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util-conf.R
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util-conf.R
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## This file is part of coronet, which is free software: you
## can redistribute it and/or modify it under the terms of the GNU General
## Public License as published by the Free Software Foundation, version 2.
##
## This program is distributed in the hope that it will be useful,
## but WITHOUT ANY WARRANTY; without even the implied warranty of
## MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
## GNU General Public License for more details.
##
## You should have received a copy of the GNU General Public License along
## with this program; if not, write to the Free Software Foundation, Inc.,
## 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
##
## Copyright 2016-2019 by Claus Hunsen <hunsen@fim.uni-passau.de>
## Copyright 2016 by Wolfgang Mauerer <wolfgang.mauerer@oth-regensburg.de>
## Copyright 2017 by Raphael Nömmer <noemmer@fim.uni-passau.de>
## Copyright 2017-2018 by Christian Hechtl <hechtl@fim.uni-passau.de>
## Copyright 2020-2021 by Christian Hechtl <hechtl@cs.uni-saarland.de>
## Copyright 2017 by Felix Prasse <prassefe@fim.uni-passau.de>
## Copyright 2017-2019 by Thomas Bock <bockthom@fim.uni-passau.de>
## Copyright 2021, 2023-2024 by Thomas Bock <bockthom@cs.uni-saarland.de>
## Copyright 2018 by Barbara Eckl <ecklbarb@fim.uni-passau.de>
## Copyright 2018-2019 by Jakob Kronawitter <kronawij@fim.uni-passau.de>
## Copyright 2019 by Anselm Fehnker <fehnker@fim.uni-passau.de>
## Copyright 2020-2021 by Niklas Schneider <s8nlschn@stud.uni-saarland.de>
## Copyright 2021 by Johannes Hostert <s8johost@stud.uni-saarland.de>
## Copyright 2021 by Mirabdulla Yusifli <s8miyusi@stud.uni-saarland.de>
## Copyright 2022 by Jonathan Baumann <joba00002@stud.uni-saarland.de>
## All Rights Reserved.
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## Libraries ---------------------------------------------------------------
requireNamespace("R6") # for R6 classes
requireNamespace("yaml") # for Codeface configuration files
requireNamespace("logging")
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## Constants ---------------------------------------------------------------
## mapping of tagging to artifact
ARTIFACT.TO.TAGGING = list(
"feature" = "feature",
"featureexpression" = "feature",
"function" = "proximity",
"file" = "proximity"
)
ARTIFACT.TO.ABBREVIATION = list(
"feature" = "f",
"featureexpression" = "fe",
"function" = "func",
"file" = "cu"
)
ARTIFACT.CODEFACE = list(
"feature" = "Feature",
"featureexpression" = "FeatureExpression",
"function" = "Function",
"file" = "File"
)
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## Conf --------------------------------------------------------------------
#' The class \code{Conf} provides convenient handling of a predefined set of
#' configuration options or, rather, attributes.
#'
#' **Note:** This class is considered abstract and should not instantiated directly,
#' as the list of handled attributes is empty.
Conf = R6::R6Class("Conf",
## * private -----------------------------------------------------------
private = list(
## * * attributes --------------------------------------------------
attributes = list(),
## * * value checking ----------------------------------------------
#' Check all attributes for their consistency.
#'
#' @return a logical indicating if the checks have been successful
check.values = function() {
current.values = lapply(names(private$attributes), function(att) {
return(self$get.value(att))
})
names(current.values) = names(private$attributes)
self$update.values(current.values)
},
#' Check whether the given 'value' is the correct datatype
#' for the attribute 'name'.
#'
#' @param value the new value for the attribute
#' @param name the name of the attribute
#'
#' @return a named vector of logical values, named:
#' - existing,
#' - value.not.empty,
#' - type,
#' - allowed,
#' - allowed.number, and
#' - updatable.
