diff --git a/DESCRIPTION b/DESCRIPTION index 081f79a..7bbc4c5 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,7 +1,7 @@ Type: Package Package: containerit Title: Package R in Docker Containers -Version: 0.5.0 +Version: 0.6.0 Authors@R: c(person(given = "Daniel", family = "Nuest", diff --git a/NEWS.md b/NEWS.md index 048efc7..680d880 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,3 +1,7 @@ +# containerit 0.6.0 (2019-08-20) + +* Review feedback from JOSS, see https://github.com/openjournals/joss-reviews/issues/1603 (paper improvements, include quick instructions, harden tests when crandeps.r-pkg.org is not available, add CONTRIBUTING.md, improve pkgdown site) + # containerit 0.5.0 (2019-07-19) * Initial release with support for creating a Dockerfile from sessionInfos (objects, stored in files) and installing packages from CRAN, Bioconductor, and GitHub diff --git a/codemeta.json b/codemeta.json index a0b68f5..4d6826c 100644 --- a/codemeta.json +++ b/codemeta.json @@ -4,7 +4,8 @@ "identifier": "containerit", "description": "Package R sessions, scripts, workspace directories, and R\n Markdown documents together with all dependencies to execute them in\n Docker containers. This package is supported by the project Opening\n Reproducible Research ().", "name": "containerit: Package R in Docker Containers", - "codeRepository": "https://o2r.info/containerit/", + "codeRepository": "https://github.com/o2r-project/containerit/", + "relatedLink": "https://o2r.info/containerit/", "issueTracker": "https://github.com/o2r-project/containerit/issues", "license": "https://spdx.org/licenses/GPL-3.0", "version": "0.5.0", @@ -572,6 +573,7 @@ "sameAs": "https://CRAN.R-project.org/package=versions" } ], + "keywords": ["docker", "reproducible-research", "reproducible-science", "r", "dockerfile"], "citation": [ { "@type": "SoftwareSourceCode", @@ -592,8 +594,7 @@ } ], "name": "containerit: Package R in Docker Containers", - "url": "https://o2r.info/containerit/", - "description": "R package version 0.5.0" + "description": "https://o2r.info/containerit/,\nhttps://github.com/o2r-project/containerit/" } ] } diff --git a/docs/CONDUCT.html b/docs/CONDUCT.html index 5b10323..8b3203b 100644 --- a/docs/CONDUCT.html +++ b/docs/CONDUCT.html @@ -63,7 +63,7 @@ containerit - 0.5.0 + 0.6.0 diff --git a/docs/CONTRIBUTING.html b/docs/CONTRIBUTING.html index b7cd83b..05fdfdd 100644 --- a/docs/CONTRIBUTING.html +++ b/docs/CONTRIBUTING.html @@ -63,7 +63,7 @@ containerit - 0.5.0 + 0.6.0 diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html index ed05a81..2cdf9c2 100644 --- a/docs/LICENSE-text.html +++ b/docs/LICENSE-text.html @@ -63,7 +63,7 @@ containerit - 0.5.0 + 0.6.0 diff --git a/docs/articles/basic.html b/docs/articles/basic.html index f6befaf..fbc170a 100644 --- a/docs/articles/basic.html +++ b/docs/articles/basic.html @@ -31,7 +31,7 @@ containerit - 0.5.0 + 0.6.0 @@ -132,10 +132,10 @@

plot(v, model = m)

-
## INFO [2019-08-20 10:20:07] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:20:07] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
-## INFO [2019-08-20 10:20:18] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
-## INFO [2019-08-20 10:20:18] Created Dockerfile-Object based on sessionInfo
+
## INFO [2019-08-20 16:44:17] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:17] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
+## INFO [2019-08-20 16:44:20] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
+## INFO [2019-08-20 16:44:20] Created Dockerfile-Object based on sessionInfo

The Dockerfile object can be saved to a file or printed out.

cat(as.character(format(my_environment)), sep = "\n")
FALSE FROM rocker/r-ver:3.6.1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
@@ -162,10 +162,10 @@ 

 
 
## [1] "sessionInfo"

 
-
## INFO [2019-08-20 10:20:19] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:20:19] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
-## INFO [2019-08-20 10:20:39] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
-## INFO [2019-08-20 10:20:39] Created Dockerfile-Object based on sessionInfo

+
## INFO [2019-08-20 16:44:21] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:21] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
+## INFO [2019-08-20 16:44:24] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
+## INFO [2019-08-20 16:44:24] Created Dockerfile-Object based on sessionInfo

 
## An object of class "Dockerfile"
 ## Slot "image":
 ## An object of class "From"
@@ -263,13 +263,13 @@ 

 
## Warning in dockerfileFromFile(file = from, dockerfile = the_dockerfile, :
 ## The given file is not inside the working directory! This may lead to
 ## incorrect COPY instructions.

-
## INFO [2019-08-20 10:20:40] Processing R script file '../../../../../../tmp/Rtmp0yMYGm/containerit_5b5476fff3ce.R' locally.
-## INFO [2019-08-20 10:20:41] Creating an R session with the following expressions:
-## source(file = "/tmp/Rtmp0yMYGm/containerit_5b5476fff3ce.R", echo = TRUE)
-## INFO [2019-08-20 10:20:44] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:20:44] Trying to determine system requirements for the package(s) 'assertthat,backports,crayon,curl,desc,digest,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,lattice,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rgdal,rlang,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,stevedore,stringi,stringr,tibble,versions,xtable' from sysreqs online DB
-## INFO [2019-08-20 10:20:55] Adding CRAN packages: assertthat, backports, crayon, curl, desc, digest, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, lattice, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rgdal, rlang, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, stevedore, stringi, stringr, tibble, versions, xtable
-## INFO [2019-08-20 10:20:55] Created Dockerfile-Object based on /tmp/Rtmp0yMYGm/containerit_5b5476fff3ce.R
+
## INFO [2019-08-20 16:44:25] Processing R script file '../../../../../../tmp/RtmpS9XsVy/containerit_623425967d93.R' locally.
+## INFO [2019-08-20 16:44:25] Creating an R session with the following expressions:
+## source(file = "/tmp/RtmpS9XsVy/containerit_623425967d93.R", echo = TRUE)
+## INFO [2019-08-20 16:44:27] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:27] Trying to determine system requirements for the package(s) 'assertthat,backports,crayon,curl,desc,digest,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,lattice,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rgdal,rlang,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,stevedore,stringi,stringr,tibble,versions,xtable' from sysreqs online DB
+## INFO [2019-08-20 16:44:29] Adding CRAN packages: assertthat, backports, crayon, curl, desc, digest, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, lattice, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rgdal, rlang, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, stevedore, stringi, stringr, tibble, versions, xtable
+## INFO [2019-08-20 16:44:29] Created Dockerfile-Object based on /tmp/RtmpS9XsVy/containerit_623425967d93.R
 ## FROM rocker/r-ver:3.6.1
 ## LABEL maintainer="daniel"
 ## RUN export DEBIAN_FRONTEND=noninteractive; apt-get -y update \
@@ -298,17 +298,17 @@ 

 
 
## Warning in dockerfileFromWorkspace(path = from, dockerfile = the_dockerfile, : Found both scripts and weaved documents (Rmd) in the given directory. Using the first document for packaging: 
 ##  ../inst/demo_sf.Rmd

-
## INFO [2019-08-20 10:20:56] Found file for packaging in workspace: ../inst/demo_sf.Rmd

+
## INFO [2019-08-20 16:44:30] Found file for packaging in workspace: ../inst/demo_sf.Rmd

 
## Warning in dockerfileFromFile(target_file, dockerfile = dockerfile, soft =
 ## soft, : The given file is not inside the working directory! This may lead
 ## to incorrect COPY instructions.

