1 | 1 |
deleted file mode 100644 |
... | ... |
@@ -1,26 +0,0 @@ |
1 |
-language: r |
|
2 |
-cache: packages |
|
3 |
-sudo: false |
|
4 |
-warnings_are_errors: false |
|
5 |
-bioc_required: true |
|
6 |
-r_build_args: "--no-build-vignettes" |
|
7 |
-r_check_args: "--no-vignettes --no-build-vignettes --as-cran" |
|
8 |
-notifications: |
|
9 |
- slack: |
|
10 |
- secure: 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 |
|
11 |
- |
|
12 |
-r_github_packages: |
|
13 |
- - r-lib/covr |
|
14 |
- - jimhester/lintr |
|
15 |
- - spatstat/spatstat@v1.64-1 |
|
16 |
-after_success: |
|
17 |
- - R CMD INSTALL $PKG_TARBALL |
|
18 |
- - Rscript -e 'covr::coveralls()' |
|
19 |
- - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 100)), exclusions = list("R/RcppExports.R"))' |
|
20 |
- |
|
21 |
-addons: |
|
22 |
- apt: |
|
23 |
- sources: |
|
24 |
- - sourceline: 'ppa:opencpu/imagemagick' |
|
25 |
- packages: |
|
26 |
- - libmagick++-dev |
... | ... |
@@ -16,3 +16,10 @@ after_success: |
16 | 16 |
- R CMD INSTALL $PKG_TARBALL |
17 | 17 |
- Rscript -e 'covr::coveralls()' |
18 | 18 |
- Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 100)), exclusions = list("R/RcppExports.R"))' |
19 |
+ |
|
20 |
+addons: |
|
21 |
+ apt: |
|
22 |
+ sources: |
|
23 |
+ - sourceline: 'ppa:opencpu/imagemagick' |
|
24 |
+ packages: |
|
25 |
+ - libmagick++-dev |
... | ... |
@@ -3,8 +3,6 @@ cache: packages |
3 | 3 |
sudo: false |
4 | 4 |
warnings_are_errors: false |
5 | 5 |
bioc_required: true |
6 |
-before_install: |
|
7 |
- - Rscript -e 'update.packages(ask = FALSE)' |
|
8 | 6 |
r_build_args: "--no-build-vignettes" |
9 | 7 |
r_check_args: "--no-vignettes --no-build-vignettes --as-cran" |
10 | 8 |
notifications: |
... | ... |
@@ -4,12 +4,6 @@ dist: trusty |
4 | 4 |
sudo: false |
5 | 5 |
warnings_are_errors: false |
6 | 6 |
bioc_required: true |
7 |
-jobs: |
|
8 |
- include: |
|
9 |
- - stage: prepare cache |
|
10 |
- script: true |
|
11 |
- - stage: run |
|
12 |
- script: false |
|
13 | 7 |
before_install: |
14 | 8 |
- Rscript -e 'update.packages(ask = FALSE)' |
15 | 9 |
r_build_args: "--no-build-vignettes" |
... | ... |
@@ -6,10 +6,9 @@ warnings_are_errors: false |
6 | 6 |
bioc_required: true |
7 | 7 |
jobs: |
8 | 8 |
include: |
9 |
- - stage: precache |
|
9 |
+ - stage: prepare cache |
|
10 | 10 |
script: true |
11 | 11 |
- stage: test |
12 |
- test: true |
|
13 | 12 |
before_install: |
14 | 13 |
- Rscript -e 'update.packages(ask = FALSE)' |
15 | 14 |
r_build_args: "--no-build-vignettes" |
... | ... |
@@ -1,7 +1,5 @@ |
1 | 1 |
language: r |
2 | 2 |
cache: packages |
3 |
-r: |
|
4 |
- - devel |
|
5 | 3 |
dist: trusty |
6 | 4 |
sudo: false |
7 | 5 |
warnings_are_errors: false |
... | ... |
@@ -20,4 +18,4 @@ r_github_packages: |
20 | 18 |
after_success: |
21 | 19 |
- R CMD INSTALL $PKG_TARBALL |
22 | 20 |
- Rscript -e 'covr::coveralls()' |
23 |
- - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 40)), exclusions = list("R/RcppExports.R"))' |
|
21 |
+ - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 100)), exclusions = list("R/RcppExports.R"))' |
... | ... |
@@ -10,10 +10,6 @@ before_install: |
10 | 10 |
- Rscript -e 'update.packages(ask = FALSE)' |
11 | 11 |
r_build_args: "--no-build-vignettes" |
12 | 12 |
r_check_args: "--no-vignettes --no-build-vignettes --as-cran" |
13 |
-addons: |
|
14 |
- apt: |
|
15 |
- packages: |
|
16 |
- - libmpfr-dev |
