diff --git a/.github/workflows/R-CMD-check.yaml b/.github/workflows/R-CMD-check.yaml
index b0f3cd6..3cdf68c 100644
--- a/.github/workflows/R-CMD-check.yaml
+++ b/.github/workflows/R-CMD-check.yaml
@@ -1,16 +1,14 @@
-# For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag.
-# https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
- branches:
- - master
- - develop
+ branches: [master, develop]
pull_request:
- branches:
- - master
- - develop
+ branches: [master, develop]
-name: R-CMD-check
+name: R-CMD-check.yaml
+
+permissions: read-all
jobs:
R-CMD-check:
@@ -22,63 +20,33 @@ jobs:
fail-fast: false
matrix:
config:
+ - {os: macos-latest, r: 'release'}
- {os: windows-latest, r: 'release'}
- - {os: macOS-latest, r: 'release'}
- - {os: ubuntu-20.04, r: 'release', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
- - {os: ubuntu-20.04, r: 'devel', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
+ - {os: ubuntu-latest, r: 'devel', http-user-agent: 'release'}
+ - {os: ubuntu-latest, r: 'release'}
+ - {os: ubuntu-latest, r: 'oldrel-1'}
env:
- R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
- RSPM: ${{ matrix.config.rspm }}
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+ R_KEEP_PKG_SOURCE: yes
steps:
- - uses: actions/checkout@v2
+ - uses: actions/checkout@v4
+
+ - uses: r-lib/actions/setup-pandoc@v2
- - uses: r-lib/actions/setup-r@v1
+ - uses: r-lib/actions/setup-r@v2
with:
r-version: ${{ matrix.config.r }}
+ http-user-agent: ${{ matrix.config.http-user-agent }}
+ use-public-rspm: true
- - uses: r-lib/actions/setup-pandoc@v1
-
- - name: Query dependencies
- run: |
- install.packages('remotes')
- saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
- writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
- shell: Rscript {0}
-
- - name: Cache R packages
- if: runner.os != 'Windows'
- uses: actions/cache@v2
+ - uses: r-lib/actions/setup-r-dependencies@v2
with:
- path: ${{ env.R_LIBS_USER }}
- key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
- restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
-
- - name: Install system dependencies
- if: runner.os == 'Linux'
- run: |
- while read -r cmd
- do
- eval sudo $cmd
- done < <(Rscript -e 'writeLines(remotes::system_requirements("ubuntu", "20.04"))')
-
- - name: Install dependencies
- run: |
- remotes::install_deps(dependencies = TRUE)
- remotes::install_cran("rcmdcheck")
- shell: Rscript {0}
-
- - name: Check
- env:
- _R_CHECK_CRAN_INCOMING_REMOTE_: false
- run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check")
- shell: Rscript {0}
+ extra-packages: any::rcmdcheck
+ needs: check
- - name: Upload check results
- if: failure()
- uses: actions/upload-artifact@main
+ - uses: r-lib/actions/check-r-package@v2
with:
- name: ${{ runner.os }}-r${{ matrix.config.r }}-results
- path: check
+ upload-snapshots: true
+ build_args: 'c("--no-manual","--compact-vignettes=gs+qpdf")'
diff --git a/.github/workflows/rhub.yaml b/.github/workflows/rhub.yaml
new file mode 100644
index 0000000..74ec7b0
--- /dev/null
+++ b/.github/workflows/rhub.yaml
@@ -0,0 +1,95 @@
+# R-hub's generic GitHub Actions workflow file. It's canonical location is at
+# https://github.com/r-hub/actions/blob/v1/workflows/rhub.yaml
+# You can update this file to a newer version using the rhub2 package:
+#
+# rhub::rhub_setup()
+#
+# It is unlikely that you need to modify this file manually.
+
+name: R-hub
+run-name: "${{ github.event.inputs.id }}: ${{ github.event.inputs.name || format('Manually run by {0}', github.triggering_actor) }}"
+
+on:
+ workflow_dispatch:
+ inputs:
+ config:
+ description: 'A comma separated list of R-hub platforms to use.'
+ type: string
+ default: 'linux,windows,macos'
+ name:
+ description: 'Run name. You can leave this empty now.'
+ type: string
+ id:
+ description: 'Unique ID. You can leave this empty now.'