-
## INFO [2019-08-20 10:20:56] Processing Rmd file '../inst/demo_sf.Rmd' locally using rmarkdown::render(...)
-## INFO [2019-08-20 10:20:56] Creating an R session with the following expressions:
+
## INFO [2019-08-20 16:44:30] Processing Rmd file '../inst/demo_sf.Rmd' locally using rmarkdown::render(...)
+## INFO [2019-08-20 16:44:30] Creating an R session with the following expressions:
 ## rmarkdown::render("../inst/demo_sf.Rmd")
-## INFO [2019-08-20 10:20:59] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:20:59] Trying to determine system requirements for the package(s) 'assertthat,backports,class,classInt,crayon,curl,DBI,desc,digest,e1071,evaluate,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,KernSmooth,knitr,lambda.r,later,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rmarkdown,rprojroot,rstudioapi,semver,sf,shiny,shinyFiles,stevedore,stringi,stringr,tibble,units,versions,xfun,xtable,yaml' from sysreqs online DB
-## INFO [2019-08-20 10:21:13] Adding CRAN packages: assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, evaluate, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, KernSmooth, knitr, lambda.r, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rmarkdown, rprojroot, rstudioapi, semver, sf, shiny, shinyFiles, stevedore, stringi, stringr, tibble, units, versions, xfun, xtable, yaml
-## INFO [2019-08-20 10:21:13] Created Dockerfile-Object based on ../inst

+## INFO [2019-08-20 16:44:34] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:34] Trying to determine system requirements for the package(s) 'assertthat,backports,class,classInt,crayon,curl,DBI,desc,digest,e1071,evaluate,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,KernSmooth,knitr,lambda.r,later,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rmarkdown,rprojroot,rstudioapi,semver,sf,shiny,shinyFiles,stevedore,stringi,stringr,tibble,units,versions,xfun,xtable,yaml' from sysreqs online DB
+## INFO [2019-08-20 16:44:36] Adding CRAN packages: assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, evaluate, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, KernSmooth, knitr, lambda.r, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rmarkdown, rprojroot, rstudioapi, semver, sf, shiny, shinyFiles, stevedore, stringi, stringr, tibble, units, versions, xfun, xtable, yaml
+## INFO [2019-08-20 16:44:36] Created Dockerfile-Object based on ../inst

 
print(df)

 
## FROM rocker/r-ver:3.6.1
 ## LABEL maintainer="daniel"
@@ -336,20 +336,20 @@ 

 
df <- containerit::dockerfile(from = "../inst", image = "rocker/geospatial:3.5.2", filter_baseimage_pkgs = TRUE)

 
## Warning in dockerfileFromWorkspace(path = from, dockerfile = the_dockerfile, : Found both scripts and weaved documents (Rmd) in the given directory. Using the first document for packaging: 
 ##  ../inst/demo_sf.Rmd

-
## INFO [2019-08-20 10:21:15] Found file for packaging in workspace: ../inst/demo_sf.Rmd

+
## INFO [2019-08-20 16:44:38] Found file for packaging in workspace: ../inst/demo_sf.Rmd

 
## Warning in dockerfileFromFile(target_file, dockerfile = dockerfile, soft =
 ## soft, : The given file is not inside the working directory! This may lead
 ## to incorrect COPY instructions.

-
## INFO [2019-08-20 10:21:15] Processing Rmd file '../inst/demo_sf.Rmd' locally using rmarkdown::render(...)
-## INFO [2019-08-20 10:21:15] Creating an R session with the following expressions:
+
## INFO [2019-08-20 16:44:38] Processing Rmd file '../inst/demo_sf.Rmd' locally using rmarkdown::render(...)
+## INFO [2019-08-20 16:44:38] Creating an R session with the following expressions:
 ## rmarkdown::render("../inst/demo_sf.Rmd")

 
## Detected API version '1.40' is above max version '1.39'; downgrading
 ## Detected API version '1.40' is above max version '1.39'; downgrading

-
## INFO [2019-08-20 10:21:23] Skipping packages for image rocker/geospatial:3.5.2 (packages are unversioned): assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, evaluate, formatR, fs, htmltools, httpuv, jsonlite, KernSmooth, knitr, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rmarkdown, rprojroot, rstudioapi, sf, shiny, stringi, stringr, tibble, units, xfun, xtable, yaml
-## INFO [2019-08-20 10:21:23] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:21:23] Trying to determine system requirements for the package(s) 'futile.logger,futile.options,lambda.r,semver,shinyFiles,stevedore,versions' from sysreqs online DB
-## INFO [2019-08-20 10:21:24] Adding CRAN packages: futile.logger, futile.options, lambda.r, semver, shinyFiles, stevedore, versions
-## INFO [2019-08-20 10:21:24] Created Dockerfile-Object based on ../inst

+
## INFO [2019-08-20 16:44:43] Skipping packages for image rocker/geospatial:3.5.2 (packages are unversioned): assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, evaluate, formatR, fs, htmltools, httpuv, jsonlite, KernSmooth, knitr, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rmarkdown, rprojroot, rstudioapi, sf, shiny, stringi, stringr, tibble, units, xfun, xtable, yaml
+## INFO [2019-08-20 16:44:43] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:43] Trying to determine system requirements for the package(s) 'futile.logger,futile.options,lambda.r,semver,shinyFiles,stevedore,versions' from sysreqs online DB
+## INFO [2019-08-20 16:44:44] Adding CRAN packages: futile.logger, futile.options, lambda.r, semver, shinyFiles, stevedore, versions
+## INFO [2019-08-20 16:44:44] Created Dockerfile-Object based on ../inst

 
print(df)

 
## FROM rocker/geospatial:3.5.2
 ## LABEL maintainer="daniel"
diff --git a/docs/articles/bioconductor.html b/docs/articles/bioconductor.html
index 55466ca..4192d1d 100644
--- a/docs/articles/bioconductor.html
+++ b/docs/articles/bioconductor.html
@@ -31,7 +31,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -116,10 +116,10 @@ 
2019-08-20

 
 library("containerit")
 df <- dockerfile(from = info)

-
## INFO [2019-08-20 10:21:33] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:21:33] Trying to determine system requirements for the package(s) 'BiocGenerics' from sysreqs online DB
-## INFO [2019-08-20 10:21:34] Adding Bioconductor packages: BiocGenerics
-## INFO [2019-08-20 10:21:35] Created Dockerfile-Object based on sessionInfo

+
## INFO [2019-08-20 16:44:54] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:44:54] Trying to determine system requirements for the package(s) 'BiocGenerics' from sysreqs online DB
+## INFO [2019-08-20 16:44:55] Adding Bioconductor packages: BiocGenerics
+## INFO [2019-08-20 16:44:55] Created Dockerfile-Object based on sessionInfo

 
A shortcut to this is provided with the function containerit::clean_session(..):

 
containerit::clean_session(expr = quote(library("BiocGenerics")))

 
The created Dockerfile is:

diff --git a/docs/articles/container.html b/docs/articles/container.html
index b1dd66d..e7c30cd 100644
--- a/docs/articles/container.html
+++ b/docs/articles/container.html
@@ -31,7 +31,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -115,8 +115,35 @@ 

 
 