#' Does not need to contain all of the above; e.g. if \code{existing} is \code{FALSE} the result
#' consists of only this value.
check.value = function(value, name) {
if (!exists(name, where = private[["attributes"]])) {
result = c(existing = FALSE)
} else if (length(value) < 1){
result = c(existing = TRUE, value.not.empty = FALSE)
} else {
## check all other properties
attribute = private[["attributes"]][[name]]
## if non-updatable field, return early
if (!is.null(attribute[["updatable"]]) && !attribute[["updatable"]]) {
result = c(existing = TRUE, value.not.empty = TRUE, updatable = FALSE)
} else {
result = c(
existing = TRUE,
value.not.empty = TRUE,
updatable = TRUE,
type = class(value) %in% attribute[["type"]],
## if 'allowed' is not defined for this attribute, any
## value of the correct type should be accepted.
allowed = is.null(attribute[["allowed"]]) ||
if (attribute[["type"]] == "numeric" && length(attribute[["allowed"]]) == 1) {
value <= attribute[["allowed"]]
} else {
all(value %in% attribute[["allowed"]])
},
allowed.number = length(value) <= attribute[["allowed.number"]]
)
}
}
return(result)
}
),
## * public ------------------------------------------------------------
public = list(
#' The constructor, automatically checking the default values.
initialize = function() {
# ## check the default values for validity
# private$check.values()
},
## * * printing ----------------------------------------------------
#' Get configuration list as string.
#'
#' @param allowed Indicator whether to return also information on allowed values
#'
#' @return the configuration list as string [default: FALSE]
get.conf.as.string = function(allowed = FALSE) {
## get the complete list of attributes
attributes = private$attributes
## remove information on allowed values if not wanted
if (!allowed) {
attributes = lapply(attributes, function(att) {
att[["allowed"]] = NULL
att[["allowed.number"]] = NULL
att[["type"]] = NULL
return(att)
})
}
return(get.configuration.string(attributes, title = NULL))
},
#' Print the private variables of the class.
#'
#' @param allowed Indicator whether to print information on allowed values [default: FALSE]
print = function(allowed = FALSE) {
logging::loginfo("Configuration:\n%s", self$get.conf.as.string(allowed))
},
## * * updating ----------------------------------------------------
#' Update the attributes of the class with the new value for the given entry.
#'
#' @param entry the entry name for the value
#' @param value the new value
update.value = function(entry, value) {
## construct list for updating
updating = list(value)
names(updating) = entry
## update value
self$update.values(updating)
},
#' Update the attributes of the class with the new values given in the
#' 'updated.values' list.
#'
#' @param updated.values the new values for the attributes to be updated [default: list()]
update.values = function(updated.values = list()) {
## determine the function executed on an error
error.function = stop
## check values to update
names.to.update = c()
for (name in names(updated.values)) {
## get value to update
value = updated.values[[name]]
## check the value
check = private$check.value(value = value, name = name)
## if all checks are passed
if (all(check)) {
names.to.update = c(names.to.update, name)
}
## if some check failed
else {
## get current environment for logging
attribute = private[["attributes"]][[name]]
if (!check[["existing"]]) {
message = paste(
"Updating configuration attribute '%s' failed:",
"A configuraton attribute with this name does not exist."
)
error.function(sprintf(message, name))
} else if (!check[["value.not.empty"]]) {
message = paste(
"Updating configuration attribute '%s' failed:",
"The provided value is empty!"
)
error.function(sprintf(message, name))
} else if (!check[["updatable"]]) {
message = paste(
"Updating configuration attribute '%s' failed:",
"The value is not updatable!"
