NEWS.md

coronet – Changelog

3.5

Announcement

• Rename project to coronet (#10, 929f8cec7b52adef1389ce1691b783c235eb815d, ac1ce80b9f5da812f90b5fed63f26dc8c812a4d6)
  • Be sure to update Git remotes and submodules to the new URL!

Added

• Add the constants UNTRACKED.FILE, UNTRACKED.FILE.EMPTY.ARTIFACT, and UNTRACKED.FILE.EMPTY.ARTIFACT.TYPE: Commits that do not change any artifact are considered to be carried out on a meta-file called <untracked.file>. The constant UNTRACKED.FILE is added to hold the string constant. Analogously, the constants UNTRACKED.FILE.EMPTY.ARTIFACT (currently, "") and UNTRACKED.FILE.EMPTY.ARTIFACT.TYPE (currently, "") hold the constants for any artifacts and their corresponding types, respectively, "changed" in untracked files. (11428d9847fd44f982cd094a3248bd13fb6b7b58, 5ea65b9ac5a22967de87d7fd4ac66b0bc8e07238, dde0dd7c6b36b49aa2b6c91395be8ea6e0cd7969, 2284bbec55e091a4135dc029906ba12446b9f0ad)
• Add the public method ProjectData$get.commits.filtered.uncached: The method allows for external filtering of the commits by specifying if untracked files and/or the base artifact should be filtered (this method does not take advantage of caching, whereas the method ProjectData$get.commits.filtered does) (11428d9847fd44f982cd094a3248bd13fb6b7b58)
• Add the parameters commits.filter.base.artifact and commits.filter.untracked.files to the ProjectConf: In addition to the ProjectConf parameter commits.filter.base.artifact (previously called artifact.filter.base), which configured whether the base artifact should be included in the get.commits.filtered method, there is now a similar parameter called commits.filter.untracked.files doing the same thing for untracked files (11428d9847fd44f982cd094a3248bd13fb6b7b58, 466d8eb8e7f39e43985d825636af85ddfe54b13a)
• Add parameter edges.for.base.artifacts to NetworkConf : In author networks, edges do not get constructed anymore between authors for solely modifying untracked files. For authors involved in changing the base artifact, it can be configured whether edges should be created or not using the new NetworkConf parameter edges.for.base.artifacts (c60c2f6e44b6f34cccb2714eccc7674158c83dde, 466d8eb8e7f39e43985d825636af85ddfe54b13a)
• Add method ProjectData$get.authors.by.data.source to retrieve authors by given data-source name (#149, 65804276dd2ada9b2f00b2cab7b6ad0cecbe733e, 137d8337bc35f5a83aa16a48ef8e47fc0d36b36c)
• Add helper function create.empty.data.frame: The function returns empty data.frames (0 rows) with correct columns and, if specified, all the correct data types. In the future, functions, that return data in data.frames, should always return data.frames of the same shape (regarding columns and data types) – especially when they are empty – because this makes later case distinctions easier or unnecessary (67a4fbe4f244b4b6047c2c2be7682d7f9085e9eb, 351364751b3fc286c66b99fe1fa3f52150f67311)
• For the most common types of data.frames (data.frames of commits, mails, issues, and authors) four more utility methods are added, namely create.empty.authors.list, create.empty.commits.list, create.empty.issues.list, create.empty.mails.list, create.empty.synchronicity.list, create.empty.pasta.list as well as corresponding constants holding columns and associated data types for all these empty data.frames (5f0f52936b4433f64fd9b1c9b2571eb26f66395f, 523daef8cf4642a2360396b11f0d74bce565b0f0, f8e021db955d65ff76b1c359706a188c9fef8c62, 351364751b3fc286c66b99fe1fa3f52150f67311, 2f4e6f0657d26dbf84f093ff77b8d43993a69ddc, cd3e34a369435392f9be082df05f9fc504b56239)
• Add mandatory attributes in create.empty.network if wanted (cae9d4bd6913d9b78b0bc819915011191f87fedf, cc8bd86befe5b9fc56c53816b609be434bfa2953)
• Add function create.empty.vertex.list (c00101dd8c78dc03d61bce1b5f88805b9fbb3a5f)
• Add tests for construction of networks without data (a4b3524676a0df88ec544db99c951b4461437099)
• Add tests for construction of networks without vertices (6eb214c1aca0899567529aa514352440f3005d5c)
• Add a note on mailing-list threads to README (c6dca275c3571e396529a0178c8300de8cd8aa26)
• Add cutting functionality to README descriptions (fb40c506d8dd838cc8853d426e83840ed93b10d4)
• Add the parameter restrict.classification.to.authors to the functions get.author.class.by.type, get.author.class.overview, get.author.class.network.degree, get.author.class.network.eigen, get.author.class.network.hierarchy, get.author.class.commit.count and get.author.class.loc.count. The parameter allows to perform classifications on a limited group of authors whose names are specified in this parameter. (2492dd0de5909c41031541ffb365eee40a342b65, #148)
• Add test cases for util-core-peripheral.R by adding the new file test-core-peripheral.R along with test cases (2627d6c9aaa4b066cf3043f9cf167fb470bdec6c)
• Add project-configuration parameter issues.from.source to choose if only issues from JIRA, only issues from GitHub, or all issues shall be read in (PR #159, d677949bedc3567b02cc7a1f3daffa0a785aa7a8, a3e71326d8deb861fcc4434c580e12570f7f8fa0, ea2618134efbfd8159ea49bd6fd21f4d11f3faeb). Therefore two test cases, one that reads in only JIRA issues and one that reads in only GitHub issues, are added to the issue read test (65b1acd7895b5330fab1d53d7bd27ab5dbd25192, 2d897cbb38853b20e1adba88f617908033142aef)
• Add class documentation (#157, 6e33d0aa49d5a432c1fad786944bd1ac855ecbf3, 250f9e04b18775f3c5f40b114236afcde9e760ae)