## geospatial: Pulling from o2rproject/containerit
-## Digest: sha256:8720913480a65085829fc39cad9dd3742ecb32ac61768b7a999f767683256191
-## Status: Image is up to date for o2rproject/containerit:geospatial
+## c5e155d5a1d1: Already exists
+## 2524371be50d: Already exists
+## 03321dce714a: Already exists
+## f7183dc9df43: Already exists
+## 8a94f51ef612: Already exists
+## 0871071b8282: Already exists
+## d20d9e24f0ce: Already exists
+## ecd0c9d884a2: Already exists
+## 34198166c3ef: Already exists
+## 89978b67f5d2: Already exists
+## 005de089cb1e: Already exists
+## 5fe456ccc50f: Already exists
+## a4bbc4ae328f: Pulling fs layer
+## b648dceb1c63: Pulling fs layer
+## 2801e53bec76: Pulling fs layer
+## 9494b804300f: Pulling fs layer
+## 2801e53bec76: Verifying Checksum
+## 2801e53bec76: Download complete
+## a4bbc4ae328f: Verifying Checksum
+## a4bbc4ae328f: Download complete
+## a4bbc4ae328f: Pull complete
+## 9494b804300f: Download complete
+## b648dceb1c63: Verifying Checksum
+## b648dceb1c63: Download complete
+## b648dceb1c63: Pull complete
+## 2801e53bec76: Pull complete
+## 9494b804300f: Pull complete
+## Digest: sha256:98de04565b5c6df876a00f1283ed8d9f84d5ac3925ac7ddabfe0592b25b89724
+## Status: Downloaded newer image for o2rproject/containerit:geospatial
 ## docker.io/o2rproject/containerit:geospatial
 ## 
 ## R version 3.5.3 (2019-03-11) -- "Great Truth"
@@ -137,10 +164,10 @@ 

 ## 
 ## > library(sf); the_dockerfile <- containerit::dockerfile(); print(the_dockerfile);
 ## Linking to GEOS 3.5.1, GDAL 2.1.2, PROJ 4.9.3
-## INFO [2019-08-20 08:21:48] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 08:21:48] Trying to determine system requirements for the package(s) 'assertthat,backports,class,classInt,crayon,curl,DBI,desc,digest,e1071,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rprojroot,semver,sf,shiny,shinyFiles,stevedore,stringi,stringr,tibble,units,versions,xtable' from sysreqs online DB
-## INFO [2019-08-20 08:21:56] Adding CRAN packages: assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rprojroot, semver, sf, shiny, shinyFiles, stevedore, stringi, stringr, tibble, units, versions, xtable
-## INFO [2019-08-20 08:21:56] Created Dockerfile-Object based on sessionInfo
+## INFO [2019-08-20 14:45:10] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 14:45:10] Trying to determine system requirements for the package(s) 'assertthat,backports,class,classInt,crayon,curl,DBI,desc,digest,e1071,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rprojroot,semver,sf,shiny,shinyFiles,stevedore,stringi,stringr,tibble,units,versions,xtable' from sysreqs online DB
+## INFO [2019-08-20 14:45:13] Adding CRAN packages: assertthat, backports, class, classInt, crayon, curl, DBI, desc, digest, e1071, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rprojroot, semver, sf, shiny, shinyFiles, stevedore, stringi, stringr, tibble, units, versions, xtable
+## INFO [2019-08-20 14:45:13] Created Dockerfile-Object based on sessionInfo
 ## FROM rocker/r-ver:3.5.3
 ## LABEL maintainer="root"
 ## RUN export DEBIAN_FRONTEND=noninteractive; apt-get -y update \
diff --git a/docs/articles/containerit.html b/docs/articles/containerit.html
index 4835c58..121cc08 100644
--- a/docs/articles/containerit.html
+++ b/docs/articles/containerit.html
@@ -31,7 +31,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -148,10 +148,10 @@ 

 plot(v, model = m)

 
-
## INFO [2019-08-20 10:22:06] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:22:06] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
-## INFO [2019-08-20 10:22:16] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
-## INFO [2019-08-20 10:22:16] Created Dockerfile-Object based on sessionInfo

+
## INFO [2019-08-20 16:45:18] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:45:18] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,FNN,formatR,fs,futile.logger,futile.options,gstat,htmltools,httpuv,intervals,jsonlite,knitr,lambda.r,later,lattice,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,spacetime,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,xts,yaml,zoo' from sysreqs online DB
+## INFO [2019-08-20 16:45:21] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, FNN, formatR, fs, futile.logger, futile.options, gstat, htmltools, httpuv, intervals, jsonlite, knitr, lambda.r, later, lattice, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, spacetime, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, xts, yaml, zoo
+## INFO [2019-08-20 16:45:21] Created Dockerfile-Object based on sessionInfo

 
The representation of a Dockerfile in R is an instance of the S4 class Dockerfile.

 
 
## An object of class "Dockerfile"
@@ -266,12 +266,12 @@ 

          expression(data(meuse)), 
          expression(mean(meuse[["zinc"]])))
 dockerfile_object <- dockerfile(from = exp)

-
## INFO [2019-08-20 10:22:17] Creating an R session with the following expressions:
+
## INFO [2019-08-20 16:45:22] Creating an R session with the following expressions:
 ## library(sp), data(meuse), mean(meuse[["zinc"]])
-## INFO [2019-08-20 10:22:19] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-## INFO [2019-08-20 10:22:19] Trying to determine system requirements for the package(s) 'assertthat,backports,crayon,curl,desc,digest,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,lattice,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,stevedore,stringi,stringr,tibble,versions,xtable' from sysreqs online DB
-## INFO [2019-08-20 10:22:23] Adding CRAN packages: assertthat, backports, crayon, curl, desc, digest, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, lattice, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, stevedore, stringi, stringr, tibble, versions, xtable
-## INFO [2019-08-20 10:22:23] Created Dockerfile-Object based on expression

+## INFO [2019-08-20 16:45:24] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+## INFO [2019-08-20 16:45:24] Trying to determine system requirements for the package(s) 'assertthat,backports,crayon,curl,desc,digest,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,lambda.r,later,lattice,magrittr,mime,miniUI,pillar,pkgconfig,promises,R6,Rcpp,rlang,rprojroot,rstudioapi,semver,shiny,shinyFiles,sp,stevedore,stringi,stringr,tibble,versions,xtable' from sysreqs online DB
+## INFO [2019-08-20 16:45:26] Adding CRAN packages: assertthat, backports, crayon, curl, desc, digest, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, lambda.r, later, lattice, magrittr, mime, miniUI, pillar, pkgconfig, promises, R6, Rcpp, rlang, rprojroot, rstudioapi, semver, shiny, shinyFiles, sp, stevedore, stringi, stringr, tibble, versions, xtable
+## INFO [2019-08-20 16:45:26] Created Dockerfile-Object based on expression

 
print(dockerfile_object)

 
FROM rocker/r-ver:3.6.1
 LABEL maintainer="daniel"
@@ -314,7 +314,7 @@ 

     make
 RUN ["install2.r", "assertthat", "backports", "crayon", "curl", "desc", "digest", "formatR", "fs", "futile.logger", "futile.options", "htmltools", "httpuv", "jsonlite", "lambda.r", "later", "lattice", "magrittr", "mime", "miniUI", "pillar", "pkgconfig", "promises", "R6", "Rcpp", "rgdal", "rlang", "rprojroot", "rstudioapi", "semver", "shiny", "shinyFiles", "sp", "stevedore", "stringi", "stringr", "tibble", "versions", "xtable"]
 WORKDIR /payload/
-CMD ["R", "--vanilla", "-f", "containerit_639c4283f48c.R"]