)
error.function(message, name)
} else {
message = paste0(
"Updating configuration attribute '%s' failed.\n",
"Allowed values (%s of type '%s'): %s\n",
"Given value (of type '%s'): %s"
)
error.function(sprintf(
message,
name,
# paste(self$get.value(name), collapse = ", "),
attribute[["allowed.number"]],
attribute[["type"]],
if (attribute[["type"]] == "numeric" && length(attribute[["allowed"]]) == 1) {
paste("<=", attribute[["allowed"]])
} else {
paste(attribute[["allowed"]], collapse = ", ")
},
class(value),
paste(value, collapse = ", ")
))
}
}
}
## Updating values if needed
if (length(names.to.update) > 0) {
logging::loginfo(
"Updating following configuration parameters: %s",
paste(names.to.update, collapse = ", ")
)
for (name in names.to.update) {
default.value = private[["attributes"]][[name]][["default"]]
new.value = updated.values[[name]]
## check if the default value or the given new value are NA
## if only one of both is NA that means that the value has to be changed
if (is.single.na(default.value) && !is.single.na(new.value) ||
!is.single.na(default.value) && is.single.na(new.value)) {
private[["attributes"]][[name]][["value"]] = new.value
} ## if the default value and the given value are the same and if the 'value' field is present
## then reset the 'value' field
else if (is.single.na(default.value) && is.single.na(new.value) ||
identical(sort(new.value), sort(default.value))) {
if ("value" %in% names(private[["attributes"]][[name]])) {
private[["attributes"]][[name]][["value"]] = NULL
}
} ## otherwise proceed with updating the value
else {
private[["attributes"]][[name]][["value"]] = sort(new.value)
}
}
} else {
logging::logwarn(
"Not updating any configuration parameters!"
)
}
## return invisible
invisible()
},
## * * value retrieval ---------------------------------------------
#' Get the value whose name is given by 'name'.
#'
#' @param name the name of the value to be returned
#'
#' @return the value
get.value = function(name) {
value = private[["attributes"]][[name]][["value"]]
## if there is no value set, retrieve the default
if (is.null(value)) {
value = self$get.value.default(name)
}
return(value)
},
#' Get the value whose name is given by 'name'.
#'
#' @param name the name of the value to be returned
#'
#' @return the value
get.entry = function(name) {
return(self$get.value(name))
},
#' Get the value whose name is given by 'name'.
#'
#' @param name the name of the value to be returned
#'
#' @return the value
get.variable = function(name) {
return(self$get.value(name))
},
#' Get the default value for the entry whose name is given by 'var.name'.
#'
#' @param name the name of the entry to be returned
#'
#' @return the default entry value
get.value.default = function(name) {
value = private[["attributes"]][[name]][["default"]]
return(value)
}
)
)
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## ProjectConf -------------------------------------------------------------
#' The class \code{ProjectConf} is a subclass of \code{Conf} and provides
#' convenient handling of project-related configuration attributes with the
#' class \code{ProjectData}.
#'
#' @seealso Conf
#' @seealso ProjectData
#' @seealso RangeData
ProjectConf = R6::R6Class("ProjectConf", inherit = Conf,
## * private -----------------------------------------------------------
private = list(
## * * project info ------------------------------------------------
data = NULL, # character
selection.process = NULL, # character
casestudy = NULL, # character
artifact = NULL, # character
## * * attributes ---------------------------------------------------
attributes = list(
commits.filter.base.artifact = list(
default = TRUE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
commits.filter.untracked.files = list(
default = TRUE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
commits.locked = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
commit.messages = list(
default = "none",
type = "character",
allowed = c("none", "title", "message"),
allowed.number = 1
),
issues.only.comments = list(
default = TRUE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
filter.bots = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
issues.from.source = list(
default = c("jira", "github"),
type = "character",
allowed = c("jira", "github"),
allowed.number = Inf
),
issues.locked = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
mails.filter.patchstack.mails = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
mails.locked = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
gender = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
synchronicity = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
synchronicity.time.window = list(
default = 5,
type = "numeric",
allowed = c(1, 5, 10, 15),
allowed.number = 1
),
pasta = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
custom.event.timestamps.file = list(
default = NA,
type = "character",
allowed.number = 1
),
custom.event.timestamps.locked = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
)
),
## * * revisions and ranges ----------------------------------------
#' Change the revision names to a equal name standard.
