From 4c95a764346454bb1d4389d555afb6440bc55859 Mon Sep 17 00:00:00 2001 From: Emilio Mayorga Date: Mon, 27 Feb 2023 23:36:25 -0800 Subject: [PATCH] R, add several CRAN and conda-forge packages --- r/Dockerfile | 1 + r/conda-linux-64.lock | 19 +++++++++++++------ r/environment.yml | 4 ++++ 3 files changed, 18 insertions(+), 6 deletions(-) diff --git a/r/Dockerfile b/r/Dockerfile index 145d4d3..957e41a 100644 --- a/r/Dockerfile +++ b/r/Dockerfile @@ -76,6 +76,7 @@ ARG MAMBA_DOCKERFILE_ACTIVATE=1 # Install BigelowLab dev R libs # RUN installGithub.R BigelowLab/rasf BigelowLab/ohwobpg # not working on GH but works locally :-/ RUN Rscript -e "remotes::install_cran('assertthat', dependencies=FALSE, upgrade_dependencies=FALSE, upgrade=FALSE)" && \ + Rscript -e "remotes::install_cran('forecast', dependencies=FALSE, upgrade_dependencies=FALSE, upgrade=FALSE)" && \ Rscript -e "remotes::install_cran('ggspatial', dependencies=FALSE, upgrade_dependencies=FALSE, upgrade=FALSE)" && \ Rscript -e "remotes::install_cran('plot.matrix', dependencies=FALSE, upgrade_dependencies=FALSE, upgrade=FALSE)" && \ Rscript -e "remotes::install_cran('isdparser', dependencies=FALSE, upgrade_dependencies=FALSE, upgrade=FALSE)" && \ diff --git a/r/conda-linux-64.lock b/r/conda-linux-64.lock index 6521dda..e316e2d 100644 --- a/r/conda-linux-64.lock +++ b/r/conda-linux-64.lock @@ -1,6 +1,6 @@ # Generated by conda-lock. # platform: linux-64 -# input_hash: 41f13f8023818d09640051e295187db881ced875826f42751636ecd924dccc1a +# input_hash: ba8b1ec3e3e44e77f5479070c79bdf80a9b33413085e90d0f53a32e0faacff13 @EXPLICIT https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2#d7c89558ba9fa0495403155b64376d81 https://conda.anaconda.org/conda-forge/noarch/_r-mutex-1.0.1-anacondar_1.tar.bz2#19f9db5f4f1b7f5ef5f6d67207f25f38 @@ -104,7 +104,7 @@ https://conda.anaconda.org/conda-forge/linux-64/gxx_impl_linux-64-12.2.0-hcc96c0 https://conda.anaconda.org/conda-forge/linux-64/hdf4-4.2.15-h9772cbc_5.tar.bz2#ee08782aff2ff9b3291c967fa6bc7336 https://conda.anaconda.org/conda-forge/linux-64/krb5-1.20.1-h81ceb04_0.conda#89a41adce7106749573d883b2f657d78 https://conda.anaconda.org/conda-forge/linux-64/libcblas-3.9.0-16_linux64_openblas.tar.bz2#20bae26d0a1db73f758fc3754cab4719 -https://conda.anaconda.org/conda-forge/linux-64/libgit2-1.5.1-h1f77430_0.conda#16802fd0c80290248ea79a570bd83b95 +https://conda.anaconda.org/conda-forge/linux-64/libgit2-1.6.1-h1f77430_0.conda#678a120a7d1e1ea50d151b31047f0a28 https://conda.anaconda.org/conda-forge/linux-64/libglib-2.74.1-h606061b_1.tar.bz2#ed5349aa96776e00b34eccecf4a948fe https://conda.anaconda.org/conda-forge/linux-64/liblapack-3.9.0-16_linux64_openblas.tar.bz2#955d993f41f9354bf753d29864ea20ad https://conda.anaconda.org/conda-forge/linux-64/libtiff-4.5.0-h6adf6a1_2.conda#2e648a34072eb39d7c4fc2a9981c5f0c @@ -168,7 +168,7 @@ https://conda.anaconda.org/conda-forge/noarch/pycparser-2.21-pyhd8ed1ab_0.tar.bz https://conda.anaconda.org/conda-forge/noarch/pyjwt-2.6.0-pyhd8ed1ab_0.tar.bz2#56d08bbebf5b3719ca2b1688fcfd98a4 https://conda.anaconda.org/conda-forge/linux-64/pyrsistent-0.19.3-py39h72bdee0_0.conda#659013ef00dcd1751bfd26d894f73857 