Changed/Improved

• Always add mandatory vertex and edge attributes (#154, 0526755da68aa79efc3e86e34eb60a8d9b3116d7)
• Heavily improve addition of PaStA data (cd3e34a369435392f9be082df05f9fc504b56239)
• The method read.issues in util-read.R now supports the new issue data format (PR #147, 77c750c034c270f007c75abca0f0630573f195a2, e04ce3080b3cc3e305d8be5aa47ed5b144a9c9c0, 67b818a955c5e75ac3735d2e09af1f564d82f736, 402048735d0c33214be194b7535593786104e32e, 351364751b3fc286c66b99fe1fa3f52150f67311). Therefore, the test issue data and all related tests are updated (39971eea6d51793c88a35c4e604bc5e3a13bb123, 0ec6c6c3243e79fce30f8c9c39dc3c4bee2dee7b, 6a9f4ad89f5b9d6d4b19c837006a429637b22c04, fda000fe6208760f18138e65feca3b6e8ff553b2, 351364751b3fc286c66b99fe1fa3f52150f67311)
• Rename ProjectConf parameter artifact.filter.base to commits.filter.base.artifact (PR #149, 466d8eb8e7f39e43985d825636af85ddfe54b13a)
• The constant BASE.ARTIFACTS is extended by adding untracked files (i.e. the new meta-file UNTRACKED.FILE), which is now considered to be a new base artifact in the case of file-level analyses. This implies, that, in case of file-level analyses, the base artifact and the untracked files fall together, while in feature-level and function-level analyses they are treated differently (d11d0fb585397fdb3a2641484248f74752db9331)
• Filtering by artifact kind (e.g. filtering out either "Feature" or "FeatureExpression") is now being done in the method ProjectData$get.commits instead of the method ProjectData$get.commits.filtered (894c9a5c181fef14dcb71fa23699bebbcbcd2b4f)
• Remove get.commits.filtered.empty and corresponding filter.commits.empty method, the functionality is now included into the methods get.commits.filtered and filter.commits respectively (11428d9847fd44f982cd094a3248bd13fb6b7b58)
• The private method ProjectData$filter.commits now takes parameters which configure whether untracked files and/or the base artifact are to be filtered (11428d9847fd44f982cd094a3248bd13fb6b7b58)
• Remove get.commits.raw, set.commits.raw and read.commits.raw functions (64a94863c9e70ac8c75e443bc15cd7facbf2111d, c26e582e4ad6bf1eaeb08202fc3e00394332a013)
• Add commits on untracked files to test suite (#153, d9f527c5602a3f463e5ccb0d395abe1d6a837ea3)
• In the class Conf (and its sub-classes NetworkConf and ProjectConf), default parameters are not validated anymore to avoid confusion by logging output (ec8c6dd72746a0506b3e03dccc4fcaf7a03325ea)
• In the class Conf (and its sub-classes NetworkConf and ProjectConf), stop is called on errors during parameter updates now (ec8c6dd72746a0506b3e03dccc4fcaf7a03325ea)
• Change shape of Vertices in the legend of plots to avoid confusion (f4fb4807cfd87d9d552a9ede92ea65ae4a386a04)
• Refactor ProjectData$get.cached.data.sources to be more concise (a4e7a213dce6d4709e92e22d2f55971b7bde8037)