+CMD ["R", "--vanilla", "-f", "containerit_66bb2c4a2589.R"]

 
 

 

@@ -338,7 +338,7 @@ 

     make
 RUN ["install2.r", "assertthat", "backports", "crayon", "curl", "desc", "digest", "formatR", "fs", "futile.logger", "futile.options", "htmltools", "httpuv", "jsonlite", "lambda.r", "later", "lattice", "magrittr", "mime", "miniUI", "pillar", "pkgconfig", "promises", "R6", "Rcpp", "rgdal", "rlang", "rprojroot", "rstudioapi", "semver", "shiny", "shinyFiles", "sp", "stevedore", "stringi", "stringr", "tibble", "versions", "xtable"]
 WORKDIR /payload/
-CMD ["R", "--vanilla", "-f", "containerit_639c4283f48c.R"]

+CMD ["R", "--vanilla", "-f", "containerit_66bb2c4a2589.R"]

 
 

 

@@ -439,7 +439,7 @@ 

 
-
## WARN [2019-08-20 10:23:27] No version information found for packages: classInt, DBI, graphics, grDevices, grid, magrittr, Rcpp, stats, tools, units, utils

+
## WARN [2019-08-20 16:45:53] No version information found for packages: classInt, DBI, graphics, grDevices, grid, magrittr, Rcpp, stats, tools, units, utils

 
print(df_description_sf)

 
FROM rocker/r-ver:3.3.0
 LABEL maintainer="o2r"
@@ -567,11 +567,11 @@ 

     org.label-schema.name="ImageName" \
     yet.another_labelname="true"
 LABEL org.label-schema.schema-version="1.0.0-rc.1" \
-    org.label-schema.build-date="2019-08-20T10:24:15+0200" \
+    org.label-schema.build-date="2019-08-20T16:46:13+0200" \
     org.label-schema.name="ImageName" \
     org.label-schema.description="Description of the image"
 LABEL R.session-info="R version 3.6.1 (2019-07-05)\nPlatform: x86_64-pc-linux-gnu (64-bit)\nRunning under: Ubuntu 19.04\n\nMatrix products: default\nBLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.8.0\nLAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.8.0\n\nlocale:\n [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              \n [3] LC_TIME=de_DE.UTF-8        LC_COLLATE=en_US.UTF-8    \n [5] LC_MONETARY=de_DE.UTF-8    LC_MESSAGES=en_US.UTF-8   \n [7] LC_PAPER=de_DE.UTF-8       LC_NAME=C                 \n [9] LC_ADDRESS=C               LC_TELEPHONE=C            \n[11] LC_MEASUREMENT=de_DE.UTF-8 LC_IDENTIFICATION=C       \n\nattached base packages:\n[1] stats     graphics  grDevices utils     datasets  methods   base     \n\nloaded via a namespace (and not attached):\n [1] Rcpp_1.0.2           rstudioapi_0.10      magrittr_1.5        \n [4] containerit_0.5.0    xtable_1.8-4         R6_2.4.0            \n [7] rlang_0.4.0          stringr_1.4.0        versions_0.3        \n[10] tools_3.6.1          stevedore_0.9.1      miniUI_0.1.1.1      \n[13] lambda.r_1.2.3       futile.logger_1.4.3  semver_0.2.0        \n[16] htmltools_0.3.6      shinyFiles_0.7.3     digest_0.6.20       \n[19] assertthat_0.2.1     rprojroot_1.3-2      tibble_2.1.3        \n[22] crayon_1.3.4         shiny_1.3.2          formatR_1.7         \n[25] later_0.8.0          promises_1.0.1       fs_1.3.1            \n[28] futile.options_1.0.1 curl_4.0             mime_0.7            \n[31] stringi_1.4.3        pillar_1.4.2         compiler_3.6.1      \n[34] desc_1.2.0           backports_1.1.4      jsonlite_1.6        \n[37] httpuv_1.5.1         pkgconfig_2.0.2     "
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 CMD ["R"]

 

 

diff --git a/docs/articles/index.html b/docs/articles/index.html
index c981dea..8d6d07a 100644
--- a/docs/articles/index.html
+++ b/docs/articles/index.html
@@ -63,7 +63,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/authors.html b/docs/authors.html
index 2d56fd6..e9b9249 100644
--- a/docs/authors.html
+++ b/docs/authors.html
@@ -63,7 +63,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/index.html b/docs/index.html
index 60f9c02..8c0b51c 100644
--- a/docs/index.html
+++ b/docs/index.html
@@ -34,7 +34,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -138,10 +138,10 @@ 

 
containerit can create Dockerfile objects in R and render them as Dockerfile instructions based on session information objects or runnable R files (.R, .Rmd).

 
+#> INFO [2019-08-20 16:43:13] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+#> INFO [2019-08-20 16:43:13] Trying to determine system requirements for the package(s) 'assertthat,backports,commonmark,crayon,curl,desc,digest,evaluate,formatR,fs,futile.logger,futile.options,htmltools,httpuv,jsonlite,knitr,lambda.r,later,magrittr,MASS,memoise,mime,miniUI,pillar,pkgconfig,pkgdown,promises,R6,Rcpp,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,shiny,shinyFiles,stevedore,stringi,stringr,tibble,versions,xfun,xml2,xtable,yaml' from sysreqs online DB
+#> INFO [2019-08-20 16:43:15] Adding CRAN packages: assertthat, backports, commonmark, crayon, curl, desc, digest, evaluate, formatR, fs, futile.logger, futile.options, htmltools, httpuv, jsonlite, knitr, lambda.r, later, magrittr, MASS, memoise, mime, miniUI, pillar, pkgconfig, pkgdown, promises, R6, Rcpp, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, shiny, shinyFiles, stevedore, stringi, stringr, tibble, versions, xfun, xml2, xtable, yaml
+#> INFO [2019-08-20 16:43:16] Created Dockerfile-Object based on sessionInfo

 
 
You can use pre-commit hooks to avoid some mistakes.

 
A codemeta file, codemeta.json, with metadata about the package and its dependencies is generated automatically when this document is compiled.

-
+
 
 

 

diff --git a/docs/news/index.html b/docs/news/index.html
index 4541bb4..2dd954c 100644
--- a/docs/news/index.html
+++ b/docs/news/index.html
@@ -63,7 +63,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
@@ -127,6 +127,13 @@ 
Changelog 

       Source: NEWS.md
     
 
+    

+

+containerit 0.6.0 (2019-08-20)

+
+

     

 

 containerit 0.5.0 (2019-07-19)

@@ -141,6 +148,7 @@ 

     

