diff --git a/.bumpversion.cfg b/.bumpversion.cfg index 67f6e2c3..9dcb3bac 100644 --- a/.bumpversion.cfg +++ b/.bumpversion.cfg @@ -1,5 +1,5 @@ [bumpversion] -current_version = 1.4.1.9005 +current_version = 1.4.1.9006 commit = True tag = False parse = (?P\d+)\.(?P\d+)\.(?P\d+)(\.(?P\d+))? diff --git a/.github/workflows/build_conda_recipes.yaml b/.github/workflows/build_conda_recipes.yaml index b3ffe7ec..f7d9196f 100644 --- a/.github/workflows/build_conda_recipes.yaml +++ b/.github/workflows/build_conda_recipes.yaml @@ -11,7 +11,7 @@ env: recipe_path: conda/recipe env_yml_path: conda/env/yml env_lock_path: conda/env/lock - VERSION: '1.4.1.9005' # versioned by bump2version + VERSION: '1.4.1.9006' # versioned by bump2version jobs: build_pcgrr_conda_pkg: # When merging to one of the branches above and the commit message matches diff --git a/conda/env/yml/pcgr.yml b/conda/env/yml/pcgr.yml index 236d19c2..80f36d3e 100644 --- a/conda/env/yml/pcgr.yml +++ b/conda/env/yml/pcgr.yml @@ -6,7 +6,7 @@ channels: - conda-forge dependencies: - - pcgr::pcgr ==1.4.1.9005 # versioned by bump2version + - pcgr::pcgr ==1.4.1.9006 # versioned by bump2version - bedtools - bcftools - cyvcf2 diff --git a/conda/env/yml/pcgrr.yml b/conda/env/yml/pcgrr.yml index 7af6c3b5..98b3a42c 100644 --- a/conda/env/yml/pcgrr.yml +++ b/conda/env/yml/pcgrr.yml @@ -7,7 +7,7 @@ channels: dependencies: - python - - pcgr::r-pcgrr ==1.4.1.9005 # versioned by bump2version + - pcgr::r-pcgrr ==1.4.1.9006 # versioned by bump2version - pcgr::r-cpsr - r-argparse - bioconductor-bsgenome.hsapiens.ucsc.hg38 diff --git a/conda/env/yml/pkgdown.yml b/conda/env/yml/pkgdown.yml index f515fe6e..d81838dc 100644 --- a/conda/env/yml/pkgdown.yml +++ b/conda/env/yml/pkgdown.yml @@ -4,7 +4,7 @@ channels: - bioconda - conda-forge dependencies: - - pcgr::r-pcgrr ==1.4.1.9005 # versioned by bump2version + - pcgr::r-pcgrr ==1.4.1.9006 # versioned by bump2version - r-pkgdown - r-readr - pandoc diff --git a/conda/recipe/pcgr/meta.yaml b/conda/recipe/pcgr/meta.yaml index ca17942b..a0d8cb5d 100644 --- a/conda/recipe/pcgr/meta.yaml +++ b/conda/recipe/pcgr/meta.yaml @@ -1,6 +1,6 @@ package: name: pcgr - version: 1.4.1.9005 # versioned by bump2version + version: 1.4.1.9006 # versioned by bump2version source: path: ../../.. diff --git a/conda/recipe/pcgrr/meta.yaml b/conda/recipe/pcgrr/meta.yaml index a5cd5e02..d8b85125 100644 --- a/conda/recipe/pcgrr/meta.yaml +++ b/conda/recipe/pcgrr/meta.yaml @@ -1,6 +1,6 @@ package: name: r-pcgrr - version: 1.4.1.9005 # versioned by bump2version + version: 1.4.1.9006 # versioned by bump2version source: path: ../../../pcgrr diff --git a/pcgr/_version.py b/pcgr/_version.py index 1591046b..ea33562f 100644 --- a/pcgr/_version.py +++ b/pcgr/_version.py @@ -1,2 +1,2 @@ # versioned by bump2version -__version__ = '1.4.1.9005' +__version__ = '1.4.1.9006' diff --git a/pcgrr/DESCRIPTION b/pcgrr/DESCRIPTION index b8846e73..020af7de 100644 --- a/pcgrr/DESCRIPTION +++ b/pcgrr/DESCRIPTION @@ -1,7 +1,7 @@ Package: pcgrr Type: Package Title: Personal Cancer Genome ReporteR -Version: 1.4.1.9005 +Version: 1.4.1.9006 Date: 2024-04-27 Authors@R: c(person(given = "Sigve", @@ -53,6 +53,7 @@ Imports: S4Vectors, scales, stringr, + tibble, tidyr, yaml Depends: diff --git a/pcgrr/vignettes/installation.Rmd b/pcgrr/vignettes/installation.Rmd index 4ca1e2af..ea103d4c 100644 --- a/pcgrr/vignettes/installation.Rmd +++ b/pcgrr/vignettes/installation.Rmd @@ -12,7 +12,7 @@ output: rmarkdown::html_document software requirements: ```bash -PCGR_VERSION="1.4.1.9005" +PCGR_VERSION="1.4.1.9006" PCGR_REPO="https://raw.githubusercontent.com/sigven/pcgr/v${PCGR_VERSION}/conda/env/lock/" PLATFORM="linux" # or "osx" @@ -98,7 +98,7 @@ Download and unpack the latest software release from