+ type: string
+
+jobs:
+
+ setup:
+ runs-on: ubuntu-latest
+ outputs:
+ containers: ${{ steps.rhub-setup.outputs.containers }}
+ platforms: ${{ steps.rhub-setup.outputs.platforms }}
+
+ steps:
+ # NO NEED TO CHECKOUT HERE
+ - uses: r-hub/actions/setup@v1
+ with:
+ config: ${{ github.event.inputs.config }}
+ id: rhub-setup
+
+ linux-containers:
+ needs: setup
+ if: ${{ needs.setup.outputs.containers != '[]' }}
+ runs-on: ubuntu-latest
+ name: ${{ matrix.config.label }}
+ strategy:
+ fail-fast: false
+ matrix:
+ config: ${{ fromJson(needs.setup.outputs.containers) }}
+ container:
+ image: ${{ matrix.config.container }}
+
+ steps:
+ - uses: r-hub/actions/checkout@v1
+ - uses: r-hub/actions/platform-info@v1
+ with:
+ token: ${{ secrets.RHUB_TOKEN }}
+ job-config: ${{ matrix.config.job-config }}
+ - uses: r-hub/actions/setup-deps@v1
+ with:
+ token: ${{ secrets.RHUB_TOKEN }}
+ job-config: ${{ matrix.config.job-config }}
+ - uses: r-hub/actions/run-check@v1
+ with:
+ token: ${{ secrets.RHUB_TOKEN }}
+ job-config: ${{ matrix.config.job-config }}
+
+ other-platforms:
+ needs: setup
+ if: ${{ needs.setup.outputs.platforms != '[]' }}
+ runs-on: ${{ matrix.config.os }}
+ name: ${{ matrix.config.label }}
+ strategy:
+ fail-fast: false
+ matrix:
+ config: ${{ fromJson(needs.setup.outputs.platforms) }}
+
+ steps:
+ - uses: r-hub/actions/checkout@v1
+ - uses: r-hub/actions/setup-r@v1
+ with:
+ job-config: ${{ matrix.config.job-config }}
+ token: ${{ secrets.RHUB_TOKEN }}
+ - uses: r-hub/actions/platform-info@v1
+ with:
+ token: ${{ secrets.RHUB_TOKEN }}
+ job-config: ${{ matrix.config.job-config }}
+ - uses: r-hub/actions/setup-deps@v1
+ with:
+ job-config: ${{ matrix.config.job-config }}
+ token: ${{ secrets.RHUB_TOKEN }}
+ - uses: r-hub/actions/run-check@v1
+ with:
+ job-config: ${{ matrix.config.job-config }}
+ token: ${{ secrets.RHUB_TOKEN }}
diff --git a/.github/workflows/test-coverage.yaml b/.github/workflows/test-coverage.yaml
index 9245d3a..5679b54 100644
--- a/.github/workflows/test-coverage.yaml
+++ b/.github/workflows/test-coverage.yaml
@@ -1,48 +1,61 @@
+# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
+# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
push:
- branches:
- - master
- - develop
+ branches: [master, develop]
pull_request:
- branches:
- - master
- - develop
+ branches: [master, develop]
-name: test-coverage
+name: test-coverage.yaml
+
+permissions: read-all
jobs:
test-coverage:
- runs-on: macOS-latest
+ runs-on: ubuntu-latest
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
+
steps:
- - uses: actions/checkout@v2
+ - uses: actions/checkout@v4
- - uses: r-lib/actions/setup-r@v1
+ - uses: r-lib/actions/setup-r@v2
+ with:
+ use-public-rspm: true
- - uses: r-lib/actions/setup-pandoc@v1
+ - uses: r-lib/actions/setup-r-dependencies@v2
+ with:
+ extra-packages: any::covr, any::xml2
+ needs: coverage
- - name: Query dependencies
+ - name: Test coverage
run: |
- install.packages('remotes')
- saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2)
- writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version")
+ cov <- covr::package_coverage(
+ quiet = FALSE,
+ clean = FALSE,
+ install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package")
+ )
+ covr::to_cobertura(cov)
shell: Rscript {0}
- - name: Cache R packages
- uses: actions/cache@v2
+ - uses: codecov/codecov-action@v4
with:
- path: ${{ env.R_LIBS_USER }}
- key: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-${{ hashFiles('.github/depends.Rds') }}
- restore-keys: ${{ runner.os }}-${{ hashFiles('.github/R-version') }}-1-
-
- - name: Install dependencies
+ fail_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }}
+ file: ./cobertura.xml
+ plugin: noop
+ disable_search: true
+ token: ${{ secrets.CODECOV_TOKEN }}
+
+ - name: Show testthat output
+ if: always()
run: |
- install.packages(c("remotes"))