       
Contents

       
     

diff --git a/docs/paper.html b/docs/paper.html
index affe538..c32c06d 100644
--- a/docs/paper.html
+++ b/docs/paper.html
@@ -63,7 +63,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/Add-class.html b/docs/reference/Add-class.html
index 8db6392..17fb396 100644
--- a/docs/reference/Add-class.html
+++ b/docs/reference/Add-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Add.html b/docs/reference/Add.html
index 8c0827f..8fcacce 100644
--- a/docs/reference/Add.html
+++ b/docs/reference/Add.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Arg-class.html b/docs/reference/Arg-class.html
index ba553ca..39aaf52 100644
--- a/docs/reference/Arg-class.html
+++ b/docs/reference/Arg-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Arg.html b/docs/reference/Arg.html
index 1afc36e..386e28f 100644
--- a/docs/reference/Arg.html
+++ b/docs/reference/Arg.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/CMD_Render.html b/docs/reference/CMD_Render.html
index c1314d1..a374cb2 100644
--- a/docs/reference/CMD_Render.html
+++ b/docs/reference/CMD_Render.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/CMD_Rscript.html b/docs/reference/CMD_Rscript.html
index 5d37fbd..c041e88 100644
--- a/docs/reference/CMD_Rscript.html
+++ b/docs/reference/CMD_Rscript.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Cmd-class.html b/docs/reference/Cmd-class.html
index c360e38..58f060e 100644
--- a/docs/reference/Cmd-class.html
+++ b/docs/reference/Cmd-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Cmd.html b/docs/reference/Cmd.html
index 2c9b0a5..ab1b8d3 100644
--- a/docs/reference/Cmd.html
+++ b/docs/reference/Cmd.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Comment-class.html b/docs/reference/Comment-class.html
index 0c63dc6..f64a429 100644
--- a/docs/reference/Comment-class.html
+++ b/docs/reference/Comment-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Comment.html b/docs/reference/Comment.html
index 26abf0a..1c0a07a 100644
--- a/docs/reference/Comment.html
+++ b/docs/reference/Comment.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -155,9 +155,9 @@ 
Value

     
Examples

     
# A simple label that occupies one line:
 comment <- Comment(text = "this is important to note")
-the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 10:18:45] Creating an R session with the following expressions:
+the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 16:43:40] Creating an R session with the following expressions:
 #> 
-#> INFO [2019-08-20 10:18:47] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- comment
+#> INFO [2019-08-20 16:43:41] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- comment
 print(the_dockerfile)
#> FROM rocker/r-ver:3.6.1
 #> LABEL maintainer="daniel"
 #> WORKDIR /payload/
diff --git a/docs/reference/Copy-class.html b/docs/reference/Copy-class.html
index fa8dae1..6fcbaca 100644
--- a/docs/reference/Copy-class.html
+++ b/docs/reference/Copy-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/Copy.html b/docs/reference/Copy.html
index d78b59b..14f7fc8 100644
--- a/docs/reference/Copy.html
+++ b/docs/reference/Copy.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Dockerfile-class.html b/docs/reference/Dockerfile-class.html
index af1db3d..590fc1b 100644
--- a/docs/reference/Dockerfile-class.html
+++ b/docs/reference/Dockerfile-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Entrypoint-class.html b/docs/reference/Entrypoint-class.html
index 29bd73d..513dbdc 100644
--- a/docs/reference/Entrypoint-class.html
+++ b/docs/reference/Entrypoint-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Entrypoint.html b/docs/reference/Entrypoint.html
index 7a13adc..43008c0 100644
--- a/docs/reference/Entrypoint.html
+++ b/docs/reference/Entrypoint.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Env-class.html b/docs/reference/Env-class.html
index 700b24e..0d29606 100644
--- a/docs/reference/Env-class.html
+++ b/docs/reference/Env-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Env.html b/docs/reference/Env.html
index 3375668..c99e65d 100644
--- a/docs/reference/Env.html
+++ b/docs/reference/Env.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Expose-class.html b/docs/reference/Expose-class.html
index ce40425..d3adc15 100644
--- a/docs/reference/Expose-class.html
+++ b/docs/reference/Expose-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Expose.html b/docs/reference/Expose.html
index 6a33327..9923d37 100644
--- a/docs/reference/Expose.html
+++ b/docs/reference/Expose.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/From-class.html b/docs/reference/From-class.html
index ab56d9e..7966139 100644
--- a/docs/reference/From-class.html
+++ b/docs/reference/From-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/From.html b/docs/reference/From.html
index b0f878f..9915e7b 100644
--- a/docs/reference/From.html
+++ b/docs/reference/From.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Healthcheck-class.html b/docs/reference/Healthcheck-class.html
index 6e6d371..d4de45e 100644
--- a/docs/reference/Healthcheck-class.html
+++ b/docs/reference/Healthcheck-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Healthcheck.html b/docs/reference/Healthcheck.html
index 924ce94..53549f5 100644
--- a/docs/reference/Healthcheck.html
+++ b/docs/reference/Healthcheck.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Instruction-class.html b/docs/reference/Instruction-class.html
index 420749d..39a2249 100644
--- a/docs/reference/Instruction-class.html
+++ b/docs/reference/Instruction-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Label-class.html b/docs/reference/Label-class.html
index 592c770..1f70123 100644
--- a/docs/reference/Label-class.html
+++ b/docs/reference/Label-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Label.html b/docs/reference/Label.html
index 18fbaa3..537ec1f 100644
--- a/docs/reference/Label.html
+++ b/docs/reference/Label.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -179,9 +179,9 @@ 
Examp
 )
 #label with fixed namespace for all keys
 label3 <- Label("name"="A name", "description" = "A description", label_ns = "my.label.ns.")
-the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 10:18:50] Creating an R session with the following expressions:
+the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 16:43:44] Creating an R session with the following expressions:
 #> 
-#> INFO [2019-08-20 10:18:52] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- list(label1, label2, label3)
+#> INFO [2019-08-20 16:43:46] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- list(label1, label2, label3)
 cat(format(the_dockerfile),sep = "\n")
#> FROM rocker/r-ver:3.6.1                                                                                             
 #> LABEL maintainer="daniel"                                                                                           
 #> WORKDIR /payload/                                                                                                   
diff --git a/docs/reference/LabelSchemaFactory.html b/docs/reference/LabelSchemaFactory.html
index ad141a6..0cf8a1c 100644
--- a/docs/reference/LabelSchemaFactory.html
+++ b/docs/reference/LabelSchemaFactory.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
@@ -158,15 +158,15 @@ 
See a
     
 
     
Examples

-    
the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 10:18:52] Creating an R session with the following expressions:
+    
the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 16:43:46] Creating an R session with the following expressions:
 #> 
-#> INFO [2019-08-20 10:18:54] Created Dockerfile-Object based on sessionInfo
factory <- LabelSchemaFactory()
#> INFO [2019-08-20 10:18:54] According to Label Schema Convention 1.0.0-rc.1 you can use the following arguments for constructing metadata labels:
label <- factory(name = "ImageName",
+#> INFO [2019-08-20 16:43:48] Created Dockerfile-Object based on sessionInfo
factory <- LabelSchemaFactory()
#> INFO [2019-08-20 16:43:48] According to Label Schema Convention 1.0.0-rc.1 you can use the following arguments for constructing metadata labels:
label <- factory(name = "ImageName",
   description = "Description of the image",
   build_date = Sys.time()
  )
 addInstruction(the_dockerfile) <- label
 cat(format(the_dockerfile))
#> FROM rocker/r-ver:3.6.1                                                                                                                                                                                               LABEL maintainer="daniel"                                                                                                                                                                                             WORKDIR /payload/                                                                                                                                                                                                     LABEL org.label-schema.schema-version="1.0.0-rc.1" \
-#> 	org.label-schema.build-date="2019-08-20T10:18:54+0200" \
+#> 	org.label-schema.build-date="2019-08-20T16:43:48+0200" \
 #> 	org.label-schema.name="ImageName" \
 #> 	org.label-schema.description="Description of the image" CMD ["R"]                                                                                                                                                                                                            

 
diff --git a/docs/reference/Label_Maintainer.html b/docs/reference/Label_Maintainer.html
index e6de9e5..181bf0a 100644
--- a/docs/reference/Label_Maintainer.html
+++ b/docs/reference/Label_Maintainer.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/Label_SessionInfo.html b/docs/reference/Label_SessionInfo.html
index 457e22e..04fef2e 100644
--- a/docs/reference/Label_SessionInfo.html
+++ b/docs/reference/Label_SessionInfo.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
@@ -164,8 +164,8 @@ 
See a
     
