Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

R: updates for packages #24888

Merged
merged 19 commits into from
Jul 15, 2024
Merged

R: updates for packages #24888

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
19 commits
Select commit Hold shift + click to select a range
257ecdd
R-BayesianNetwork: update to 0.3.2
barracuda156 Jul 12, 2024
afed5fc
R-ClusBoot: update to 1.2.2
barracuda156 Jul 12, 2024
4294bca
R-crew.cluster: update to 0.3.2
barracuda156 Jul 12, 2024
c98cd04
R-datawizard: update to 0.12.0
barracuda156 Jul 12, 2024
8ee8d68
R-disaggR: update to 1.0.5.3
barracuda156 Jul 12, 2024
298be63
R-dosearch: update to 1.0.10
barracuda156 Jul 12, 2024
bcaef8c
R-Epi: update to 2.52
barracuda156 Jul 12, 2024
1b64788
R-exams: update to 2.4-1
barracuda156 Jul 12, 2024
2af0bb2
R-ipumsr: update to 0.8.0
barracuda156 Jul 12, 2024
ca24261
R-leidenbase: update to 0.1.30
barracuda156 Jul 12, 2024
1db34bd
R-ltable: update to 2.0.4
barracuda156 Jul 12, 2024
45b798f
R-mstate: update to 0.3.3
barracuda156 Jul 12, 2024
d0b5121
R-multilevelcoda: update to 1.3.0.2
barracuda156 Jul 12, 2024
0f3ce2c
R-RCurl: update to 1.98-1.16
barracuda156 Jul 12, 2024
f10a066
R-rebmix: update to 2.16.0
barracuda156 Jul 12, 2024
2377d5f
R-report: update to 0.5.9
barracuda156 Jul 12, 2024
5e64bf8
R-rmsb: update to 1.1-1
barracuda156 Jul 12, 2024
00afa14
R-samc: update to 3.3.0
barracuda156 Jul 12, 2024
8eee47b
R-surveil: update to 0.3.0
barracuda156 Jul 12, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
18 changes: 8 additions & 10 deletions R/R-BayesianNetwork/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,19 +4,19 @@ PortSystem 1.0
PortGroup R 1.0

# GitHub version lags behind.
R.setup cran paulgovan BayesianNetwork 0.3
revision 1
R.setup cran paulgovan BayesianNetwork 0.3.2
revision 0
categories-append math
platforms {darwin any}
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license {Apache-1.1 Apache-2}
license Apache
Copy link
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

from upstream's GitHub it appears the license is Apache-2

Copy link
Contributor Author

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

https://github.com/paulgovan/BayesianNetwork/blob/ba31a3b844f0229542efa5a5f948fa612b4e91d0/DESCRIPTION#L12

Copy link
Contributor

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

well, how did you decide which was is correct if there is a discrepancy between that file and the LICENSE file? It's either Apache, which for MacPorts means version 1 or Apache-2. Please clarify with upstream

Copy link
Contributor Author

Choose a reason for hiding this comment

The reason will be displayed to describe this comment to others. Learn more.

I take DESCRIPTION as a statement for official purposes, since that file is parsed by CRAN, and license there is set accordingly.
But this is not something I really care about. I am totally okay setting it to Apache-2.

description Bayesian network modelling and analysis
long_description {*}${description}
homepage https://paulgovan.github.io/BayesianNetwork
checksums rmd160 38cc154b4592e8b23940be458081ab971656a497 \
sha256 b744d1ed8eaf8befeec7d59179f8d6f634a6e9baf003edd2695e698d5515db5b \
size 1684198
checksums rmd160 34bc3ee7b3de6e64999caea4168d358718918992 \
sha256 4122d43bc139dc036113fd3107ee54b32d469389742216a5d3c06cb1a27c15c8 \
size 1425949
supported_archs noarch
platforms {darwin any}

depends_lib-append port:R-bnlearn \
port:R-heatmaply \
Expand All @@ -26,9 +26,7 @@ depends_lib-append port:R-bnlearn \
port:R-shiny \
port:R-shinyAce \
port:R-shinydashboard \
port:R-shinytest \
port:R-shinyWidgets \
port:R-testthat
port:R-shinyWidgets