- remotes::install_deps(dependencies = TRUE)
- remotes::install_cran("covr")
- shell: Rscript {0}
+ ## --------------------------------------------------------------------
+ find '${{ runner.temp }}/package' -name 'testthat.Rout*' -exec cat '{}' \; || true
+ shell: bash
- - name: Test coverage
- run: covr::codecov()
- shell: Rscript {0}
+ - name: Upload test results
+ if: failure()
+ uses: actions/upload-artifact@v4
+ with:
+ name: coverage-test-failures
+ path: ${{ runner.temp }}/package
diff --git a/DESCRIPTION b/DESCRIPTION
index 4a7b724..03c66cc 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -23,5 +23,5 @@ License: MIT + file LICENSE
URL: https://github.com/rsquaredacademy/vistributions, https://vistributions.rsquaredacademy.com
BugReports: https://github.com/rsquaredacademy/vistributions/issues
Encoding: UTF-8
-RoxygenNote: 7.1.1
+RoxygenNote: 7.3.2
VignetteBuilder: knitr
diff --git a/R/vdist-data-prep.R b/R/vdist-data-prep.R
index 1402d2d..6bad1e2 100644
--- a/R/vdist-data-prep.R
+++ b/R/vdist-data-prep.R
@@ -305,7 +305,7 @@ nplot_data_prep <- function(mean, sd) {
col <- c("#0000CD", "#4682B4", "#6495ED", "#4682B4", "#6495ED")
l1 <- c(3, 2, 1, 5, 6)
l2 <- c(5, 3, 2, 6, 7)
- ll <- l[3:9]
+ ll <- l[3:9]
plot_data <- data.frame(x = x, y = dnorm(x, mean, sd))
diff --git a/R/vistributions.R b/R/vistributions.R
index 6ca6f7e..4ad8688 100644
--- a/R/vistributions.R
+++ b/R/vistributions.R
@@ -3,7 +3,10 @@
#' Visualize probability distributions.
#'
#' @docType package
+#' @keywords internal
#' @name vistributions
+#' @aliases vistributions-package
+"_PACKAGE"
NULL
## quiets concerns of R CMD check re: the .'s that appear in pipelines
diff --git a/README.Rmd b/README.Rmd
index 082d154..1f161bb 100644
--- a/README.Rmd
+++ b/README.Rmd
@@ -17,9 +17,9 @@ knitr::opts_chunk$set(
> Visualize probability distributions
-[](https://cran.r-project.org/package=vistributions) [](https://cran.r-project.org/web/checks/check_results_vistributions.html)
-[](https://github.com/rsquaredacademy/vistributions/actions)
-[](https://codecov.io/github/rsquaredacademy/vistributions?branch=master) [](https://CRAN.R-project.org/package=vistributions) [](https://lifecycle.r-lib.org/articles/stages.html) [](https://cran.r-project.org/package=vistributions)
+[](https://cran.r-project.org/package=vistributions)
+[](https://github.com/rsquaredacademy/vistributions/actions/workflows/R-CMD-check.yaml)
+[](https://codecov.io/github/rsquaredacademy/vistributions?branch=master)
## Installation
diff --git a/README.md b/README.md
index fc0b87e..1a83d59 100644
--- a/README.md
+++ b/README.md
@@ -7,17 +7,10 @@
-[](https://cran.r-project.org/package=vistributions)
-[](https://cran.r-project.org/web/checks/check_results_vistributions.html)
-[](https://github.com/rsquaredacademy/vistributions/actions)
+[](https://cran.r-project.org/package=vistributions)
+[](https://github.com/rsquaredacademy/vistributions/actions/workflows/R-CMD-check.yaml)
[](https://codecov.io/github/rsquaredacademy/vistributions?branch=master)
-[](https://CRAN.R-project.org/package=vistributions)
-[](https://lifecycle.r-lib.org/articles/stages.html)
-[](https://cran.r-project.org/package=vistributions)
+Status](https://img.shields.io/codecov/c/github/rsquaredacademy/vistributions/master.svg)](https://codecov.io/github/rsquaredacademy/vistributions?branch=master)
## Installation
@@ -33,8 +26,8 @@ devtools::install_github("rsquaredacademy/vistributions")
## Articles
-- [Explore
- Distributions](https://vistributions.rsquaredacademy.com/articles/introduction-to-vistributions.html)
+- [Explore
+ Distributions](https://vistributions.rsquaredacademy.com/articles/introduction-to-vistributions.html)
## Usage
@@ -48,6 +41,7 @@ vdist_normal_plot()
``` r
+
# visualize quantiles out of given probability
vdist_normal_perc(0.95, mean = 2, sd = 1.36, type = 'both')
```
@@ -55,6 +49,7 @@ vdist_normal_perc(0.95, mean = 2, sd = 1.36, type = 'both')