 
     
Examples

-    
the_session <- clean_session()
#> INFO [2019-08-20 10:18:54] Creating an R session with the following expressions:
-#> 
the_dockerfile <- dockerfile(the_session)
#> INFO [2019-08-20 10:18:56] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- Label_SessionInfo(the_session)

+    
the_session <- clean_session()
#> INFO [2019-08-20 16:43:48] Creating an R session with the following expressions:
+#> 
the_dockerfile <- dockerfile(the_session)
#> INFO [2019-08-20 16:43:49] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- Label_SessionInfo(the_session)

   
   
 
diff --git a/docs/reference/Maintainer.html b/docs/reference/Maintainer.html
index 338608f..84d7ffe 100644
--- a/docs/reference/Maintainer.html
+++ b/docs/reference/Maintainer.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Onbuild-class.html b/docs/reference/Onbuild-class.html
index 873419a..ab56011 100644
--- a/docs/reference/Onbuild-class.html
+++ b/docs/reference/Onbuild-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Onbuild.html b/docs/reference/Onbuild.html
index 40d0bda..c3ac168 100644
--- a/docs/reference/Onbuild.html
+++ b/docs/reference/Onbuild.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Run-class.html b/docs/reference/Run-class.html
index 035a623..b6bfe73 100644
--- a/docs/reference/Run-class.html
+++ b/docs/reference/Run-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Run.html b/docs/reference/Run.html
index d4eec30..e1036d3 100644
--- a/docs/reference/Run.html
+++ b/docs/reference/Run.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Run_shell-class.html b/docs/reference/Run_shell-class.html
index 40f6180..3c99b68 100644
--- a/docs/reference/Run_shell-class.html
+++ b/docs/reference/Run_shell-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Run_shell.html b/docs/reference/Run_shell.html
index c83e37d..823afaa 100644
--- a/docs/reference/Run_shell.html
+++ b/docs/reference/Run_shell.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Shell-class.html b/docs/reference/Shell-class.html
index 9f6e4b2..b806491 100644
--- a/docs/reference/Shell-class.html
+++ b/docs/reference/Shell-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Shell.html b/docs/reference/Shell.html
index a4781d5..a024b09 100644
--- a/docs/reference/Shell.html
+++ b/docs/reference/Shell.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Stopsignal-class.html b/docs/reference/Stopsignal-class.html
index fcd3abc..ac30ffc 100644
--- a/docs/reference/Stopsignal-class.html
+++ b/docs/reference/Stopsignal-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Stopsignal.html b/docs/reference/Stopsignal.html
index 5e99d83..23fde4a 100644
--- a/docs/reference/Stopsignal.html
+++ b/docs/reference/Stopsignal.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Volume-class.html b/docs/reference/Volume-class.html
index d7f5144..ee70d4c 100644
--- a/docs/reference/Volume-class.html
+++ b/docs/reference/Volume-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Volume.html b/docs/reference/Volume.html
index bbb8bf4..cb9b963 100644
--- a/docs/reference/Volume.html
+++ b/docs/reference/Volume.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Workdir-class.html b/docs/reference/Workdir-class.html
index 0facf37..8dd6d06 100644
--- a/docs/reference/Workdir-class.html
+++ b/docs/reference/Workdir-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/Workdir.html b/docs/reference/Workdir.html
index e9d6751..5cd21fd 100644
--- a/docs/reference/Workdir.html
+++ b/docs/reference/Workdir.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/addInstruction-set.html b/docs/reference/addInstruction-set.html
index df044b1..70c6fd1 100644
--- a/docs/reference/addInstruction-set.html
+++ b/docs/reference/addInstruction-set.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -157,9 +157,9 @@ 
Value

     
 
     
Examples

-    
the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 10:18:59] Creating an R session with the following expressions:
+    
the_dockerfile <- dockerfile(clean_session())
#> INFO [2019-08-20 16:43:53] Creating an R session with the following expressions:
 #> 
-#> INFO [2019-08-20 10:19:01] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- Label(myKey = "myContent")

+#> INFO [2019-08-20 16:43:54] Created Dockerfile-Object based on sessionInfo
addInstruction(the_dockerfile) <- Label(myKey = "myContent")

   
   
 
diff --git a/docs/reference/as.character-Instruction-method.html b/docs/reference/as.character-Instruction-method.html
index a9f28d3..02302c9 100644
--- a/docs/reference/as.character-Instruction-method.html
+++ b/docs/reference/as.character-Instruction-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/characterOrInteger-class.html b/docs/reference/characterOrInteger-class.html
index b318d12..cd0cd6e 100644
--- a/docs/reference/characterOrInteger-class.html
+++ b/docs/reference/characterOrInteger-class.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/clean_session.html b/docs/reference/clean_session.html
index d494c57..bcad5bf 100644
--- a/docs/reference/clean_session.html
+++ b/docs/reference/clean_session.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -173,7 +173,7 @@ 
Arg
     
 
     
Examples

-    
clean_session(c(quote(library('lattice'))))
#> INFO [2019-08-20 10:19:02] Creating an R session with the following expressions:
+    
clean_session(c(quote(library('lattice'))))
#> INFO [2019-08-20 16:43:55] Creating an R session with the following expressions:
 #> library("lattice")
#> R version 3.6.1 (2019-07-05)
 #> Platform: x86_64-pc-linux-gnu (64-bit)
 #> Running under: Ubuntu 19.04
diff --git a/docs/reference/containerit-addin.html b/docs/reference/containerit-addin.html
index fcdd908..41d32f4 100644
--- a/docs/reference/containerit-addin.html
+++ b/docs/reference/containerit-addin.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/containerit.html b/docs/reference/containerit.html
index 69193c0..509e2b6 100644
--- a/docs/reference/containerit.html
+++ b/docs/reference/containerit.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/containerit_write_config.html b/docs/reference/containerit_write_config.html
index 5a9eae5..6bac064 100644
--- a/docs/reference/containerit_write_config.html
+++ b/docs/reference/containerit_write_config.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -181,7 +181,7 @@ 
Examp
 #>     }
 #>   }
 #> }
-#> INFO [2019-08-20 10:19:03] Config file written to 3 . Please reload package or restart session.# NOT RUN {
+#> INFO [2019-08-20 16:43:56] Config file written to 3 . Please reload package or restart session.# NOT RUN {
 #developers may want to initialize the default config with:
 containerit:::containerit_write_config(output = "inst/containerit_config.json")
 # }

diff --git a/docs/reference/docker_build.html b/docs/reference/docker_build.html
index f004985..22ed443 100644
--- a/docs/reference/docker_build.html
+++ b/docs/reference/docker_build.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/dockerfile.html b/docs/reference/dockerfile.html
index 32ced70..517a17b 100644
--- a/docs/reference/dockerfile.html
+++ b/docs/reference/dockerfile.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -256,11 +256,11 @@ 
Examples