depends_test-append port:R-knitr \
port:R-rmarkdown \
Expand Down
12 changes: 6 additions & 6 deletions R/R-ClusBoot/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,18 +3,18 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran slubbe ClusBoot 1.2.1
revision 1
R.setup cran slubbe ClusBoot 1.2.2
revision 0
categories-append math
platforms {darwin any}
maintainers nomaintainer
license MIT
description Bootstrap a clustering solution to establish the stability of the clusters
long_description {*}${description}
checksums rmd160 463c0a947ae76f1d6c9db2a8271ac6b650f93e95 \
sha256 a14eb2966924cb995a48cf5705303c452967149872d4bbf60974d38e3481ac0f \
size 14220
checksums rmd160 f4505b0b3535aa6f2278637871c20379f980b0ae \
sha256 dc4d66030535cc1aeed9ae2856ff65310437befe35037e9a69e6039109af6321 \
size 14015
supported_archs noarch
platforms {darwin any}

depends_test-append port:R-fpc \
port:R-testthat
Expand Down
8 changes: 4 additions & 4 deletions R/R-Epi/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,16 +3,16 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran bendixcarstensen Epi 2.51
R.setup cran bendixcarstensen Epi 2.52
revision 0
maintainers nomaintainer
license GPL-2
description Statistical analysis in epidemiology
long_description {*}${description}
homepage https://bendixcarstensen.com/Epi
checksums rmd160 a607a7db91f67d8517597bb74f01d0dacac969f3 \
sha256 33464decffb05137bd6c9f6ce9b3f0fca407428f2bcb70366d98261a04dc3955 \
size 3171110
checksums rmd160 73465a1285e8ae711c44f4e4f40b2e97e571d363 \
sha256 5e432c40a7e42021275672c8a4592c6bc67c4275b3d9ae61c3e21fc4c60acf41 \
size 3168621

depends_lib-append port:R-cmprsk \
port:R-data.table \
Expand Down
10 changes: 5 additions & 5 deletions R/R-RCurl/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,16 +3,16 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran cran RCurl 1.98-1.14
revision 1
R.setup cran cran RCurl 1.98-1.16
revision 0
categories-append devel net
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license BSD
description General network client interface for R
long_description {*}${description}
checksums rmd160 41c7685b3190d38bbc358e3513d28b066b327609 \
sha256 eead278694471dfa9bd2f256d229eebed782e71dc1c734fb457ec35377f303cf \
size 731307
checksums rmd160 f40f882761dbcf451ceb8d9abdc2e3542b0db519 \
sha256 1a8dc40e10593617348071c6265cc7fac22e26271564206b308a3badfc6c0da7 \
size 728943

depends_lib-append path:lib/pkgconfig/icu-uc.pc:icu \
port:curl \
Expand Down
12 changes: 6 additions & 6 deletions R/R-crew.cluster/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,20 +3,20 @@
PortSystem 1.0
PortGroup R 1.0

R.setup github wlandau crew.cluster 0.3.1
R.setup github wlandau crew.cluster 0.3.2
revision 0
categories-append parallel
platforms {darwin any}
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license MIT
description Crew launcher plugins for traditional high-performance computing clusters
long_description {*}${description}
homepage https://wlandau.github.io/crew.cluster
checksums rmd160 dc83aae044cc61331086268939eb1b94a107ba58 \
sha256 2297afcb0b7a2b65506316947e33d43b6bcc1055d2d8c4226154159cfc3e9756 \
size 297891
supported_archs noarch
platforms {darwin any}
checksums rmd160 4d51d25400d03f6c10012ce2f30ddb3c79fdf648 \
sha256 7434b29a3b4c668223bc6b00aeba77126466b01ad9f933a6c48696635b56e75e \
size 298145
github.tarball_from archive
supported_archs noarch

depends_lib-append port:R-crew \
port:R-lifecycle \
Expand Down
8 changes: 4 additions & 4 deletions R/R-datawizard/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,17 +4,17 @@ PortSystem 1.0
PortGroup R 1.0

# GitHub version lags behind.
R.setup cran easystats datawizard 0.11.0
R.setup cran easystats datawizard 0.12.0
revision 0
platforms {darwin any}
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license GPL-3+
description Easy data wrangling and statistical transformations
long_description {*}${description}
homepage https://easystats.github.io/datawizard
checksums rmd160 0c830fa3bc4d9e053955aad13eda838d3fea5975 \
sha256 933470bcddb0567fd4192218caeb79393e0203578422aed3015ff74e9d99f031 \
size 558724
checksums rmd160 aa635ddf9fc360406f6eecf50e5d510760daf02b \
sha256 c258c4cd12970b44bec4261941497564c128baa7047530bd080f4176d97c9fb8 \
size 563855
supported_archs noarch

depends_lib-append port:R-insight
Expand Down
13 changes: 7 additions & 6 deletions R/R-disaggR/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,19 +3,20 @@
PortSystem 1.0
PortGroup R 1.0