#'
#' @param ranges the list of ranges to be postprocessed
#'
#' @return the postprocessed ranges
postprocess.revision.list = function(ranges) {
# remove names, e.g. "version", from release cycle names
casestudy = private$casestudy
to.remove = c(
"version-", "v-", "version_", "v_", "version", "v",
paste0(casestudy, "-"), paste0(casestudy, "-"),
paste0(casestudy, "_"), paste0(casestudy, "_"),
casestudy, casestudy
)
# run gsub for all pattern
ranges = tolower(ranges)
for (string in to.remove) {
ranges = gsub(string, "", ranges)
}
# return simplified list of ranges
return(ranges)
},
#' Change the revision names of callgraph data to a equal name standard.
#'
#' @param r list of revisions to be postprocessed
#'
#' @return list of postprocessed revisions
postprocess.revision.list.for.callgraph.data = function(r) {
r = gsub("version-", "", r) # remove version prefix (SQLite)
r = gsub("OpenSSL_", "", r) # remove name prefix (OpenSSL)
r = gsub("\\.", "_", r) # replace dots by underscores
return(r)
},
## * * path construction -------------------------------------------
subfolder.configurations = "configurations",
subfolder.results = "results",
#' Construct and return the path to the configuration folder of Codeface.
#'
#' @param data the path to the codeface-data folder
#' @param selection.process the selection process of the current study ('threemonth', 'releases')
#'
#' @return the path to the configuration folder
get.configurations.folder = function(data, selection.process) {
return(file.path(data, private$subfolder.configurations, selection.process))
},
#' Construct and return the path to a Codeface configuration.
#'
#' @param data the path to the codeface-data folder
#' @param selection.process the selection process of the current study ('threemonth', 'releases')
#' @param casestudy the current casestudy
#' @param tagging the current tagging ('feature', 'proximity')
#'
#' @return the path to the configuration
construct.conf.path = function(data, selection.process, casestudy, tagging) {
## construct the base name of the configuration
conf.basename = paste(casestudy, "_", tagging, ".conf", sep = "")
## construct complete path
conf.file = file.path(private$get.configurations.folder(data, selection.process), conf.basename)
## return path to config file
return(conf.file)
},
#' Construct and return the path to the results folder of Codeface.
#'
#' @param data the path to the codeface-data folder
#' @param selection.process the selection process of the current study ('threemonth', 'releases')
#' @param casestudy the current casestudy
#' @param suffix the suffix of the casestudy's results folder
#' @param subfolder an optional subfolder [default: NULL]
#'
#' @return the path to the results folder
#' (i.e., "{data}/{selection.process}/{casestudy}_{suffix}[/{subfolder}]")
get.results.folder = function(data, selection.process, casestudy, suffix, subfolder = NULL) {
path = file.path(data, private$subfolder.results, selection.process, paste(casestudy, suffix, sep = "_"))
if (!is.null(subfolder)) {
path = file.path(path, subfolder)
}
return(path)
}
),
## * public ------------------------------------------------------------
public = list(
#' Constructor of the class.
#'
#' @param data the path to the codeface-data folder
#' @param selection.process the selection process of the current study ('threemonth', 'releases')
#' @param casestudy the current casestudy
#' @param artifact the artifact to study (one of \code{feature}, \code{function}, \code{file},
#' and \code{featureexpression}) [default: "feature"]
initialize = function(data, selection.process, casestudy, artifact = c("feature", "file",
"function", "featureexpression")) {
logging::loginfo("Construct project configuration: starting.")