-    
dockerfile <- dockerfile()
#> INFO [2019-08-20 10:19:05] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-#> INFO [2019-08-20 10:19:05] Trying to determine system requirements for the package(s) 'assertthat,automagic,backports,BiocManager,callr,cli,codetools,commonmark,crayon,curl,debugme,desc,devtools,digest,evaluate,fansi,formatR,fs,futile.logger,futile.options,glue,highlight,htmltools,httpuv,httr,jsonlite,knitr,lambda.r,later,magrittr,MASS,memoise,mime,miniUI,pillar,pkgbuild,pkgconfig,pkgdown,pkgload,prettyunits,processx,promises,ps,purrr,R6,Rcpp,rematch2,remotes,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,sessioninfo,shiny,shinyFiles,stevedore,stringi,stringr,sysreqs,testthat,tibble,usethis,versions,whisker,withr,xfun,xml2,xtable,yaml' from sysreqs online DB
-#> INFO [2019-08-20 10:19:34] Adding CRAN packages: assertthat, automagic, backports, BiocManager, callr, cli, codetools, commonmark, crayon, curl, debugme, desc, devtools, digest, evaluate, fansi, formatR, fs, futile.logger, futile.options, glue, highlight, htmltools, httpuv, httr, jsonlite, knitr, lambda.r, later, magrittr, MASS, memoise, mime, miniUI, pillar, pkgbuild, pkgconfig, pkgdown, pkgload, prettyunits, processx, promises, ps, purrr, R6, Rcpp, rematch2, remotes, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, sessioninfo, shiny, shinyFiles, stevedore, stringi, stringr, testthat, tibble, usethis, versions, whisker, withr, xfun, xml2, xtable, yaml
-#> INFO [2019-08-20 10:19:34] Adding GitHub packages: r-hub/sysreqs@3860f2b512a9c3bd3db6791c2ff467a1158f4048
-#> INFO [2019-08-20 10:19:34] Created Dockerfile-Object based on sessionInfo
print(dockerfile)
#> FROM rocker/r-ver:3.6.1
+    
dockerfile <- dockerfile()
#> INFO [2019-08-20 16:43:57] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+#> INFO [2019-08-20 16:43:57] Trying to determine system requirements for the package(s) 'assertthat,automagic,backports,BiocManager,callr,cli,codetools,commonmark,crayon,curl,debugme,desc,devtools,digest,evaluate,fansi,formatR,fs,futile.logger,futile.options,glue,highlight,htmltools,httpuv,httr,jsonlite,knitr,lambda.r,later,magrittr,MASS,memoise,mime,miniUI,pillar,pkgbuild,pkgconfig,pkgdown,pkgload,prettyunits,processx,promises,ps,purrr,R6,Rcpp,rematch2,remotes,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,sessioninfo,shiny,shinyFiles,stevedore,stringi,stringr,sysreqs,testthat,tibble,usethis,versions,whisker,withr,xfun,xml2,xtable,yaml' from sysreqs online DB
+#> INFO [2019-08-20 16:44:01] Adding CRAN packages: assertthat, automagic, backports, BiocManager, callr, cli, codetools, commonmark, crayon, curl, debugme, desc, devtools, digest, evaluate, fansi, formatR, fs, futile.logger, futile.options, glue, highlight, htmltools, httpuv, httr, jsonlite, knitr, lambda.r, later, magrittr, MASS, memoise, mime, miniUI, pillar, pkgbuild, pkgconfig, pkgdown, pkgload, prettyunits, processx, promises, ps, purrr, R6, Rcpp, rematch2, remotes, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, sessioninfo, shiny, shinyFiles, stevedore, stringi, stringr, testthat, tibble, usethis, versions, whisker, withr, xfun, xml2, xtable, yaml
+#> INFO [2019-08-20 16:44:01] Adding GitHub packages: r-hub/sysreqs@3860f2b512a9c3bd3db6791c2ff467a1158f4048
+#> INFO [2019-08-20 16:44:01] Created Dockerfile-Object based on sessionInfo
print(dockerfile)
#> FROM rocker/r-ver:3.6.1
 #> LABEL maintainer="daniel"
 #> RUN export DEBIAN_FRONTEND=noninteractive; apt-get -y update \
 #>   && apt-get install -y git-core \
diff --git a/docs/reference/extract_session_file.html b/docs/reference/extract_session_file.html
index 098908e..03a694e 100644
--- a/docs/reference/extract_session_file.html
+++ b/docs/reference/extract_session_file.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
@@ -156,7 +156,7 @@ 
Examp
     
sessionInfo <- sessionInfo()
 file <- tempfile(tmpdir = tempdir(), fileext = ".RData")
 save(sessionInfo, file = file)
-extract_session_file(file)
#> INFO [2019-08-20 10:19:34] Reading object 'sessionInfo' from the given file /tmp/RtmpIKJpu1/file553f541ed5f1.RData
#> R version 3.6.1 (2019-07-05)
+extract_session_file(file)
#> INFO [2019-08-20 16:44:01] Reading object 'sessionInfo' from the given file /tmp/RtmpaH9WJK/file5e4a1a5e3240.RData
#> R version 3.6.1 (2019-07-05)
 #> Platform: x86_64-pc-linux-gnu (64-bit)
 #> Running under: Ubuntu 19.04
 #> 
@@ -176,7 +176,7 @@ 
Examp
 #> [1] stats     graphics  grDevices utils     datasets  methods   base     
 #> 
 #> other attached packages:
-#> [1] containerit_0.5.0 testthat_2.2.1   
+#> [1] containerit_0.6.0 testthat_2.2.1   
 #> 
 #> loaded via a namespace (and not attached):
 #>  [1] Rcpp_1.0.2           prettyunits_1.0.2    ps_1.3.0            
diff --git a/docs/reference/extract_session_image.html b/docs/reference/extract_session_image.html
index 9d59b48..700d934 100644
--- a/docs/reference/extract_session_image.html
+++ b/docs/reference/extract_session_image.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
@@ -181,7 +181,7 @@ 
Note

     
 
     
Examples

-    
extract_session_image("rocker/geospatial:3.3.3")
#> INFO [2019-08-20 10:19:34] Running R in container to obtain a session info using image rocker/geospatial:3.3.3 and command R --vanilla -e info <- sessionInfo() -e save(list = "info", file = "/tmp/capture.RData")
#> Detected API version '1.40' is above max version '1.39'; downgrading
#> O> 
+    
extract_session_image("rocker/geospatial:3.3.3")
#> INFO [2019-08-20 16:44:02] Running R in container to obtain a session info using image rocker/geospatial:3.3.3 and command R --vanilla -e info <- sessionInfo() -e save(list = "info", file = "/tmp/capture.RData")
#> Detected API version '1.40' is above max version '1.39'; downgrading
#> O> 
 #> O> R version 3.3.3 (2017-03-06) -- "Another Canoe"
 #> O> Copyright (C) 2017 The R Foundation for Statistical Computing
 #> O> Platform: x86_64-pc-linux-gnu (64-bit)
@@ -202,7 +202,7 @@ 
Examp
 #> O> > save(list = "info", file = "/tmp/capture.RData")
 #> O> > 
 #> O> > 
-#> INFO [2019-08-20 10:19:37] Wrote sessioninfo from Docker to /tmp/RtmpIKJpu1/extract_bind_553f7ccdad14/capture.RData
#> R version 3.3.3 (2017-03-06)
+#> INFO [2019-08-20 16:44:04] Wrote sessioninfo from Docker to /tmp/RtmpaH9WJK/extract_bind_5e4a3b385408/capture.RData
#> R version 3.3.3 (2017-03-06)
 #> Platform: x86_64-pc-linux-gnu (64-bit)
 #> Running under: Debian GNU/Linux 8 (jessie)
 #> 
diff --git a/docs/reference/format-Dockerfile-method.html b/docs/reference/format-Dockerfile-method.html
index 998b8ef..d11c9d8 100644
--- a/docs/reference/format-Dockerfile-method.html
+++ b/docs/reference/format-Dockerfile-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/getGitHubRef.html b/docs/reference/getGitHubRef.html
index 2064157..d6b757e 100644
--- a/docs/reference/getGitHubRef.html
+++ b/docs/reference/getGitHubRef.html
@@ -67,7 +67,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/getImageForVersion.html b/docs/reference/getImageForVersion.html
index 9ba5691..290c3e5 100644
--- a/docs/reference/getImageForVersion.html
+++ b/docs/reference/getImageForVersion.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     