• Update contribution guide regarding roxygen2 conventions (#157, fbc2d5487fe08d072f22578c4954601315f8aee7, 783ee58ebeb9865df25a7f95d23a881b4d7de96b, 6e33d0aa49d5a432c1fad786944bd1ac855ecbf3)
• Update README regarding mandatory edge attributes (641624b077d403a34b52718c7aaea25dd1ce626d)
• Rename misleading parameter names for functions get.author.class.by.type, get.author.class.overview, get.author.class.network.degree, get.author.class.network.eigen, get.author.class.network.hierarchy, get.author.class.commit.count and get.author.class.loc.count. Most importantly, the parameter range.data was renamed to proj.data for these functions. (587ef99c1eb93751180bba6037c7f2fe6e24aca5, 81568b12ffdc7637bd0d5a05d0f56a96a88ee6ac, #70)
• Remove the unused functions get.commit.count.threshold and get.loc.count.threshold. (2534d73283b6e7f9703b22f605298eaa2c158d93, #70)
• The function verify.argument.for.parameter was adjusted to be suitable in more general use-cases (557bdcd65940d7a098354b19a5c24cec018e3533)
• Do not redundantly initialize data sources when splitting (35698a1b41c25b9ad7c598977d0afd0add16044f)
• Read PaStA and synchronicity data only if enabled (79bf3ca2b42d0f5c22f7ba3e9ec50c95586a3831)
• Add and enforce coding convention to use 'vertices' and not 'nodes'. Most importantly, the function metrics.node.degrees is renamed to metrics.vertex.degrees. (d35ce616db76adae06b34b4b241a35bfbe77e10d)
• Adjust range directories' names to start with a consecutive range number and to conform with the directories created by Codeface (b3e29472a57e26935a31645b96fbef7d7785c25a, f6b28fbe3bb3599784a42e102fa4fc1e480c2a7a)
• Remove the two functions get.author.class.activity and get.author.class.activity.overview from the file util-core-peripheral.R (61b344a8ce6725ecf0415b108ada9ee08e1121d9)
• Remove function get.commit.data from util-data.R and replace all calls to this function with statements of equivalent functionality despite the fact that they are now retrieving the commit data via get.commits.filtered instead of get.commits which was internally used in the function get.commit.data (#70, 4fc6b450cd70bc6c1c63f268aec805d6328849c6, 7fc454e9d8f3c951fcb9ac820f056f2fd08e6945, c4cf8d25d62d9448c4c2571ed973387835ac87c6)
• Add possibility to decide whether the vertex attribute active.ranges should be computed per activity type or over all activity types (#92, aba8af959b39bbc16747786eab9781fe40e08ed3, 1bb81e86f1f8d62527de83c6489d1c9d5666f19d, 8f35a6b5194b664ef186e57650e6705b38ec610f)
• During the computation of the vertex attribute first.activity, the default value is now used analogous to active-ranges computation: The given value is used as default per author and type. (#92, 18a065c9b0d93c83795bf1be2319e6470b70622a, edf864a5e9a4f54336ecd5c884be12672084e332)

