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2018-03-03gnu: tor: Update to 0.3.2.10 [security fixes].Tobias Geerinckx-Rice
This release fixes TROVE-2018-001 (also tracked as CVE-2018-0490), TROVE-2018-002 (CVE-2018-049), and TROVEs-2018-00{3,4} as well. * gnu/packages/tor.scm (tor): Update to 0.3.2.10.
2018-03-03gnu: Add dropseq-tools.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (dropseq-tools): New variable.
2018-03-03gnu: Add java-picard-2.10.3.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-picard-2.10.3): New variable.
2018-03-03gnu: Add java-htsjdk-2.10.1.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-htsjdk-2.10.1): New variable.
2018-03-03gnu: Add java-htsjdk-latest.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-htsjdk-latest): New variable.
2018-03-03gnu: Add java-biojava-alignment-4.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-alignment-4.0): New variable.
2018-03-03gnu: Add java-biojava-phylo-4.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-phylo-4.0): New variable.
2018-03-03gnu: Add java-biojava-core-4.0.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-core-4.0): New variable.
2018-03-03gnu: Add java-biojava-alignment.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-alignment): New variable.
2018-03-03gnu: Add java-biojava-phylo.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-phylo): New variable.
2018-03-03gnu: Add java-forester-1.005.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-forester-1.005): New variable.
2018-03-03gnu: Add java-forester.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-forester): New variable.
2018-03-03gnu: Add java-openchart2.Ricardo Wurmus
* gnu/packages/java.scm (java-openchart2): New variable.
2018-03-03gnu: Add java-biojava-core.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (java-biojava-core): New variable.
2018-03-03gnu: Add java-jdistlib.Ricardo Wurmus
* gnu/packages/statistics.scm (java-jdistlib): New variable.
2018-03-03gnu: Add java-jtransforms.Ricardo Wurmus
* gnu/packages/algebra.scm (java-jtransforms): New variable.
2018-03-03gnu: Add java-jlargearrays.Ricardo Wurmus
* gnu/packages/algebra.scm (java-jlargearrays): New variable.
2018-03-03gnu: Add java-la4j.Ricardo Wurmus
* gnu/packages/algebra.scm (java-la4j): New variable.
2018-03-03gnu: Add fastqc.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (fastqc): New variable.
2018-03-03gnu: Add java-cisd-jhdf5.Ricardo Wurmus
* gnu/packages/java.scm (java-cisd-jhdf5): New variable.
2018-03-03gnu: Add java-cisd-args4j.Ricardo Wurmus
* gnu/packages/java.scm (java-cisd-args4j): New variable.
2018-03-03gnu: Add java-cisd-base.Ricardo Wurmus
* gnu/packages/java.scm (java-cisd-base): New variable.
2018-03-03gnu: Add texlive-fonts-iwona.Ricardo Wurmus
* gnu/packages/tex.scm (texlive-fonts-iwona): New variable.
2018-03-03gnu: dictionaries: Add copyright line.Nicolas Goaziou
* gnu/packages/dictionaries.scm: Add copyright line.
2018-03-03gnu: wireshark: Update to 2.4.5.Nicolas Goaziou
* gnu/packages/networking.scm (wireshark): Update to 2.4.5.
2018-03-03gnu: grammalecte: Update to 0.6.2.Nicolas Goaziou
* gnu/packages/dictionaries.scm (grammalecte): Update to 0.6.2. [arguments]: Remove.
2018-03-03gnu: Add ruby-iruby.Christopher Baines
* gnu/packages/ruby.scm (ruby-iruby): New variable.
2018-03-03gnu: Add ruby-mimemagic.Christopher Baines
* gnu/packages/ruby.scm (ruby-mimemagic): New variable.
2018-03-03gnu: Add ruby-data_uri.Christopher Baines
* gnu/packages/ruby.scm (ruby-data_uri): New variable.
2018-03-03gnu: Add ruby-cztop.Christopher Baines
* gnu/packages/ruby.scm (ruby-cztop): New variable.
2018-03-03gnu: Add ruby-czmq-ffi-gen.Christopher Baines
* gnu/packages/ruby.scm (ruby-czmq-ffi-gen): New variable.
2018-03-03gnu: Add ruby-bond.Christopher Baines
* gnu/packages/ruby.scm (ruby-bond): New variable.
2018-03-03gnu: Add ruby-bacon-bits.Christopher Baines
* gnu/packages/ruby.scm (ruby-bacon-bits): New variable.
2018-03-03gnu: Add ruby-mocha-on-bacon.Christopher Baines
* gnu/packages/ruby.scm (ruby-mocha-on-bacon): New variable.
2018-03-03gnu: networking: Add czmq.Christopher Baines
* gnu/packages/networking.scm (czmq): New variable.
2018-03-03gnu: ghc-refact: Fix typo in description.Tobias Geerinckx-Rice
* gnu/packages/haskell.scm (ghc-refact)[description]: Fix typo.
2018-03-03gnu: quagga: Update to 1.2.4.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (quagga): Update to 1.2.4.
2018-03-03gnu: conky: Remove redundant MKDIR-P.Tobias Geerinckx-Rice
* gnu/packages/conky.scm (conky)[arguments]: Remove redundant MKDIR-P.
2018-03-03gnu: sslh: Update to 1.19c.Tobias Geerinckx-Rice
* gnu/packages/networking.scm (sslh): Update to 1.19c.
2018-03-03gnu: wv: Edit description.Tobias Geerinckx-Rice
Wv is still unmaintained – this just makes it more obvious. * gnu/packages/wv.scm (wv)[description]: Mention the product versions in addition to internal file format ones. Align more closely with the upstream description.
2018-03-03gnu: libseccomp: Update to 2.3.3.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (libseccomp): Update to 2.3.3.
2018-03-03gnu: hdparm: Update to 9.54.Tobias Geerinckx-Rice
* gnu/packages/linux.scm (hdparm): Update to 9.54.
2018-03-03gnu: sdl2: Update to 2.0.8.Tobias Geerinckx-Rice
* gnu/packages/sdl.scm (sdl2): Update to 2.0.8.
2018-03-03gnu: r-httpuv: Update to 1.3.6.2.Ricardo Wurmus
* gnu/packages/web.scm (r-httpuv): Update to 1.3.6.2.
2018-03-03gnu: r-dbi: Update to 0.8.Ricardo Wurmus
* gnu/packages/statistics.scm (r-dbi): Update to 0.8.
2018-03-03gnu: r-performanceanalytics: Update to 1.5.2.Ricardo Wurmus
* gnu/packages/cran.scm (r-performanceanalytics): Update to 1.5.2. [propagated-inputs]: Add r-quadprog. [native-inputs]: Remove gfortran.
2018-03-02gnu: cutadapt: Update to 1.16.Ricardo Wurmus
* gnu/packages/bioinformatics.scm (cutadapt): Update to 1.16. [source]: Fetch via git. [arguments]: Remove. [native-inputs]: Replace python-nose with python-pytest.
2018-03-02gnu: python-xopen: Update to 0.3.2.Ricardo Wurmus
* gnu/packages/python.scm (python-xopen): Update to 0.3.2.
2018-03-02gnu: Add r-hpar.Ricardo Wurmus
* gnu/packages/bioconductor.scm: New file. * gnu/local.mk (GNU_SYSTEM_MODULES): Add it.
2018-03-02gnu: Add r-powerplus.Ricardo Wurmus
* gnu/packages/cran.scm (r-powerplus): New variable.
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