https://conda.anaconda.org/conda-forge/linux-64/pysocks-1.7.1-py39hf3d152e_5.tar.bz2#d34b97a2386932b97c7cb80916a673e7 -https://conda.anaconda.org/conda-forge/noarch/python-fastjsonschema-2.16.2-pyhd8ed1ab_0.tar.bz2#5fe4b6002f505336734ce92961b3e6a0 +https://conda.anaconda.org/conda-forge/noarch/python-fastjsonschema-2.16.3-pyhd8ed1ab_0.conda#7aa330a4d88b7ab891a42c39d5d2e742 https://conda.anaconda.org/conda-forge/noarch/python-json-logger-2.0.7-pyhd8ed1ab_0.conda#a61bf9ec79426938ff785eb69dbb1960 https://conda.anaconda.org/conda-forge/noarch/pytz-2022.7.1-pyhd8ed1ab_0.conda#f59d49a7b464901cf714b9e7984d01a2 https://conda.anaconda.org/conda-forge/linux-64/pyyaml-6.0-py39hb9d737c_5.tar.bz2#ef9db3c38ae7275f6b14491cfe61a248 @@ -197,7 +197,7 @@ https://conda.anaconda.org/conda-forge/linux-64/xorg-libxext-1.3.4-h0b41bf4_2.co https://conda.anaconda.org/conda-forge/linux-64/xorg-libxrender-0.9.10-h7f98852_1003.tar.bz2#f59c1242cc1dd93e72c2ee2b360979eb https://conda.anaconda.org/conda-forge/linux-64/xorg-libxt-1.2.1-h7f98852_2.tar.bz2#60d6eec5273f1c9af096c10c268912e3 https://conda.anaconda.org/conda-forge/linux-64/y-py-0.5.9-py39h50f1755_0.conda#f9225a09f5cb046cfdecd2a54448d4c0 -https://conda.anaconda.org/conda-forge/noarch/zipp-3.14.0-pyhd8ed1ab_0.conda#01ea04980fa39d7b6dbdd6c67016d177 +https://conda.anaconda.org/conda-forge/noarch/zipp-3.15.0-pyhd8ed1ab_0.conda#13018819ca8f5b7cc675a8faf1f5fedf https://conda.anaconda.org/conda-forge/noarch/aiosignal-1.3.1-pyhd8ed1ab_0.tar.bz2#d1e1eb7e21a9e2c74279d87dafb68156 https://conda.anaconda.org/conda-forge/noarch/anyio-3.6.2-pyhd8ed1ab_0.tar.bz2#8ada050fa88f26916fc1e76e368a49fd https://conda.anaconda.org/conda-forge/noarch/asttokens-2.2.1-pyhd8ed1ab_0.conda#bf7f54dd0f25c3f06ecb82a07341841a @@ -315,6 +315,7 @@ https://conda.anaconda.org/conda-forge/linux-64/r-fastmap-1.1.1-r42h38f115c_0.co https://conda.anaconda.org/conda-forge/linux-64/r-fnn-1.1.3.1-r42h7525677_1.tar.bz2#9844ae447dc2fa4888a3c42fbd87baee https://conda.anaconda.org/conda-forge/linux-64/r-foreign-0.8_84-r42h133d619_0.conda#76bc3df61cbef5f96593092371f69ad2 https://conda.anaconda.org/conda-forge/noarch/r-formula-1.2_5-r42hc72bb7e_0.conda#c3b9ff74781091e91bce2d6ae260cac7 +https://conda.anaconda.org/conda-forge/linux-64/r-fracdiff-1.5_2-r42h64d53c3_0.tar.bz2#5ef3f26eebfc8ac63860c8d4cfd5a4d2 https://conda.anaconda.org/conda-forge/linux-64/r-fs-1.6.1-r42h38f115c_0.conda#36adbeb6a2cee4773067a36c09dab95c https://conda.anaconda.org/conda-forge/noarch/r-generics-0.1.3-r42hc72bb7e_1.tar.bz2#d008373b48b8284492dfb2f81cdfaf82 https://conda.anaconda.org/conda-forge/noarch/r-gitcreds-0.1.2-r42hc72bb7e_1.tar.bz2#b7ea8c1ab89aae5d77a30b78f74d394c @@ -356,6 +357,7 @@ https://conda.anaconda.org/conda-forge/noarch/r-praise-1.0.0-r42hc72bb7e_1006.ta https://conda.anaconda.org/conda-forge/noarch/r-presenceabsence-1.1.11-r42hc72bb7e_0.conda#e93fbffb6ecf670e1a9f5c117157f85d https://conda.anaconda.org/conda-forge/linux-64/r-proxy-0.4_27-r42h06615bd_1.tar.bz2#cefcfb07314766f3c743b99fd9d6c355 