Fixed

• Remove the empty artifact from all types of networks (#153, 4eba7f6d77d48f00959ec26d3182d29bd1282444)
• Fix vertices for networks without edges (#150, PR #149, 0d7c2226da67f3537f3ff9d013607fe19df8a4c0, 7e27a182de282f054f08e3a2fb04d852c2c55102)
• Fix merging of networks without vertices (0666f1fffb718063024351b9ccf3c0885bec4acf)
• Fix extraction functions regarding handling of empty networks (#155, 3e403e49cf547586db1edb15f8711f1a744bed19)
• Fix hierarchy calculations and classifications (#151, 59740189ba4c9502a041e5387337e0537024a1d4)
• Rework 'tests.R' and fix logger initialization for tests (#152, c93c4fda30482eafa1f9e0174b9aaea357c6917b)
• Fix handling of empty vertex list in construct.network.from.edge.list (01f31d685f7e324c7e2fdd16cd376e764afcdec9)
• Fix error when resetting an ProjectData environment (c64cab84e928a2a4c89a6df12440ba7ca06e6263)
• Fix missing time-zone attribute tzone on POSIXct items (5f6cc6922b95bf5cbdd9b2cbf16be4bf4937d0db)
• Fix author classification which was incorrect in certain situations and adjust test cases to this change (9294a37d98f9ff3d14756d56300b0d171f3f3b4c, c7288c3690b68f367a9f451bec7c584897971a31)
• Fix wrong behavior of get.author.class when using result.limit and when classifying zero or passing invalid input (9437b4f07da599fde017596af2290b24601f9f8d, #164, d93b906993089e35f0b539fe3b06b2f36ae3d4c6, 8060caa4930ef05a48b59a328ebf928a64109294, 70e4de5d83541eaad4714d7761b1b35503aaebbf)
• Add vertex attribute also to empty networks (#165, 74845d4b179d2830c1483b42897a8bd0fcee19e9)
• Fix outdated function calls in the bulk module (4e0354078449ef57637297fd3670830e10342ecd)
• Add special case handling for the classification of networks without edges (7e14492640cbf504c45431c03cf0167c455a4b77)

3.4

Added

• Create global constant named BASE.ARTIFACTS (7031d450cfbfdd17e07e3c18290d8b1ff6612181)
• Split data into time-based equally-sized windows in function split.data.time.based (#49, 40974bada77b9184b025e47ebd7f0c4fb98e1475, a17475368e0beb3a4a9a71c9e6ec02a763e2bc32)
• Split networks into time-based equally-sized windows in functions split.network(s).time.based (#49, 94cc87bd1789b211aff13b7c26235ccee77c2b7b, a17475368e0beb3a4a9a71c9e6ec02a763e2bc32, 5ac149262fa15a661748ebbee0d31c775bc41dd0)
• Add function to delete authors without specific edges from networks delete.authors.without.specific.edges (#76, b9319e3ed4c3b0ea6860b4fabea2993b97e186e0, 107854c27f555ac9ba8439e041e1485d58d97c1c, 4e211f0ea559b3affea09becb8e846bab9836682, 4850666a46a086649faebee4aa3829005fad95af)
• Add methods ProjectData$group.authors.by.data.column and ProjectData$group.artifacts.by.data.column (#97, 11f71899a514910c1f44ed1d9648127e93057ea2)
• Add method ProjectData$group.data.by.column (b78f54fd36b5152bc64db5eaa0d2627e142dcf7f, 11f71899a514910c1f44ed1d9648127e93057ea2, related to #97)

Changed/Improved

• Add possibility to add multiple first activities for different activity types in one vertex attribute (#92, 04f18b3097d17fe6b3486c656a807133e0ac0a42)
• Add possibility to decide whether the vertex attribute first activity should be computed per activity type or over all activity types (#92, 86962a313ceeb09c0e0675dc509d91e10647d6b6)
• Refactor computation of vertex attribute first.activity for better performance (40b7d879e323275d308c408cca4913b805ddacf8, f5188904e51ddc08558842f6e357f8fa8edbb105)
• Move RELATION.TO.DATASOURCE to module 'networks' (1ac09f64d202ba4279d05a9765bbbefdc57d4e1b)
• Determine list of artifacts more reasonably in ProjectData (#97, 23a8aa3e8b20cd0d735cb4987e4a397b922e01ad, 11f71899a514910c1f44ed1d9648127e93057ea2)
• Adapt ProjectData$get.artifacts to work with all data sources (#97, 0d184b82dac1a6d7edb3a3339e8352343cbe020f)
• Improve function save.and.load to work without assignment (7f6ab1a5220b555a8123ff04b01547f7704fb31b)
• Handle incorrect keys and values in get.key.to.value.from.df (5b74038bb5abc7748b2f2b7f1da1b5c2169717bd, related to #97)