## call super constructor
super$initialize()
## verify arguments using match.arg
artifact = match.arg(artifact)
## verify arguments
private$data = verify.argument.for.parameter(data, "character", "ProjectConf$new")
private$selection.process = verify.argument.for.parameter(selection.process, "character", "ProjectConf$new")
private$casestudy = verify.argument.for.parameter(casestudy, "character", "ProjectConf$new")
private$artifact = verify.argument.for.parameter(artifact, "character", "ProjectConf$new")
## convert artifact to tagging
tagging = ARTIFACT.TO.TAGGING[[ artifact ]]
if (is.null(tagging)) {
logging::logerror("Artifact '%s' cannot be converted to a proper Codeface tagging! Stopping...", artifact)
stop("Stopped due to wrong configuration parameters!")
}
## construct file name for configuration
conf.file = private$construct.conf.path(data, selection.process, casestudy, tagging)
## load case-study configuration from given file
logging::loginfo("Attempting to load configuration file: %s", conf.file)
conf = yaml::yaml.load_file(conf.file)
## store basic information
conf$selection.process = selection.process
conf$casestudy = casestudy
## store artifact in configuration
conf$artifact = artifact
conf$artifact.short = ARTIFACT.TO.ABBREVIATION[[ conf$artifact ]]
conf$artifact.codeface = ARTIFACT.CODEFACE[[ conf$artifact ]]
## store path to actual Codeface data
conf$datapath = private$get.results.folder(data, selection.process, casestudy, tagging, subfolder = tagging)
## store path to call graphs
conf$datapath.callgraph = private$get.results.folder(data, selection.process, casestudy, "callgraphs")
## store path to synchronicity data
conf$datapath.synchronicity = private$get.results.folder(data, selection.process, casestudy, "synchronicity")
## store path to PaStA data
conf$datapath.pasta = private$get.results.folder(data, selection.process, casestudy, "pasta")
## store path to gender data
conf$datapath.gender = private$get.results.folder(data, selection.process, casestudy, "gender")
## store path to issue data
conf$datapath.issues = private$get.results.folder(data, selection.process, casestudy, tagging, subfolder = tagging)
## READ REVISIONS META-DATA
## read revisions file
revisions.file = file.path(conf$datapath, "revisions.list")
revisions.df = try(read.table(revisions.file, header = FALSE, sep = ";", strip.white = TRUE,
encoding = "UTF-8"), silent = TRUE)
## break if the list of revisions is empty or any other error occurs
if (inherits(revisions.df, "try-error")) {
logging::logerror("There are no revisions available for the current casestudy.")
logging::logerror("Attempted to load following file: %s", revisions.file)
stop("Stopped due to missing revisions.")
}
## convert columns accordingly
revisions.cols = c(revision = "as.character", date = "get.date.from.string")
for (i in 1:ncol(revisions.df)) {
revisions.df[i] = do.call(base::c, lapply(revisions.df[[i]], revisions.cols[i]))
colnames(revisions.df)[i] = names(revisions.cols)[i]
}
revisions = revisions.df[["revision"]]
revisions.dates = revisions.df[["date"]]
if (!is.null(revisions.dates)) names(revisions.dates) = revisions
conf[["revisions"]] = NULL
## change structure of values (i.e., insert 'default' sublists)
conf = lapply(conf, function(entry) {
return(list(value = entry, updatable = FALSE))
})
## SAVE FULL CONFIGURATION OBJECT
private$attributes = c(conf, private$attributes)
## construct and save revisions and ranges
## (this has to be done after storing conf due to the needed access to the conf object)
self$set.revisions(revisions, revisions.dates)
# ## logging
# self$print(allowed = TRUE)
logging::loginfo("Construct project configuration: finished.")
},
## * * helper methods ----------------------------------------------
#' Get the corresponding callgraph revision for the given range.
#'
#' @param range the range for the callgraph revisions
#'
#' @return the callgraph revisions
get.callgraph.revision.from.range = function(range) {
idx = which(self$get.value("ranges") == range)
rev = self$get.value("revisions.callgraph")[idx + 1]
return(rev)
},
## * * updating revisions and splitting information ----------------
#' Set the revisions and ranges for the study.
