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explicit load of packages
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app.R

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@@ -14,7 +14,42 @@ token <- '' ## specify for local docker + WPS
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#packages
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source("assets/commons/package_utils.R")
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loadAppPackages()
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library(yaml)
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library(jsonlite)
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library(XML)
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library(xml2)
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library(rmarkdown)
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library(shiny)
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library(shinydashboard)
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library(shinyjs)
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library(shinythemes)
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library(shinyWidgets)
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library(RCurl)
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library(ks)
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library(ggplot2)
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library(shinyBS)
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library(lubridate)
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library(waiter)
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library(pracma)
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library(googleVis)
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library(stringr)
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library(R.utils)
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library(V8)
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library(DT)
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library(futile.logger)
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library(nloptr)
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library(R6)
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library(openxlsx)
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library(sodium)
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library(keyring)
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library(kableExtra)
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library(ows4R)
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library(d4storagehub4R)
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library(shinysky)
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library(rfishbase)
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library(fishmethods)
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library(TropFishR)
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library(LBSPR)
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#version/date to show on app
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SMT_VERSION = getAppVersion()

package.json

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{"package": "rmarkdown", "version": "2.5", "repos": "https://cran.r-project.org"},
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{"package": "shiny", "version": "1.7.4", "repos": "https://cran.r-project.org"},
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{"package": "shinydashboard", "version": "0.7.2", "repos": "https://cran.r-project.org"},
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{"package": "shinydashboardPlus", "version": "2.0.3", "repos": "https://cran.r-project.org"},
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{"package": "shinyjs", "version": "2.0.0", "repos": "https://cran.r-project.org"},
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{"package": "shinythemes", "version": "1.2.0", "repos": "https://cran.r-project.org"},
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{"package": "shinyWidgets", "version": "0.7.6", "repos": "https://cran.r-project.org"},

renv.lock

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],
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}
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}

renv/settings.json

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"ppm.enabled": null,
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"ppm.ignored.urls": [],
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"r.version": null,
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"snapshot.type": "all",
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"snapshot.type": "implicit",
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"use.cache": true,
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"vcs.ignore.cellar": true,
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"vcs.ignore.library": true,

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