Fixed

• Fix computation of vertex attribute first.activity to handle empty data sources (4a9ad23bc203fe756e11665ae5c11ee97e97ca8b, 425c46bc41ae3446bd00ae3c8f7eb39434b77a0b)
• Fortify check on callgraph revision in NetworkBuilder (dcf56ad9f4a3390d58dfb369a6e5f4fa76d18523)
• Move pull-request template to take effect (6df72e94c1ea9749e798ed8354a6100a59cb9fc9)
• Fix function split.networks.time.based regarding case that provided list of networks only contains one element (010a9358c91ad4a2fd29aa27301b7723c2f6b6e2)
• Fix problem with fractional time periods in generate.date.sequence (8d80fa9939e6c5d95a7881a774c92764250f9341)
• Handle ARPACK errors in eigen-centrality calculation (c5413c24f643c9981d35991db3f4a5b5f6b9b194, f213648bd4f1fa1056fef4d6e250f9e5b2aeb3c1)
• Allow merge of empty networks (edges and/or vertices) (#142, 26e3bef6cc82c0705894384571775eba4e44010a)

3.3

Added

• Possibility to add the commit count per person as vertex attribute, counting either commits, where the person is committer AND author, or committer OR author (#92 (second task), da87c06cf971559873fe1fef28aa035cf8c25c57, 0f0a90fd236b8fbf059275e637678b5411f356bd, 5df541d0662e71ed2bec4df9c04a1557301d25c9, 3f9739705e9b37c5383c60fa067cc21c880657e5)
• Add method metrics.is.scale.free() to decide whether a network is scale-free or not (80f47512ce7634c81f3708865eb1697b0151f549, 97161b1228a157cbe747c2e98b88f27f572d695e)
• Add tests for comparing networks that are created differently (66d37ceb8227ba120e4e06fb7b8334a73b19c076, 4a9d6b9a543a18c2e2f38aa7e05592f84039a745, a37c27731bbd2e96bb0b3730a8e6b429616248f0)
• Add method clear.edge.attributes to clear the edge attributes list of the network configuration (15f7587ed6590637991c2f811a26f9e860229288)
• Add network configuration parameter author.respect.temporal.order for determining the edge-construction algorithm (#6, 4fc59a0ff68c8600b574e868458e5d53dbdc405b, fd0b07da55a1ecdead7e5a5677bbd9ae810c391c)

Changed/Improved

• Add committer information to the commit list in the test data
• Set the locale to "english-us" on Windows (b3da10d1d8b0b7667883964f11ca9a47b2f7b417)
• Update templates for pull requests and issues (0b9ecb7d9958d41c2bfc80c3489c3f4ca9ecac2a)
• Update the contribution guide regarding things to be done for a pull request (0b9ecb7d9958d41c2bfc80c3489c3f4ca9ecac2a)
• Update TravisCI script to run a job matrix with R 3.3, 3.4, and 3.5 (9bf7fcb383809903f9f11dcbb31969d4bc5fae12, b34bf75b55283ab36aa723dab87531e7a49d8126)
• Update README file regarding functionality, network types, data sources, and mandatory attributes (#121, da68b94445a2ac0c145ef73dc73cddfa64a1a499, 3200c57cb16d478712bf5a8f63c406b898e19762, baf41aa422a1e28f21d419572c6d23ed2c1b33e1, bec3a4704201e9b015c596591d1d70948dd4e929)
• Adjust legend orientation and placement in plots (now column-oriented) (c93ad2a48b2d18c725675637235d3b1939a99cd4)
• Refactor 'add.edges.for.bipartite.relation' for better readability (#118, 3d98b401664e601e9bb6fe202fddeb262417e0a4)
• Remove function 'combine.networks' (#118, b3496313e61eb1f6fe1e62e647cf0ab9a0d5b255)
• Do not support missing committer data anymore (871008e6f86ac728e616bd1de734a3203d524f4a)
• Do not serialize Strings when calculating the sha1 hash to generate an event ID for issues (basically due to encoding issues, eb56a8791ba5991781566f0073276ba216474ea9)
• Add implementation of Codeface to compute the scale-free attributes for small networks (80f47512ce7634c81f3708865eb1697b0151f549)
• Remove data inconsistencies when re-setting the commit, mail, and PaStA data (569552687e70ec7a67bed7da2c77cf56f5434dc6)
• Switch the order of the type and kind attributes of vertices in bipartite networks for testing reasons (351311a30f545d31e43e0065a6147185edec647b)
• Update README file (8380dc62f53591e53762a3692e44973535b5dcea, f590453aadde2dc9224d9f418f4a92c59cd49795, 792cb9558e04868bcad230dfdc50a5ace6d63d35, 8c2aI8255966cc6c38ea16e64a28b135ef8456e58, 5cfc5aec95eb3be5afcc549671477dcaf73d21b6, ebae9f8480033c073128e09dfae3873512cadafb, c66321e4ce6a9a08f681fd6f4d4afbde6c0bf260, 38e7c5d3f8e47450e9a71453ef09ff5ad5c39de4)
• Distinguish directedness of author networks and edge-construction algorithm (#6, 4fc59a0ff68c8600b574e868458e5d53dbdc405b, 70b3c82d73d1fee37829a61952dc1e2e993fa06f)