#'
#' @param revisions the revisions of the study
#' @param revisions.dates the revision dates of the study
#' @param sliding.window whether sliding window splitting is enabled or not [default: FALSE]
set.revisions = function(revisions, revisions.dates, sliding.window = FALSE) {
## construct revisions for call-graph data
revisions.callgraph = private$postprocess.revision.list.for.callgraph.data(revisions)
## construct ranges
ranges = construct.ranges(revisions, sliding.window = sliding.window)
## assemble revision data
rev.data = list(
revisions = revisions,
revisions.dates = revisions.dates,
revisions.callgraph = revisions.callgraph,
ranges = ranges,
ranges.paths = generate.range.directory.names(ranges),
ranges.callgraph = construct.ranges(revisions.callgraph, sliding.window = sliding.window)
)
## change structure of values (i.e., insert 'default' sublists and set 'updatable' value)
rev.data = lapply(rev.data, function(entry) {
return(list(value = entry, updatable = FALSE))
})
## insert new values (update if needed)
for (name in names(rev.data)) {
private[["attributes"]][[name]] = rev.data[[name]]
}
},
#' Update the information on revisions and ranges regarding splitting.
#'
#' @param type either "time-based" or "activity-based", depending on splitting function
#' @param length the string given to time-based splitting (e.g., "3 months") or the activity
#' amount given to acitivity-based splitting
#' @param basis the data used as basis for splitting (either "commits", "mails", or "issues")
#' @param sliding.window whether sliding window splitting is enabled or not
#' @param revisions the revisions of the study
#' @param revisions.dates the revision dates of the study
set.splitting.info = function(type, length, basis, sliding.window, revisions, revisions.dates) {
## assemble splitting information
split.info = list(
## basic slpitting information
split.type = type,
split.length = length,
split.basis = basis,
split.sliding.window = sliding.window,
## splitting information on ranges
split.revisions = revisions,
split.revisions.dates = revisions.dates,
split.ranges = construct.ranges(revisions, sliding.window = sliding.window)
)
## change structure of values (i.e., insert 'default' sublists and set 'updatable' value)
split.info = lapply(split.info, function(entry) {
return(list(value = entry, updatable = FALSE))
})
## insert new values (update if needed)
for (name in names(split.info)) {
private[["attributes"]][[name]] = split.info[[name]]
}
}
)
)
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## NetworkConf -------------------------------------------------------------
#' The class \code{NetworkConf} is a subclass of \code{Conf} and provides
#' convenient handling of configuration attributes related to network
#' construction with the class \code{NetworkBuilder}.
#'
#' @seealso Conf
#' @seealso NetworkBuilder
NetworkConf = R6::R6Class("NetworkConf", inherit = Conf,
## * private -----------------------------------------------------------
private = list(
## * * attributes -----------------------------------------------------
attributes = list(
author.relation = list(
default = "mail",
type = "character",
allowed = c("mail", "cochange", "issue"),
allowed.number = Inf
),
author.directed = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
author.respect.temporal.order = list(
default = NA, # default value will be determined from the 'author.directed' parameter
type = "logical",
allowed = c(TRUE, FALSE, NA),
allowed.number = 1
),
author.all.authors = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
author.only.committers = list(
## FIXME rename to something like "author.only.authors.also.in.the.data.when.artifact.relation.is.used
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
artifact.relation = list(
default = "cochange",
type = "character",
allowed = c("cochange", "callgraph", "mail", "issue"),
allowed.number = Inf
),
artifact.directed = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
edges.for.base.artifacts = list(
default = TRUE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
edge.attributes = list(
default = c(
"date", "artifact.type", # general
"message.id", "thread", # mail data
"hash", "file", "artifact", # commit data
"issue.id", "event.name" # issue data
),
type = "character",
allowed = c(
# the date
"date", "date.offset",
# the artifact type indicating the edge
"artifact.type",
# author information
"author.name", "author.email",
# committer information
"committer.date", "committer.name", "committer.email",
# e-mail information
"message.id", "thread", "subject",
## commit information
"hash", "file", "artifact", "changed.files", "added.lines",
"deleted.lines", "diff.size", "artifact.diff.size", "synchronicity",
# PaStA information
"pasta",
# issue information
"issue.id", "issue.state", "creation.date", "closing.date", "is.pull.request",
"author.name", "author.mail", "event.date", "event.name"
),
allowed.number = Inf
),
simplify = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
simplify.multiple.relations = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
),
skip.threshold = list(
default = Inf,
type = "numeric",
allowed = Inf,
allowed.number = 1
),
unify.date.ranges = list(
default = FALSE,
type = "logical",
allowed = c(TRUE, FALSE),
allowed.number = 1
)
)
),
## * public ------------------------------------------------------------
public = list(
#' The constructor, automatically checking the default values.