``` r
+
# visualize probability from a given quantile
vdist_normal_prob(c(-1.74, 1.83), type = 'both')
```
diff --git a/man/figures/README-normal-1.png b/man/figures/README-normal-1.png
index 3dcdb34..565fa26 100644
Binary files a/man/figures/README-normal-1.png and b/man/figures/README-normal-1.png differ
diff --git a/man/figures/README-normal-2.png b/man/figures/README-normal-2.png
index 41752f5..eb1bf87 100644
Binary files a/man/figures/README-normal-2.png and b/man/figures/README-normal-2.png differ
diff --git a/man/figures/README-normal-3.png b/man/figures/README-normal-3.png
index 99d34e8..b18e0bf 100644
Binary files a/man/figures/README-normal-3.png and b/man/figures/README-normal-3.png differ
diff --git a/man/vistributions.Rd b/man/vistributions.Rd
index fc53ba9..c81c489 100644
--- a/man/vistributions.Rd
+++ b/man/vistributions.Rd
@@ -3,7 +3,22 @@
\docType{package}
\name{vistributions}
\alias{vistributions}
+\alias{vistributions-package}
\title{\code{vistributions} package}
\description{
Visualize probability distributions.
}
+\seealso{
+Useful links:
+\itemize{
+ \item \url{https://github.com/rsquaredacademy/vistributions}
+ \item \url{https://vistributions.rsquaredacademy.com}
+ \item Report bugs at \url{https://github.com/rsquaredacademy/vistributions/issues}
+}
+
+}
+\author{
+\strong{Maintainer}: Aravind Hebbali \email{hebbali.aravind@gmail.com}
+
+}
+\keyword{internal}
diff --git a/tests/testthat/_snaps/visual/binomial-perc-lower.svg b/tests/testthat/_snaps/visual/binomial-perc-lower.svg
index 3aabc25..0296eba 100644
--- a/tests/testthat/_snaps/visual/binomial-perc-lower.svg
+++ b/tests/testthat/_snaps/visual/binomial-perc-lower.svg
@@ -61,17 +61,17 @@
-
-
-
-
-
-
-
-
-
-
-
+
+
+
+
+
+
+
+
+
+
+
0.00
diff --git a/tests/testthat/_snaps/visual/binomial-perc-upper.svg b/tests/testthat/_snaps/visual/binomial-perc-upper.svg
index d252dcc..801439c 100644
--- a/tests/testthat/_snaps/visual/binomial-perc-upper.svg
+++ b/tests/testthat/_snaps/visual/binomial-perc-upper.svg
@@ -61,17 +61,17 @@
-
-
-
-
-
-
-
-
-
-
-
+
+
+
+
+
+
+
+
+
+
+
0.00
diff --git a/tests/testthat/_snaps/visual/binomial-plot.svg b/tests/testthat/_snaps/visual/binomial-plot.svg
index 138174a..deca733 100644
--- a/tests/testthat/_snaps/visual/binomial-plot.svg
+++ b/tests/testthat/_snaps/visual/binomial-plot.svg
@@ -56,17 +56,17 @@
-
-
-
-
-
-
-
-
-
-
-
+
+
+
+
+
+
+
+
+
+
+
0.0
diff --git a/tests/testthat/_snaps/visual/binomial-prob-exact.svg b/tests/testthat/_snaps/visual/binomial-prob-exact.svg
index 4a116c6..a4e0ae0 100644
--- a/tests/testthat/_snaps/visual/binomial-prob-exact.svg
+++ b/tests/testthat/_snaps/visual/binomial-prob-exact.svg
@@ -56,17 +56,17 @@
-
-
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-
-
-
-
-
-
-
-
+
+
+
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+
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diff --git a/tests/testthat/_snaps/visual/binomial-prob-interval.svg b/tests/testthat/_snaps/visual/binomial-prob-interval.svg
index da0ba8f..dfe8c9d 100644
--- a/tests/testthat/_snaps/visual/binomial-prob-interval.svg
+++ b/tests/testthat/_snaps/visual/binomial-prob-interval.svg
@@ -56,17 +56,17 @@
-
-
-
-
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-
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+
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+
0.0
diff --git a/tests/testthat/_snaps/visual/binomial-prob-lower.svg b/tests/testthat/_snaps/visual/binomial-prob-lower.svg
index eb0a517..99be831 100644
--- a/tests/testthat/_snaps/visual/binomial-prob-lower.svg
+++ b/tests/testthat/_snaps/visual/binomial-prob-lower.svg
@@ -56,17 +56,17 @@
-
-
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+
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diff --git a/tests/testthat/_snaps/visual/binomial-prob-upper.svg b/tests/testthat/_snaps/visual/binomial-prob-upper.svg