Fixed

• Change the type of all commit count default values to Integer (62c033948d3449ed3bb64ec044036bcda56afdae)
• Retain network attributes in simplify.network (in igraph language, graph attributes) (424b2bce24a56ee594f5600327843fc240a376fd)
• Fix showcase file regarding outdated plotting parameters (29d5ac6485d679d1b2cc42c0633ab4cd343c73b7)
• Eliminate duplicated lines in the raw commit data (dec0005e8e6af1bdecd3028d074ddd2120c7b2cc)
• Fix the split.networks.time.based method by now splitting the networks from the earliest timestamp to the latest (1f65db382396e701655812a8ef4e9def61e8981b)
• Fix TravisCI build regarding sudo commands (baca08e33ff336fe91caaca5ca8ceb1cb77f3ded)
• Fix direction of edges in exemplary network plot in README file (5c80c256b214e03bdc7881774ba8b1b9f43c21ed)

3.2

Added

• Handling of multiple relations for all types of networks (#98, #15, #11, PR #115)
  • Allow several entries for the entries author.relation and artifact.relation in the NetworkConf (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
  • Add the mandatory edge attribute relation representing author.relation or artifact.relation, respectively, for all types of networks (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
  • Return data for several relations in get.bipartite.relation (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
  • Retain one edge for each available value of edge attribute relation during network simplification (021ac8b88e9a181364a51e89807df55cb741ed44)
  • Add new tests and adapt existing ones (784c417c50eb1de5d0143908a390ead6ba22dbbf, 7ad49c4ad937c9a6c7398a45179e25d5d5c03faa, be6ee8cd48dc7692e02b7f1c512870591300fa8a)
• Add the mandatory vertex attribute kind describing the actual vertex kind (7c628fb93eb21f280c7d9da66680f817e107fa24, 784c417c50eb1de5d0143908a390ead6ba22dbbf)
• Respect new vertex and edge attributes in plot functions (b55d3e84a5f9b122dacd0ee52784d930f22d1f4b)
• Possibility to merge networks with function merge.networks (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
• Possibility to merge edge and vertex lists with function merge.network.data (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
• Add function create.empty.edge.list (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
• Possibility to contract imperfect ranges in the end (#104, 8ebcf20b0aba0cb82dcd7e1d1b95e261a866d04e)
• Add method ProjectData$equals (#116, 00df306a3e6dbdeb81ddc116e88a4854b07afe72)
• Add author classification by hierarchy to the core-peripheral module (8139f34fd809d6750064514a549024df4cbf5863)