https://conda.anaconda.org/conda-forge/linux-64/r-ps-1.7.2-r42h06615bd_0.tar.bz2#3ee92bed3751c1c81205fe8c08ac4dac +https://conda.anaconda.org/conda-forge/linux-64/r-quadprog-1.5_8-r42hd009a43_4.tar.bz2#9edae583634924ce57d8f2b71c5d2e80 https://conda.anaconda.org/conda-forge/noarch/r-r.methodss3-1.8.2-r42hc72bb7e_1.tar.bz2#7f771287adb5521c3cab7cd773dd6f10 https://conda.anaconda.org/conda-forge/noarch/r-r6-2.5.1-r42hc72bb7e_1.tar.bz2#31feba961dbabe1897d50c4cbb50b383 https://conda.anaconda.org/conda-forge/linux-64/r-randomforest-4.7_1.1-r42h8da6f51_1.tar.bz2#77a25f6ef1ea57413671736d5eee287b @@ -472,6 +474,7 @@ https://conda.anaconda.org/conda-forge/noarch/r-here-1.0.1-r42hc72bb7e_1.tar.bz2 https://conda.anaconda.org/conda-forge/linux-64/r-htmltools-0.5.4-r42h38f115c_0.conda#f0ae9abca8407f43dff6498e236cf8f9 https://conda.anaconda.org/conda-forge/linux-64/r-igraph-1.4.1-r42h65ed38e_0.conda#46feb8c1f008c187193e011667b25373 https://conda.anaconda.org/conda-forge/noarch/r-knitr-1.42-r42hc72bb7e_1.conda#e96f0cce33946235c1ce6c9002e1464c +https://conda.anaconda.org/conda-forge/linux-64/r-lmtest-0.9_40-r42h8da6f51_1.tar.bz2#b1ece4db48ca0c34174b9ab82b7c23a7 https://conda.anaconda.org/conda-forge/linux-64/r-lubridate-1.9.2-r42h133d619_1.conda#67abde15ac058f7b817635016d7867d6 https://conda.anaconda.org/conda-forge/linux-64/r-maptools-1.1_6-r42h133d619_0.conda#bd8dbf7e9a4fc8d167b52f39449936b9 https://conda.anaconda.org/conda-forge/linux-64/r-mda-0.5_3-r42h8da6f51_1.tar.bz2#d7960fee2dd2a60d04fa06792a455744 @@ -494,6 +497,7 @@ https://conda.anaconda.org/conda-forge/linux-64/r-sfheaders-0.4.0-r42h7525677_1. https://conda.anaconda.org/conda-forge/linux-64/r-survival-3.5_3-r42h133d619_0.conda#1569ea216ba2bbfa8c10e735c38a33e9 https://conda.anaconda.org/conda-forge/linux-64/r-svglite-2.1.1-r42he8f5e61_0.conda#a1ba56a80e51973b7e3d65e8c4f2e903 https://conda.anaconda.org/conda-forge/linux-64/r-textshaping-0.3.6-r42hbb20487_4.conda#7e4442f8d97d97532df643d67444c183 +https://conda.anaconda.org/conda-forge/linux-64/r-urca-1.3_3-r42h8da6f51_0.tar.bz2#706db7a400b33d6c45ebc7751789e56e https://conda.anaconda.org/conda-forge/noarch/r-urlchecker-1.0.1-r42hc72bb7e_1.tar.bz2#30c400f784e808557bdacfd12990f8e9 https://conda.anaconda.org/conda-forge/linux-64/r-urltools-1.7.3-r42h7525677_3.tar.bz2#de791762c1eb42723d2314b2ba7fd318 https://conda.anaconda.org/conda-forge/linux-64/r-vctrs-0.5.2-r42h38f115c_0.conda#37bf397b42f490ad92ca6ac4efe272b8 @@ -538,6 +542,7 @@ https://conda.anaconda.org/conda-forge/linux-64/r-satellite-1.0.4-r42h7525677_1. https://conda.anaconda.org/conda-forge/noarch/r-spacetime-1.2_8-r42hc72bb7e_1.tar.bz2#3e5cf89e5cb506dc136b973191bdda20 https://conda.anaconda.org/conda-forge/noarch/r-stringr-1.5.0-r42h785f33e_0.conda#5eaeafbfe340886a30863322edf82b5c https://conda.anaconda.org/conda-forge/linux-64/r-tidyselect-1.2.0-r42hc72bb7e_0.tar.bz2#7dac29680db11a93de7a87c146b905af +https://conda.anaconda.org/conda-forge/linux-64/r-ttr-0.24.3-r42h06615bd_1.tar.bz2#ee04695dcc8b39927c90d63308f1b28d https://conda.anaconda.org/conda-forge/linux-64/r-vegan-2.6_4-r42hb20cf53_0.conda#b2aa6a3daeee9a238704e482a5110f06 