R.setup github InseeFr disaggR 1.0.5.2 v
revision 1
R.setup github InseeFr disaggR 1.0.5.3 v
revision 0
categories-append math
platforms {darwin any}
maintainers nomaintainer
license MIT
description Two-steps benchmarks for time series disaggregation
long_description {*}${description}
homepage https://inseefr.github.io/disaggR
checksums rmd160 84b8ae187e306a253e443466c32afdaa0ea8ef64 \
sha256 00aa3db4bd2f8fa95fdcdaaaad0601935bb3e257384a7854f0566552b1cd7ea4 \
size 970266
checksums rmd160 75c3c795738f4da234a96e570a6a21390f3b68e6 \
sha256 310e192902fb925224face2c9846b465bc593079c0e0fed431fefa9282da7137 \
size 1370144
github.tarball_from archive
supported_archs noarch
platforms {darwin any}

depends_lib-append port:R-RColorBrewer

Expand Down
27 changes: 21 additions & 6 deletions R/R-dosearch/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,15 +3,30 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran santtuth dosearch 1.0.8
revision 1
R.setup cran santtuth dosearch 1.0.10
revision 0
categories-append math
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license GPL-2+
license GPL-3+
description Causal effect identification from multiple incomplete data sources
long_description {*}${description}
checksums rmd160 448d8847fa967e222a8a909049a5bdf3616d13ec \
sha256 06dcda5343c00a14bf355e994fbcb18cfe3a044af4c0a35acad565ab0798d5cb \
size 70393
homepage https://github.com/santikka/dosearch
checksums rmd160 a841c52eeb2e6fe23c2e33f309deb700fe605788 \
sha256 b01ba2e5172daf108664d795982ca4f22bed28826efc34b0ebab093ac261f154 \
size 332014

depends_lib-append port:R-Rcpp

# We drop deps which pull in V8.
depends_test-append port:R-covr \
port:R-DiagrammeR \
port:R-igraph \
port:R-knitr \
port:R-mockr \
port:R-rmarkdown \
port:R-testthat

test.run yes
# Vignettes rely on R-dagitty, which needs V8:
# https://github.com/jtextor/dagitty/issues/81
test.args-append --ignore-vignettes
13 changes: 7 additions & 6 deletions R/R-exams/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,17 +3,17 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran cran exams 2.4-0
revision 1
R.setup cran r-project exams 2.4-1
revision 0
platforms {darwin any}
maintainers nomaintainer
license {GPL-2 GPL-3}
description Automatic generation of exams based on exercises in Markdown or LaTeX format
long_description {*}${description}
checksums rmd160 1f7b0cc2522913a0bc6f508fbda5c80ae15091d6 \
sha256 fb1038a1bcc81e1e49fa0f9ac8dd3103cab1d7a143dbb48987c2387a6228553c \
size 1753396
checksums rmd160 2fb38ebb318994a5a94cea931b9fda3291f1c257 \
sha256 189d154385b2ba68e241def4a9c3bf4195552d03ebc36a531b7dbd3e8590a2d1 \
size 1828192
supported_archs noarch
platforms {darwin any}

depends_lib-append port:R-base64enc \
port:R-knitr \
Expand All @@ -22,6 +22,7 @@ depends_lib-append port:R-base64enc \
depends_test-append port:R-magick \
port:R-openxlsx \
port:R-png \
port:R-qpdf \
port:R-RCurl \
port:R-RJSONIO \
port:R-tinytex \
Expand Down
38 changes: 32 additions & 6 deletions R/R-ipumsr/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,17 +3,18 @@
PortSystem 1.0
PortGroup R 1.0

R.setup github ipums ipumsr 0.7.2 v
revision 1
R.setup github ipums ipumsr 0.8.0 v
revision 0
platforms {darwin any}
maintainers nomaintainer
license MPL-2
description Read IPUMS extract files
long_description {*}${description}
checksums rmd160 fcd6fd2e6e9c7836888fe4a2be07bd66f8df0f0b \
sha256 8a8d34ac800f69efdb4b49369dd52fd53420fc21c538cd6a7087465fb073c659 \
size 4100606
checksums rmd160 b11a20850ddd1591ed8e795e54c5ea015fdeb9d8 \
sha256 b60ffab572a5226f4e83e525fef68c3876f29e05217ebd523b9513cce689b7d2 \
size 4080629
github.tarball_from archive
supported_archs noarch
platforms {darwin any}

depends_lib-append port:R-dplyr \
port:R-haven \
Expand All @@ -29,3 +30,28 @@ depends_lib-append port:R-dplyr \
port:R-tidyselect \
port:R-xml2 \
port:R-zeallot