Changed/Improved

• Remove the mandatory vertex attribute artifact.type due to inconsistent use ()
• Remove the mandatory vertex attribute id from artifact vertices due to inconsistent use (7ad49c4ad937c9a6c7398a45179e25d5d5c03faa)
• Streamline edge attribute artifact.type for uniformity ()
• Use color palette 'viridis' for plotting for better flexibility (f190ca130a15a82e5eed836e9ffc53b8a34aac20)
• Edge width in network plots now depends on edge weight, i.e., width = 0.3 + 0.5 * log(weight) (d791df8e2c41314f86c36b3af566141e7713f46c)
• Split function construct.network.from.list into the two functions construct.edge.list.from.key.value.list and construct.network.from.edge.list (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
• Handle data for more than one relation in function add.edges.for.bipartite.relation (2f1b4d9b0d6a629163a6dd3111b20930e15fcc13)
• Retain one edge for each available value of edge attribute relation during network simplification (021ac8b88e9a181364a51e89807df55cb741ed44)
• Read also lines from the PaStA data without the message.id being mapped to a commit.hash (992ddf8d582a7a023f000b4fc57f9ff85a7f38f6)
• Add column revision.set.id to PaStA data to indicate which e-mails are concerned with the same patch (992ddf8d582a7a023f000b4fc57f9ff85a7f38f6)
• Add PaStA data to the unfiltered commit data if configured (70d9b8bd4cb16636086ca7ab90e817b89844f172)

Fixed

• Check whether a given object to the ProjectConf setter in the ProjectData class really is a object of type ProjectConf (ab00c962e164428df2d59de7292eed3c3b1352aa)
• The method for eigenvector centrality now properly considers whether the network is directed or not (c0277c36e4ff45cfbb421317a42b6ea8736afe53)
• Fix a bug that caused errors when the core classification within a core-periphery classification is empty (c0277c36e4ff45cfbb421317a42b6ea8736afe53)

3.1.2

Changed/Improved

• Vertex and edge types (attribute "type") are now a character string (e.g., "Author" or "Unipartite") (#110, 3ca6ed99cf377200adb94a4b27ed1ea7d3a6981a)
• Default plotting layout is now igraph::layout.kamada.kawai (#109, 909965453c47c26c902612cb0c9aa16a5b56746a)
• Remove parameter 'color.attr' from 'motifs.search.in.network' (d33f6863aaf05ae1a8acf7f5667784713796b734)
• Fix and clean-up of both the plotting and the motif modules (3ca6ed99cf377200adb94a4b27ed1ea7d3a6981a, consequence of #110)
• Use vectors as vertex attributes instead of lists if there is only one value per vertex (#112, abc0dcbe2aa4ae6ff1c8387c3e961b95e57b2af2)
• Add a notice that the function get.date.from.string does ignore time-zone suffixes (9a51877f32a51850259b323c975182f2155b5302)

Fixed

• Probably fixed segfaults during plotting by changing the default layout (see above and issue #109)
• Fix gray-scale plotting of networks (730cc544edbb30ea3aa89a91e123e74b18a942c6)

3.1.1

Changed/Improved

• Improve performance of several functions used for adding vertex attributes (#102, PR #105)
• Change default values for aggregation levels for some functions (#102, PR #105)
• Add missing remove.isolates parameter to some more network-splitting functions (011328e881b09bd736dc83475ba7e6cab663bebe)
• Removed caching of artifacts in data objects (1bed431bf21d78936391a5e7278de5f762922eac)
• Some minor improvements to the test suite

Fixed

• Fix outdated statements in README.md (PR #105)
• Fix range construction when difference between start and end is smaller than time.period (#103, PR #105, 975ae4d2e1b954d92f945c5853959ff2b3e47083)
• Fix caching of data objects in network builders (2b327a969427eb8ba5e4e20af33b09e243987a21)
• Fix activity-based splitting with sliding window of data objects (9860d7d0c80f9373b2887e0058a1941e2be277f2)

3.1

Added

• Vertex attributes (#34, PRs #67 and #93, thanks to @flx5)
• Possibility to construct cumulative and overlapping ranges (#61, PR #96)
• Possibility to aggregate existing ranges (#61, PR #96, see also 52eae7fe478e6b60ebe7a8259d06e4cebb83522e)
• Add functions to split data and networks by ranges (#61)
• Add functions to split data by networks (#34, a8ca4061929cdf075f66e480891ed4562515f7e3)

Changed/Improved

• Add 'issues.only.comments' to ProjectConf to construct issue-communication networks (#89, part of PR #95, e011782f68e38f277d003b154a0afefc9743a0b5)
• Use lubridate package for all POSIXct conversions (#77, PRs #85 and #94)
• The list of authors now contains e-mail addresses (#69, 8ebfcb720ad158bb385202a03e23d6feb7a85984, 7bfbe8403d6fdfb76d8856f3c2885028958ff12d)
• Add ability to the earliest and latest data timestamps (217e41c15b8ab2ea58e54e363d37764731957ad0)
• Some more refactorings and minor fixes, also to the test suite

