka (=1.5.1-1)
Section:debug
Priority:optional
Description:
debug symbols for simka
Auto-Built-Package:debug-symbols
Build-Ids:32fa86d55c7b7603b03f4bee98a12c242a6be3c4 6120ceac282ab681176592c4291230403660df61 746569e52798a86b2a71f0ef5c3ab4314ac60019 99d3d42d5455b6d2dba8bc51fb272cc684d0c8c1 c03db10f8a8368563ed69456d9085704352c150f
lintian 2.21.0~bpo9+1 check for simka-dbgsym_1.5.1-1_amd64.deb (click to toggle)
contents of simka-dbgsym_1.5.1-1_amd64.deb (click to toggle)
drwxr-xr-x root/root         0 2019-09-08 21:20 ./
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/32/
-rw-r--r-- root/root   1158392 2019-09-08 21:20 ./usr/lib/debug/.build-id/32/fa86d55c7b7603b03f4bee98a12c242a6be3c4.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/61/
-rw-r--r-- root/root   1440480 2019-09-08 21:20 ./usr/lib/debug/.build-id/61/20ceac282ab681176592c4291230403660df61.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/74/
-rw-r--r-- root/root   2155368 2019-09-08 21:20 ./usr/lib/debug/.build-id/74/6569e52798a86b2a71f0ef5c3ab4314ac60019.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/99/
-rw-r--r-- root/root   2452552 2019-09-08 21:20 ./usr/lib/debug/.build-id/99/d3d42d5455b6d2dba8bc51fb272cc684d0c8c1.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.build-id/c0/
-rw-r--r-- root/root   2129048 2019-09-08 21:20 ./usr/lib/debug/.build-id/c0/3db10f8a8368563ed69456d9085704352c150f.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.dwz/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/lib/debug/.dwz/x86_64-linux-gnu/
-rw-r--r-- root/root    336712 2019-09-08 21:20 ./usr/lib/debug/.dwz/x86_64-linux-gnu/simka.debug
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/
lrwxrwxrwx root/root         0 2019-09-08 21:20 ./usr/share/doc/simka-dbgsym -> simka
control file for simkamin_1.5.1-1_all.deb (click to toggle)
Package:simkamin
Source:simka
Version:1.5.1-1
Architecture:all
Maintainer:Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size:413
Depends:python3:any, python3
Section:science
Priority:optional
Homepage:https://github.com/GATB/simka
Description:
approximate comparative metagenomics method dedicated to NGS datasets
 Simka is a de novo comparative metagenomics tool. Simka represents each
 dataset as a k-mer spectrum and compute several classical ecological
 distances between them.
 .
 The difference with Simka stands in the fact that SimkaMin outputs
 approximate (but very similar) results by subsampling the kmer space.
 With this strategy, and with default parameters, SimkaMin is an order
 of magnitude faster, uses 10 times less memory and 70 times less disk
 than Simka.
lintian 2.21.0~bpo9+1 check for simkamin_1.5.1-1_all.deb (click to toggle)
contents of simkamin_1.5.1-1_all.deb (click to toggle)
drwxr-xr-x root/root         0 2019-09-08 21:20 ./
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/bin/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/
-rw-r--r-- root/root       154 2019-09-08 21:20 ./usr/share/doc/simkamin/changelog.Debian.gz
-rw-r--r-- root/root     35168 2019-09-08 21:20 ./usr/share/doc/simkamin/copyright
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/__results__/
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/__results__/k21__0-1000_n1/
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/__results__/k21__0-1000_n1/sketch/
-rw-r--r-- root/root     25823 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/__results__/k21__0-1000_n1/sketch/sketch.bin.gz
-rw-r--r-- root/root      1870 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/test_simkaMin.py.gz
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-1000_n0/
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-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-1000_n0/mat_presenceAbsence_jaccard.csv
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drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n0/
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n0/mat_abundance_braycurtis.csv
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n0/mat_presenceAbsence_jaccard.csv
drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n1/
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n1/mat_abundance_braycurtis.csv
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__0-100_n1/mat_presenceAbsence_jaccard.csv
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-1000_n0/
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-rw-r--r-- root/root        94 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-1000_n0/mat_presenceAbsence_jaccard.csv.gz
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-1000_n1/
-rw-r--r-- root/root       112 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-1000_n1/mat_abundance_braycurtis.csv.gz
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drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-100_n0/
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drwxr-xr-x root/root         0 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-100_n1/
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-100_n1/mat_abundance_braycurtis.csv
-rw-r--r-- root/root       246 2019-09-05 07:53 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21__100-100_n1/mat_presenceAbsence_jaccard.csv
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21_filter_0-1000_n0/
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-rw-r--r-- root/root        91 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21_filter_0-1000_n0/mat_presenceAbsence_jaccard.csv.gz
drwxr-xr-x root/root         0 2019-09-08 21:20 ./usr/share/doc/simkamin/example/simkaMin/truth_simkaMin/k21_filter_0-1000_n1/
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-rw-r--r-- root/root      5354 2019-09-05 07:53 ./usr/share/simkamin/simkaMin_utils.py
lrwxrwxrwx root/root         0 2019-09-08 21:20 ./usr/bin/simkaMin -> ../share/simkamin/simkaMin
lrwxrwxrwx root/root         0 2019-09-08 21:20 ./usr/bin/simkaMin_update -> ../share/simkamin/simkaMin_update

Timestamp: 17.09.2019 / 17:01:35 (UTC)