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* gnu: docker: Optimize substitution macros.Maxim Cournoyer2019-05-05
| | | | | | | | | | | This change halves the time needed to patch the paths. * gnu/packages/docker.scm (docker)[phases]{patch-paths}: Allow passing multiple SOURCE-TEXT, PACKAGE and RELATIVE-PATH tuples so that the rewrite rules can be generated and processed by a single use of the SUBSTITUTE* macro. Rename SUBSTITUTE-LOOKPATH to SUBSTITUTE-LOOKPATH* and substitute-Command to SUBSTITUTE-COMMAND* to denote the change. Adapt the uses of SUBSTITUTE-LOOKPATH* and SUBSTITUTE-COMMAND*.
* gnu: docker: Make macros use a relative path as argument.Maxim Cournoyer2019-05-05
| | | | | | * gnu/packages/docker.scm (docker)[phases]: Move implementation detail inside the SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND macros definition, so that the relative path argument can be given as a relative path.
* gnu: docker: Harmonize LookPath regexes.Maxim Cournoyer2019-05-05
| | | | | | * gnu/packages/docker.scm (docker)[phases]: In the patch-paths phase, update the regexes used by SUBSTITUTE-LOOKPATH and SUBSTITUTE-COMMAND to match at the start of the word, like it's done later.
* gnu: docker: Cleanup extraneous comments.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker): Remove "parenthesis-balancing" comments.
* gnu: docker: Fix indentation.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker): Fix indentation using Emacs.
* services: docker: Add new fields to support proxy.Maxim Cournoyer2019-05-05
| | | | | | | | | | The Docker proxy enables inter-container and outside-to-container loopback, and is required by the Docker registry server. * gnu/services/docker.scm (docker-configuration)[proxy, enable-proxy?]: Add fields. (docker-shepherd-service): Use them. (serialize-boolean): New function.
* gnu: Add docker-libnetwork-cmd-proxy.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker-libnetwork-cmd-proxy): New variable.
* gnu: Add docker-libnetwork.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/docker.scm (docker-libnetwork): New private variable.
* gnu: Add go-netlink.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/linux.scm (go-netlink): New variable.
* gnu: Add go-netns.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/networking.scm (go-netns): New variable.
* gnu: Add go-sctp.Maxim Cournoyer2019-05-05
| | | | * gnu/packages/networking.scm (go-sctp): New variable.
* gnu: r-chippeakanno: Update to 3.18.0.Ricardo Wurmus2019-05-06
| | | | | * gnu/packages/bioconductor.scm (r-chippeakanno): Update to 3.18.0. [propagated-inputs]: Add r-rtracklayer.
* gnu: r-arrmnormalization: Update to 1.24.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-arrmnormalization): Update to 1.24.0.
* gnu: r-progeny: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-progeny): Update to 1.6.0.
* gnu: r-rbowtie2: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-rbowtie2): Update to 1.6.0.
* gnu: r-zfpkm: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-zfpkm): Update to 1.6.0.
* gnu: r-webbioc: Update to 1.56.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-webbioc): Update to 1.56.0.
* gnu: r-widgettools: Update to 1.62.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-widgettools): Update to 1.62.0.
* gnu: r-wiggleplotr: Update to 1.8.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-wiggleplotr): Update to 1.8.0.
* gnu: r-wrench: Update to 1.2.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-wrench): Update to 1.2.0.
* gnu: r-xcms: Update to 3.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-xcms): Update to 3.6.0.
* gnu: r-massspecwavelet: Update to 1.50.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-massspecwavelet): Update to 1.50.0.
* gnu: r-xbseq: Update to 1.16.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-xbseq): Update to 1.16.0.
* gnu: r-roar: Update to 1.20.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-roar): Update to 1.20.0.
* gnu: r-yarn: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yarn): Update to 1.10.0.
* gnu: r-quantro: Update to 1.18.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-quantro): Update to 1.18.0.
* gnu: r-yaqcaffy: Update to 1.44.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yaqcaffy): Update to 1.44.0.
* gnu: r-simpleaffy: Update to 2.60.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-simpleaffy): Update to 2.60.0.
* gnu: r-gcrma: Update to 2.56.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-gcrma): Update to 2.56.0.
* gnu: r-yapsa: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yapsa): Update to 1.10.0.
* gnu: r-somaticsignatures: Update to 2.20.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-somaticsignatures): Update to 2.20.0.
* gnu: r-gtrellis: Update to 1.16.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.0.
* gnu: r-yamss: Update to 1.10.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-yamss): Update to 1.10.0.
* gnu: r-ebimage: Update to 4.26.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-ebimage): Update to 4.26.0.
* gnu: r-aucell: Update to 1.6.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-aucell): Update to 1.6.0.
* gnu: r-allelicimbalance: Update to 1.22.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-allelicimbalance): Update to 1.22.0.
* gnu: r-annotationtools: Update to 1.58.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-annotationtools): Update to 1.58.0.
* gnu: r-annotationfuncs: Update to 1.34.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-annotationfuncs): Update to 1.34.0.
* gnu: r-abaenrichment: Update to 1.14.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.14.0.
* gnu: r-gofuncr: Update to 1.4.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-gofuncr): Update to 1.4.0.
* gnu: r-atacseqqc: Update to 1.8.0.Ricardo Wurmus2019-05-06
| | | | | * gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.0. [propagated-inputs]: Add r-edger.
* gnu: r-genomicscores: Update to 1.8.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-genomicscores): Update to 1.8.0.
* gnu: r-motifstack: Update to 1.28.0.Ricardo Wurmus2019-05-06
| | | | | * gnu/packages/bioconductor.scm (r-motifstack): Update to 1.28.0. [propagated-inputs]: Replace r-grimport with r-grimport2.
* gnu: r-motiv: Update to 1.40.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-motiv): Update to 1.40.0.
* gnu: r-rgadem: Update to 2.31.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-rgadem): Update to 2.31.0.
* gnu: r-bacon: Update to 1.12.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-bacon): Update to 1.12.0.
* gnu: r-abseqr: Update to 1.2.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-abseqr): Update to 1.2.0.
* gnu: r-a4: Update to 1.32.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-a4): Update to 1.32.0.
* gnu: r-a4base: Update to 1.32.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-a4base): Update to 1.32.0.
* gnu: r-a4reporting: Update to 1.32.0.Ricardo Wurmus2019-05-06
| | | | * gnu/packages/bioconductor.scm (r-a4reporting): Update to 1.32.0.
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