Fixed

• Add 'date.offset' to possible edge attributes (0c1868a8d0c2186fd5fd431f502e797168576d27)
• Fix sqldf queries (35ea503c2b11cc1d9392be4841402cc2d3781f25)

3.0.2

Changed/Improved

• Move showcase log to distinct file (d2cd88b41c2ca21cff9fb40a18d89074a82bd264)

Fixed

• Fix bug in reading commits for the file relation (3c878f11df1e019c39fce270733513e3904f46de)

3.0.1

Added

• Add committer data to commit data source (#35, 251cfdbac0ab31584a7fab8bbaf8398a53ae8d11)
• Add function to delete isolate vertices from a network (5d91ddd89a488212eabf2ce110ec7210fc3c971d)

Changed/Improved

• Remove warning when reading non-existent PaStA data (3d7f326e8279d1ea8b9b23b4b13c5036ffcc5067)
• Minor fixes and improvements to code style (0e421b58c4178eae9f6c12bc835944172077ddfc), logging (4899b1c04961199aa7e41f2db9a6fd8da6b99bd4), indentation (d8b77c2274a4a678f436514a5ae3bfda35fb97df), and test suite (7a8c4d4bfc31d2d0144d6a62bc7308fccfab2b99).

v3.0

Added

• Read GitHub issues and incorporate the data in network construction (main props to @Roger1995)
• Network metrics (#73, part of PR #78, thanks to @Roger1995)
• Add a method to calculate the bounds of a range (#58, b246fbe4237e3c9d9a897fb0a2371715e8a49d45, thanks to @flx5)
• Support for TravisCI (bb595f6c7aa265db7440ac2045d0da847c5d0de6)
• Cut data to avoid incomplete ranges resp. missing data (#38, PR #78, thanks to @hechtlC)
• Obtain earliest/latest timestamps from data sources (#38, PR #78, thanks to @hechtlC)
• Add function to split a list of networks (#57, 6db23d2358a650a99bc688397ec198727f8cb9d6)
• Much more documentation at functions and modules (thanks to @hechtlC)

Changed/Improved

• Split network-building process into ProjectData and NetworkBuilder class (e.g., 768ffa4) (main props to @Roger1995 and @hechtlC)
• Use ggraph for plotting of networks, incorporating ggplot2-like plotting functionality (615928473b843587b85854c6819c1cced5c5a759)
• Give progess during edge construction (65650f6)
• Streamline data-source configuration options in network configuration and data columns after reading data (e.g., 5a58ad4, 50693da5dd04bbbcf8fbeea973e2d5e2f469f446, fe6dbb8b3e0eb66547803f8ea1418ff3b9da7ae0)
• New class structure for ProjectConf and NetworkConf, incorporating better and more transparent handling of parameters (e.g., 629d108 and 605ab871a93df2fe69b377e6f250b63e92124ffd)
• The sample network is now built from sample project data (45218e6)
• Improvements to motif search (1c4a390)
• There are now functions suporting multi-network views (#56, 2e90c9ac70b25f7c07c35bd27fb9112c0a253521)
• Improve tests (e.g., 6081c80551f1ab499df3b897c65b9d4170072540, 7b8cf996daa3c0025a35808ef2cd877b3b9c5673)
• Better printing of configurations (5a58ad4a5b0b82c2c69a956b92d646058594ad0e)
• The showcase file is now named showcase.R (caa38c1a28a4f12b7e59792770e8413ef17068c2)
• Remove system-variable initialization from module files (#68, dff6844c4cd01e144bab8c223d28cda0bb346828)
• Add range attribute to built networks (#62, PR #64)
• Improve plotting module by changing to the ggraph package (615928473b843587b85854c6819c1cced5c5a759)

Fixed

• Fix time-zone information by setting UTC as default time zone (4a3f8b91317fe7953670a83366cb3ad9c74b4d42, props to @sofie-kemper)
• Fix encoding when reading raw data (ea1925b880bbe7b77528c077f6244f3564007330, props to @sofie-kemper)
• Many, many more bug fixes...