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Version 0.4

goalie 0.4.0 (2019-10-22)

The increase in version number here denotes new import of acidbase package.

Major changes:

  • Migrated base (system) functions to new low-level acidbase package. Some of these functions are not specific to an assert check engine and should be defined in a separate package.

New functions:

  • Added assert checks, based on file extension: isCompressedFile, isACompressedFile, allAreCompressedFiles. These perform similarly to isFile but also check to see if the file extension contains a compression format (e.g. bz2, gz, xz, zip).

goalie 0.4.1 (2019-12-09)

Minor changes:

  • hasRownames: Improved internal check for integer (sequence) row names for data.frame class, which previously returned TRUE unexpectedly if the rows are reordered or subset. Now this function uses an internal grepl check via allAreMatchingRegex, which hardens this check, and now should always return FALSE for soft NULL row names in data.frame class.

goalie 0.4.2 (2020-01-28)

Minor changes:

  • Switched license from MIT to GPL-3.

goalie 0.4.3 (2020-04-08)

New functions:

Migrated some functions that were previously defined in the koopa package:

  • hasGitHubPAT: Check if the user has a GitHUB personal access token (PAT) defined as GITHUB_PAT environment variable.
  • isMacOS, isLinux, isUnix, isWindows. The Linux, Unix, and Windows checks are new but inspired by the macOS check from koopa.
  • isSystemCommand (previously named isCommand in koopa). This check will look to see if a system (shell) command is available.

Minor changes:

  • isDocker: Hardened the check function to look at /proc/1/cgroup.

goalie 0.4.4 (2020-04-12)

New functions:

  • isRStudio: Checks whether current R session is running inside RStudio.

Minor changes:

  • Now setting cause attribute on failure for: isLinux, isMacOS, isUnix, and isWindows.

goalie 0.4.5 (2020-06-26)

New functions:

  • isSymlink, isASymlink, allAreSymlinks: Added logical check functions for symbolic links. Note that these functions won’t work on Windows.

goalie 0.4.6 (2020-07-24)

Minor changes:

  • Maintenance release, increasing minimum R dependency to 4.0.

goalie 0.4.7 (2020-08-11)

New functions:

  • isPackageVersion: Migrated check that was previously defined in koopa.
  • isVanilla: Check if R session is running with --vanilla flag enabled.

goalie 0.4.8 (2020-08-12)

New functions:

  • Migrated isCleanSystemLibrary here from bb8.

Minor changes:

  • Switched vignette back to default instead of using BiocStyle.

goalie 0.4.9 (2020-10-06)

  • Updated dependency package names (e.g. AcidBase).

goalie 0.4.10 (2020-10-29)

New functions:

  • isDevel: Check if session is running inside R-devel. Internally checks against R.version.string.
  • isBiocDevel: Check if Bioconductor installation is under development. Requires BiocManager and yaml packages, which have been added to “Suggests”.

goalie 0.4.11 (2020-11-05)

Minor changes:

  • Decreased the number of suggested packages, removing DelayedArray and DelayedMatrixStats. These packages were called internally but basically never used in practice inside the hasNonzeroRowsAndCols check function. DelayedArray can have some HDF5-related build issues on some machines, so removing it as a suggested package makes goalie easier to install consistently across platforms.

goalie 0.4.12 (2021-01-04)

Minor changes:

  • Migrated some base functions that were previously defined in AcidBase, so we can pin the dependencies to base R only: compressExtPattern, extPattern, printString, safeDeparse, shorten, toNames.

goalie 0.4.13 (2021-01-06)

New functions:

  • isOrganism: New assert check to verify that user precisely entered expected organism format of <genus> <species> (e.g. “Homo sapiens”). Case sensitivity and spaces are required here.

goalie 0.4.14 (2021-01-06)

Minor changes:

  • isOrganism: Added nullOK argument.