 
diff --git a/docs/reference/getRVersionTag.html b/docs/reference/getRVersionTag.html
index 4ef2a23..1bfcfec 100644
--- a/docs/reference/getRVersionTag.html
+++ b/docs/reference/getRVersionTag.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/get_installed_packages.html b/docs/reference/get_installed_packages.html
index f4dd227..36d52be 100644
--- a/docs/reference/get_installed_packages.html
+++ b/docs/reference/get_installed_packages.html
@@ -66,7 +66,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/index.html b/docs/reference/index.html
index e31526d..b2d793c 100644
--- a/docs/reference/index.html
+++ b/docs/reference/index.html
@@ -63,7 +63,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/parseFrom.html b/docs/reference/parseFrom.html
index e085ca6..8333238 100644
--- a/docs/reference/parseFrom.html
+++ b/docs/reference/parseFrom.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/print-Dockerfile-method.html b/docs/reference/print-Dockerfile-method.html
index 6de7594..073dc64 100644
--- a/docs/reference/print-Dockerfile-method.html
+++ b/docs/reference/print-Dockerfile-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/print-Instruction-method.html b/docs/reference/print-Instruction-method.html
index e18f5a8..351f486 100644
--- a/docs/reference/print-Instruction-method.html
+++ b/docs/reference/print-Instruction-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/toString-Dockerfile-method.html b/docs/reference/toString-Dockerfile-method.html
index c2bff18..2838702 100644
--- a/docs/reference/toString-Dockerfile-method.html
+++ b/docs/reference/toString-Dockerfile-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/toString-Instruction-method.html b/docs/reference/toString-Instruction-method.html
index 8a50f1e..a212883 100644
--- a/docs/reference/toString-Instruction-method.html
+++ b/docs/reference/toString-Instruction-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/versioned_install_instructions.html b/docs/reference/versioned_install_instructions.html
index a5fe1c9..5ec671b 100644
--- a/docs/reference/versioned_install_instructions.html
+++ b/docs/reference/versioned_install_instructions.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
diff --git a/docs/reference/write-Dockerfile-method.html b/docs/reference/write-Dockerfile-method.html
index ce2eb72..541c721 100644
--- a/docs/reference/write-Dockerfile-method.html
+++ b/docs/reference/write-Dockerfile-method.html
@@ -65,7 +65,7 @@
       
       
         containerit
-        0.5.0
+        0.6.0
       
     
 
@@ -156,11 +156,11 @@ 
Arg
     
Examples

     
# write a dockerfile with default parameters to temporary file and show content:
 temp = tempfile()
-write(dockerfile(), file=temp)
#> INFO [2019-08-20 10:19:43] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
-#> INFO [2019-08-20 10:19:43] Trying to determine system requirements for the package(s) 'assertthat,automagic,backports,BiocManager,callr,cli,codetools,commonmark,crayon,curl,debugme,desc,devtools,digest,evaluate,fansi,formatR,fs,futile.logger,futile.options,glue,highlight,htmltools,httpuv,httr,jsonlite,knitr,lambda.r,later,magrittr,MASS,memoise,mime,miniUI,pillar,pkgbuild,pkgconfig,pkgdown,pkgload,prettyunits,processx,promises,ps,purrr,R6,Rcpp,rematch2,remotes,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,sessioninfo,shiny,shinyFiles,stevedore,stringi,stringr,sysreqs,testthat,tibble,usethis,versions,whisker,withr,xfun,xml2,xtable,yaml' from sysreqs online DB
-#> INFO [2019-08-20 10:20:00] Adding CRAN packages: assertthat, automagic, backports, BiocManager, callr, cli, codetools, commonmark, crayon, curl, debugme, desc, devtools, digest, evaluate, fansi, formatR, fs, futile.logger, futile.options, glue, highlight, htmltools, httpuv, httr, jsonlite, knitr, lambda.r, later, magrittr, MASS, memoise, mime, miniUI, pillar, pkgbuild, pkgconfig, pkgdown, pkgload, prettyunits, processx, promises, ps, purrr, R6, Rcpp, rematch2, remotes, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, sessioninfo, shiny, shinyFiles, stevedore, stringi, stringr, testthat, tibble, usethis, versions, whisker, withr, xfun, xml2, xtable, yaml
-#> INFO [2019-08-20 10:20:00] Adding GitHub packages: r-hub/sysreqs@3860f2b512a9c3bd3db6791c2ff467a1158f4048
-#> INFO [2019-08-20 10:20:00] Created Dockerfile-Object based on sessionInfo
print(readLines(temp))
#>  [1] "FROM rocker/r-ver:3.6.1"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
+write(dockerfile(), file=temp)
#> INFO [2019-08-20 16:44:09] Going online? TRUE  ... to retrieve system dependencies (sysreq-api)
+#> INFO [2019-08-20 16:44:09] Trying to determine system requirements for the package(s) 'assertthat,automagic,backports,BiocManager,callr,cli,codetools,commonmark,crayon,curl,debugme,desc,devtools,digest,evaluate,fansi,formatR,fs,futile.logger,futile.options,glue,highlight,htmltools,httpuv,httr,jsonlite,knitr,lambda.r,later,magrittr,MASS,memoise,mime,miniUI,pillar,pkgbuild,pkgconfig,pkgdown,pkgload,prettyunits,processx,promises,ps,purrr,R6,Rcpp,rematch2,remotes,rjson,rlang,rmarkdown,roxygen2,rprojroot,rstudioapi,semver,sessioninfo,shiny,shinyFiles,stevedore,stringi,stringr,sysreqs,testthat,tibble,usethis,versions,whisker,withr,xfun,xml2,xtable,yaml' from sysreqs online DB
+#> INFO [2019-08-20 16:44:13] Adding CRAN packages: assertthat, automagic, backports, BiocManager, callr, cli, codetools, commonmark, crayon, curl, debugme, desc, devtools, digest, evaluate, fansi, formatR, fs, futile.logger, futile.options, glue, highlight, htmltools, httpuv, httr, jsonlite, knitr, lambda.r, later, magrittr, MASS, memoise, mime, miniUI, pillar, pkgbuild, pkgconfig, pkgdown, pkgload, prettyunits, processx, promises, ps, purrr, R6, Rcpp, rematch2, remotes, rjson, rlang, rmarkdown, roxygen2, rprojroot, rstudioapi, semver, sessioninfo, shiny, shinyFiles, stevedore, stringi, stringr, testthat, tibble, usethis, versions, whisker, withr, xfun, xml2, xtable, yaml
+#> INFO [2019-08-20 16:44:13] Adding GitHub packages: r-hub/sysreqs@3860f2b512a9c3bd3db6791c2ff467a1158f4048
+#> INFO [2019-08-20 16:44:13] Created Dockerfile-Object based on sessionInfo
print(readLines(temp))
#>  [1] "FROM rocker/r-ver:3.6.1"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                
 #>  [2] "LABEL maintainer=\"daniel\""                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            
 #>  [3] "RUN export DEBIAN_FRONTEND=noninteractive; apt-get -y update \\"                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
 #>  [4] "  && apt-get install -y git-core \\"