initialize = function() {
logging::loginfo("Construct network configuration: starting.")
## call super constructor
super$initialize()
logging::loginfo("Construct network configuration: finished.")
},
#' Update the attributes of the class with the new values given in the
#' 'updated.values' list.
#'
#' @param updated.values the new values for the attributes to be updated [default: list()]
update.values = function(updated.values = list()) {
super$update.values(updated.values = updated.values)
## 1) "date" and "artifact.type" always as edge attribute
name = "edge.attributes"
private[["attributes"]][[name]][["value"]] = unique(c(
"date",
"artifact.type",
self$get.value(name)
))
## return invisible
invisible()
},
#' Clears the edge attributes by setting the attribute to just the mandatory
#' 'date' value. This can be used to get rid of all the default values at once.
clear.edge.attributes = function() {
logging::loginfo("Clearing edge.attributes.")
self$update.values(list(edge.attributes = c("date")))
}
)
)
## / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / / /
## Helper functions --------------------------------------------------------
#' Constructs a string representing a configuration (i.e., a potentially nested list).
#'
#' @param conf the configuration list to represent as string
#' @param title the title line right before the constructed string [default: deparse(substitute(conf))]
#'
#' @return a string representing the status of \code{conf}, including newline characters and
#' pretty-printed list style
get.configuration.string = function(conf, title = deparse(substitute(conf))) {
fill = "↳ "
front = "- "
indentation.item = " "
construct.configuration.string = function(struct, title, depth = 0) {
## construct the indentation
indentation = if (depth > 0) rep(indentation.item, depth - 1) else ""
output = c()
len = length(struct)
## add current title
if (!is.null(title)) {
if (depth > 0) output = c(output, indentation)
output = c(output, paste0(front, title))
if (mode(struct) == "list") {
updatable = struct[["updatable"]]
if (!is.null(updatable)) {
struct[["updatable"]] = NULL
if (!updatable) {
output = c(output, " [final]")
len = len - 1
}
}
output = c(output, "\n")
}
}
if (is.atomic(struct) && len > 0) {
if (len == 1) {
field = paste0(" = ", paste(struct, collapse = ", "), "\n")
} else if (len > 7) {
entries = paste0(indentation, indentation.item, indentation.item, struct)
field = paste0(
" = [\n",
paste(entries, collapse = ", \n"),
"\n",
if (depth > 0) indentation,
if (depth > 0) indentation.item,
"]\n"
)
} else {
field = paste0(" = [", paste(struct, collapse = ", "), "]\n")
}
output = c(output, field)
}
if (mode(struct) == "list" && len > 0) {
structnames = names(struct)
if (is.null(structnames)) structnames = rep("", len)
noname = structnames == ""
structnames[noname] = sprintf("[[%s]]", seq_len(len)[noname])
for (i in seq_len(len)) {
item = struct[[i]]