index 02eea1b..ca18dce 100644
--- a/tests/testthat/_snaps/visual/binomial-prob-upper.svg
+++ b/tests/testthat/_snaps/visual/binomial-prob-upper.svg
@@ -56,17 +56,17 @@
-
-
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diff --git a/tests/testthat/_snaps/visual/chisquare-perc-lower.svg b/tests/testthat/_snaps/visual/chisquare-perc-lower.svg
index 0fa6ec1..31dd37a 100644
--- a/tests/testthat/_snaps/visual/chisquare-perc-lower.svg
+++ b/tests/testthat/_snaps/visual/chisquare-perc-lower.svg
@@ -45,8 +45,8 @@
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index a1414ad..e0e6b0b 100644
--- a/tests/testthat/_snaps/visual/chisquare-perc-upper.svg
+++ b/tests/testthat/_snaps/visual/chisquare-perc-upper.svg
@@ -49,8 +49,8 @@
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22%
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index 49ae113..ec2755c 100644
--- a/tests/testthat/_snaps/visual/chisquare-plot-1.svg
+++ b/tests/testthat/_snaps/visual/chisquare-plot-1.svg
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index 8285e85..2abe50d 100644
--- a/tests/testthat/_snaps/visual/chisquare-plot-1a.svg
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index 31edbb7..b9f50a1 100644
--- a/tests/testthat/_snaps/visual/chisquare-plot-2.svg
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index dbdc3a9..ba7f27a 100644
--- a/tests/testthat/_snaps/visual/chisquare-plot-3.svg
+++ b/tests/testthat/_snaps/visual/chisquare-plot-3.svg
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index 81b4c4e..6882f99 100644
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index 2966d72..9bfce93 100644
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@@ -41,8 +41,8 @@
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index d5fc469..0d33754 100644
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index a88a89d..108d95f 100644
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index 0806034..64f9ef3 100644
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index 587a314..b823e8c 100644
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@@ -39,8 +39,8 @@
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index 6705ce9..93b7f73 100644
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@@ -39,8 +39,8 @@
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diff --git a/tests/testthat/_snaps/visual/normal-perc-both.svg b/tests/testthat/_snaps/visual/normal-perc-both.svg
index a0c2deb..0475cdd 100644
--- a/tests/testthat/_snaps/visual/normal-perc-both.svg
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@@ -54,9 +54,9 @@
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index c0e836a..e966652 100644
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@@ -53,8 +53,8 @@
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index c22b7c6..0839e98 100644
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@@ -53,8 +53,8 @@
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index 4a98309..c600799 100644
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@@ -44,11 +44,11 @@
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@@ -42,11 +42,11 @@
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index 256b8ed..8f9ce6f 100644
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index 8f3a633..ea6383e 100644
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index 8db05f9..93e4ac4 100644
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@@ -47,8 +47,8 @@
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index e8610d7..746b5ea 100644
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@@ -54,9 +54,9 @@
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@@ -51,9 +51,9 @@
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@@ -51,9 +51,9 @@
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@@ -51,8 +51,8 @@
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