|
17 | 13 |
notifications: |
18 | 14 |
slack: |
19 | 15 |
secure: srjTT9zfEL5rvKPp4ynjxDPPym0TXHXun82du+/thwsJDFtEIfpk311Ta6ylTqFCklaJDz1aoei2Zu6KzVWEQ3UmzzOTaYuLayarNNACN4eqtqQJAP0fZALpvDRfUI94lcOTEp7WjArsqU/nkff5srFpphsfXfkhMryIg0yTCuokjYt7nCoN3dsKcMzrXTk5JET99YPs2Mn3y9+vTKML1nF6hbfGmJ00Utr+Crj5OHCwe5pwSwFjFsuBmgNiKIl+s8egUYdIAbDRLwsuPjXwL2gH76cc+swiDFx7RF/3J+GwDnfa4w/mkFHVoZ+zsDtfvUtW1EpKKf3X1GxXowPC5ycS4HVZAh36R292SQeNjSzqxmzHpId0Y6aLRtk/b6Ppmxdt0U6St9LEEyfQYNaQaIHus21DYlbJ6mXX1MSwNBxyCuvu1+SFqHdui8Nfbu/xorqg7yHvWrvG9jqYVTOdQiLtJVoYhbOUi9EaMo3UBZvimuhRG9QM7czKZTc/XFBGGE9vbh67BzU8BfmXEISj9pzW6OwtMOB99lZ4WG9ir15uTcaQM5uugKjWT1735yUpAb4JWTa1TC9UMZwdBoIfZgpgSK59dUrA2oTScwMACL+S5jWjuO3/a+FQ7QVp5lI1YRn9gstaOEB/53TEekSlfkcLgSz/2lMGQIhsXd75/a4= |
... | ... |
@@ -1,7 +1,14 @@ |
1 | 1 |
language: r |
2 |
+install: |
|
3 |
+ - R -e "0" --args --bootstrap-packrat |
|
4 |
+ - R -e "packrat::restore(restart = FALSE)" |
|
5 |
+cache: |
|
6 |
+ directories: |
|
7 |
+ - $TRAVIS_BUILD_DIR/packrat/src |
|
8 |
+ - $TRAVIS_BUILD_DIR/packrat/lib |
|
9 |
+ packages: true |
|
2 | 10 |
r: |
3 | 11 |
- devel |
4 |
-cache: packages |
|
5 | 12 |
dist: trusty |
6 | 13 |
sudo: false |
7 | 14 |
warnings_are_errors: false |
... | ... |
@@ -24,4 +31,4 @@ r_github_packages: |
24 | 31 |
after_success: |
25 | 32 |
- R CMD INSTALL $PKG_TARBALL |
26 | 33 |
- Rscript -e 'covr::coveralls()' |
27 |
- - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 40)), exclusions = list("R/RcppExports.R"))' |
|
28 | 34 |
\ No newline at end of file |
35 |
+ - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 40)), exclusions = list("R/RcppExports.R"))' |
... | ... |
@@ -24,4 +24,4 @@ r_github_packages: |
24 | 24 |
after_success: |
25 | 25 |
- R CMD INSTALL $PKG_TARBALL |
26 | 26 |
- Rscript -e 'covr::coveralls()' |
27 |
- - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL), exclusions = list("R/RcppExports.R"))' |
|
28 | 27 |
\ No newline at end of file |
28 |
+ - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL, cyclocomp_linter(complexity_limit = 40)), exclusions = list("R/RcppExports.R"))' |
|
29 | 29 |
\ No newline at end of file |
... | ... |
@@ -24,4 +24,4 @@ r_github_packages: |
24 | 24 |
after_success: |
25 | 25 |
- R CMD INSTALL $PKG_TARBALL |
26 | 26 |
- Rscript -e 'covr::coveralls()' |
27 |
- - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL))' |
|
28 | 27 |
\ No newline at end of file |
28 |
+ - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL), exclusions = list("R/RcppExports.R"))' |
|
29 | 29 |
\ No newline at end of file |
... | ... |
@@ -20,5 +20,8 @@ notifications: |
20 | 20 |
|
21 | 21 |
r_github_packages: |
22 | 22 |
- r-lib/covr |
23 |
+ - jimhester/lintr |
|
23 | 24 |
after_success: |
25 |
+ - R CMD INSTALL $PKG_TARBALL |
|
24 | 26 |
- Rscript -e 'covr::coveralls()' |
27 |
+ - Rscript -e 'library(lintr); lint_package(linters = with_defaults(object_length_linter(length = 40L), object_name_linter = NULL, commented_code_linter = NULL, object_usage_linter = NULL))' |
|
25 | 28 |
\ No newline at end of file |
Former-commit-id: 56ccd0901a120679364ba2e1669f9024b555d866
... | ... |
@@ -2,12 +2,12 @@ language: r |
2 | 2 |
cache: packages |
3 | 3 |
dist: trusty |
4 | 4 |
sudo: false |
5 |
-warnings_are_errors: true |
|
5 |
+warnings_are_errors: false |
|
6 | 6 |
bioc_required: true |
7 | 7 |
before_install: |
8 | 8 |