# Some optional deps are omitted.
depends_test-append port:R-biglm \
port:R-covr \
port:R-crayon \
port:R-DBI \
port:R-dbplyr \
port:R-DT \
port:R-ggplot2 \
port:R-htmltools \
port:R-knitr \
port:R-rmarkdown \
port:R-RSQLite \
port:R-rstudioapi \
port:R-scales \
port:R-sf \
port:R-shiny \
port:R-testthat \
port:R-tidyr \
port:R-vcr \
port:R-withr

test.run yes
# https://github.com/ipums/ipumsr/issues/80
test.args-append --ignore-vignettes
12 changes: 7 additions & 5 deletions R/R-leidenbase/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,16 +4,17 @@ PortSystem 1.0
PortGroup R 1.0

# GitHub version is outdated.
R.setup cran cole-trapnell-lab leidenbase 0.1.27
revision 1
R.setup cran cole-trapnell-lab leidenbase 0.1.30
revision 0
categories-append math
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license GPL-3
description R and C/C++ wrappers to run the Leiden find_partition() function
long_description {*}${description}
checksums rmd160 ccb850cc28b81f075d6e7b00abe60f4437cd732c \
sha256 c3168a68828aacfcf78c6c39415b4771f084c5b5c3c9b2e226dcb8cf909d7b27 \
size 3752608
homepage https://github.com/cole-trapnell-lab/leidenbase
checksums rmd160 8dcd09c1831da573d132471b6a1d2c6e9edc95a5 \
sha256 5415a5a87665fe03dc439c29abb8fd5aed0a536b806e8e12b04fafcdc511e2cb \
size 3755018

depends_lib-append port:glpk \
port:gmp \
Expand All @@ -26,6 +27,7 @@ compilers.setup require_fortran

depends_test-append port:R-knitr \
port:R-rmarkdown \
port:R-pandoc \
port:R-testthat

test.run yes
15 changes: 8 additions & 7 deletions R/R-ltable/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,22 +3,23 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran cran ltable 2.0.3
revision 1
R.setup cran Ocheredko ltable 2.0.4
revision 0
platforms {darwin any}
maintainers nomaintainer
license GPL-2+
description Easy to make (lazy) tables of counts and proportions
long_description Constructs tables of counts and proportions out of data sets \
with possibility to insert tables to Excel, Word, HTML and PDF documents. \
Transforms tables to data suitable for modelling. \
Features Gibbs sampling-based log-linear and power analyses for tabulated data.
checksums rmd160 20981d90402c7fbf4e55df8079ce0d70cdf363ae \
sha256 23970ce87d12a99d987ce31b35cf3d7f4e925242752355498a2c54573bbad226 \
size 723161
checksums rmd160 b9cb9b80dc7cc2519f9d5572bbd9824a6f0919bb \
sha256 1dd9341e7b093f9132a1694891cac1065a8ed4b1fe328cdc59934b597b5d7cfc \
size 941381
supported_archs noarch
platforms {darwin any}

depends_lib-append port:R-clipr
depends_lib-append port:R-clipr \
port:R-nloptr

depends_test-append port:R-knitr

Expand Down
15 changes: 8 additions & 7 deletions R/R-mstate/Portfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -3,17 +3,18 @@
PortSystem 1.0
PortGroup R 1.0

R.setup cran hputter mstate 0.3.2
revision 2
R.setup cran hputter mstate 0.3.3
revision 0
categories-append math
maintainers {@barracuda156 gmail.com:vital.had} openmaintainer
license {GPL-2 GPL-3}
description Data preparation, estimation and prediction in multi-state models
license GPL-2+
description Data preparation, estimation and prediction \
in multi-state models
long_description {*}${description}
homepage https://hputter.github.io/mstate
checksums rmd160 2f9ca0de7d3b6f0d555b713669f8857f57018c9c \
sha256 3c473dff6854e31cdbdaf79f8fe7eaf97119b01a581874a894b283555afe8d14 \
size 967435
checksums rmd160 7e5c6c06b78702c0d88800cb2e05c6853c033943 \
sha256 8533da39c3ebfe6878e18bb30a3ade0f9be309b06e8d95617c308896ae57ae6f \
size 922109

depends_lib-append port:R-data.table \
port:R-RColorBrewer \
Expand Down
Loading