- Rscript -e 'update.packages(ask = FALSE)' |
9 | 9 |
r_build_args: "--no-build-vignettes" |
10 |
-r_check_args: "--no-build-vignettes --as-cran" |
|
10 |
+r_check_args: "--no-vignettes --no-build-vignettes --as-cran" |
|
11 | 11 |
addons: |
12 | 12 |
apt: |
13 | 13 |
packages: |
Former-commit-id: c85d3c076c4bf9046a0cffc0fdc1dc7c97a8a6e5
... | ... |
@@ -16,7 +16,7 @@ notifications: |
16 | 16 |
slack: |
17 | 17 |
secure: 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 |
18 | 18 |
|
19 |
-#r_github_packages: |
|
20 |
-# - r-lib/covr |
|
21 |
-#after_success: |
|
22 |
-# - Rscript -e 'covr::coveralls()' |
|
19 |
+r_github_packages: |
|
20 |
+ - r-lib/covr |
|
21 |
+after_success: |
|
22 |
+ - Rscript -e 'covr::coveralls()' |
Former-commit-id: 8816731967dddacbdffffd3f9139a7a4d29d1ad4
... | ... |
@@ -16,7 +16,7 @@ notifications: |
16 | 16 |
slack: |
17 | 17 |
secure: 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 |
18 | 18 |
|
19 |
-r_github_packages: |
|
20 |
- - r-lib/covr |
|
21 |
-after_success: |
|
22 |
- - Rscript -e 'covr::coveralls()' |
|
19 |
+#r_github_packages: |
|
20 |
+# - r-lib/covr |
|
21 |
+#after_success: |
|
22 |
+# - Rscript -e 'covr::coveralls()' |
Former-commit-id: 13cd4a49bbefdf3354bd423b90b854b9c8aa1157
... | ... |
@@ -15,3 +15,8 @@ addons: |
15 | 15 |
notifications: |
16 | 16 |
slack: |
17 | 17 |
secure: 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 |
18 |
+ |
|
19 |
+r_github_packages: |
|
20 |
+ - r-lib/covr |
|
21 |
+after_success: |
|
22 |
+ - Rscript -e 'covr::coveralls()' |
* Fix parameter checking code in celda wrapper.
* Removing deprecated parameter. Refactoring test.
* Updating documentation.
* Add SummarizedExperiment to Depends.
* Added _ prefix to C function names. Add data.table to namespace
Former-commit-id: f2efa67d604e95f3250f7ec6c4023f944cdcd859
... | ... |
@@ -5,7 +5,7 @@ sudo: false |
5 | 5 |
warnings_are_errors: true |
6 | 6 |
bioc_required: true |
7 | 7 |
before_install: |
8 |
-- Rscript -e 'update.packages(ask = FALSE)' |
|
8 |
+ - Rscript -e 'update.packages(ask = FALSE)' |
|
9 | 9 |
r_build_args: "--no-build-vignettes" |
10 | 10 |
r_check_args: "--no-build-vignettes --as-cran" |
11 | 11 |
addons: |
Former-commit-id: 61fae36348b6f56a7b8741b4d16dbd4e24b8d9e1
... | ... |
@@ -11,4 +11,7 @@ r_check_args: "--no-build-vignettes --as-cran" |
11 | 11 |
addons: |
12 | 12 |
apt: |
13 | 13 |
packages: |
14 |
- - libmpfr-dev |
|
15 | 14 |
\ No newline at end of file |
15 |
+ - libmpfr-dev |
|
16 |
+notifications: |
|
17 |
+ slack: |
|
18 |
+ secure: srjTT9zfEL5rvKPp4ynjxDPPym0TXHXun82du+/thwsJDFtEIfpk311Ta6ylTqFCklaJDz1aoei2Zu6KzVWEQ3UmzzOTaYuLayarNNACN4eqtqQJAP0fZALpvDRfUI94lcOTEp7WjArsqU/nkff5srFpphsfXfkhMryIg0yTCuokjYt7nCoN3dsKcMzrXTk5JET99YPs2Mn3y9+vTKML1nF6hbfGmJ00Utr+Crj5OHCwe5pwSwFjFsuBmgNiKIl+s8egUYdIAbDRLwsuPjXwL2gH76cc+swiDFx7RF/3J+GwDnfa4w/mkFHVoZ+zsDtfvUtW1EpKKf3X1GxXowPC5ycS4HVZAh36R292SQeNjSzqxmzHpId0Y6aLRtk/b6Ppmxdt0U6St9LEEyfQYNaQaIHus21DYlbJ6mXX1MSwNBxyCuvu1+SFqHdui8Nfbu/xorqg7yHvWrvG9jqYVTOdQiLtJVoYhbOUi9EaMo3UBZvimuhRG9QM7czKZTc/XFBGGE9vbh67BzU8BfmXEISj9pzW6OwtMOB99lZ4WG9ir15uTcaQM5uugKjWT1735yUpAb4JWTa1TC9UMZwdBoIfZgpgSK59dUrA2oTScwMACL+S5jWjuO3/a+FQ7QVp5lI1YRn9gstaOEB/53TEekSlfkcLgSz/2lMGQIhsXd75/a4= |
Former-commit-id: 1c1696a85d1c6d909a95ad100ba4f0c46d0ef29c
Former-commit-id: e25aca009b77d37a4649c9f57f4030bfebf5e0b1
Former-commit-id: 346147fe79e79ee71961e9cf790ad46f87e3d848