https://conda.anaconda.org/conda-forge/noarch/r-webshot-0.5.4-r42hc72bb7e_1.tar.bz2#5de5ff6bc25704fde50b1b4b89fc229b https://conda.anaconda.org/conda-forge/noarch/jupyter-rsession-proxy-2.1.0-pyhd8ed1ab_0.tar.bz2#bc9f42b4027c982b0076921df39d4a6d @@ -546,7 +551,7 @@ https://conda.anaconda.org/conda-forge/noarch/nbclassic-0.5.2-pyhd8ed1ab_0.conda https://conda.anaconda.org/conda-forge/linux-64/r-binman-0.1.3-r42hc72bb7e_1.tar.bz2#593bb577534bc92d91e3516417ef55ee https://conda.anaconda.org/conda-forge/noarch/r-bslib-0.4.2-r42hc72bb7e_0.conda#3e93807b405dd476cd230f84fb3050db https://conda.anaconda.org/conda-forge/noarch/r-gargle-1.3.0-r42h785f33e_0.conda#a4881e4dce3f17e47a3b39f763882548 -https://conda.anaconda.org/conda-forge/linux-64/r-gert-1.9.2-r42hf3f2ec2_0.conda#b1e418a5e9d0efe79e8b4de086f5c191 +https://conda.anaconda.org/conda-forge/linux-64/r-gert-1.9.2-r42h492061e_1.conda#721bc4e39978d75923c5911c3d4bb01d https://conda.anaconda.org/conda-forge/noarch/r-gh-1.4.0-r42hc72bb7e_0.conda#6db81c135ecd1a6946439b72a6507db3 https://conda.anaconda.org/conda-forge/noarch/r-httpcache-1.2.0-r42hc72bb7e_1.tar.bz2#9ae8668d7d1f97331193fd0aae7c0e62 https://conda.anaconda.org/conda-forge/noarch/r-latticeextra-0.6_30-r42hc72bb7e_1.tar.bz2#1079e35b2a8f60b9d4138c736ec18425 @@ -554,6 +559,7 @@ https://conda.anaconda.org/conda-forge/noarch/r-lava-1.7.2-r42hc72bb7e_0.conda#3 https://conda.anaconda.org/conda-forge/noarch/r-maxnet-0.1.4-r42hc72bb7e_1.tar.bz2#4193c9dc836cc01d1f3a63700dae39b2 https://conda.anaconda.org/conda-forge/noarch/r-prettymapr-0.2.4-r42hc72bb7e_1.tar.bz2#b08d9d6fb70c6b6ba10b0004afa64707 https://conda.anaconda.org/conda-forge/noarch/r-progress-1.2.2-r42hc72bb7e_3.tar.bz2#d56bcec1d57443abfede702c22067855 +https://conda.anaconda.org/conda-forge/noarch/r-quantmod-0.4.20-r42hc72bb7e_1.tar.bz2#76d21956de647c0ef364aa4cebd2c98f https://conda.anaconda.org/conda-forge/noarch/r-rcmdcheck-1.4.0-r42h785f33e_1.tar.bz2#a5c0bdb67cc09209c59b48eec1acf290 https://conda.anaconda.org/conda-forge/noarch/r-repr-1.1.6-r42h785f33e_0.conda#3737bcd62843ebc9e11388d37b4028bd https://conda.anaconda.org/conda-forge/linux-64/r-reshape2-1.4.4-r42h7525677_2.tar.bz2#5eb052fcec53b427d4554afa46912b52 @@ -585,6 +591,7 @@ https://conda.anaconda.org/conda-forge/noarch/r-rvest-1.0.3-r42hc72bb7e_1.tar.bz https://conda.anaconda.org/conda-forge/noarch/r-sftime-0.2_0-r42hc72bb7e_0.tar.bz2#47d553c8e5756df80380de61ccb01954 https://conda.anaconda.org/conda-forge/noarch/r-shiny-1.7.4-r42h785f33e_0.conda#cf46922ae52ec79f2c5dcc9c65960312 https://conda.anaconda.org/conda-forge/noarch/r-tensorflow-2.11.0-r42hc72bb7e_1.conda#c7c35d8b1c2035c47b9279844a0b5895 +https://conda.anaconda.org/conda-forge/linux-64/r-tseries-0.10_53-r42h0b340dd_0.conda#b0507013392f42cae47241455276f8b1 https://conda.anaconda.org/conda-forge/noarch/r-usethis-2.1.6-r42hc72bb7e_1.tar.bz2#5358b89d0ca17581a3fc1098c208984f https://conda.anaconda.org/conda-forge/linux-64/r-vroom-1.6.1-r42h38f115c_0.conda#3aaa9a3bda4188c4c2cde58c4354e06b https://conda.anaconda.org/conda-forge/linux-64/r-wdman-0.2.6-r42hc72bb7e_1.tar.bz2#0945a4bf008f926fc3d9610b795376b6 @@ -592,7 +599,6 @@ https://conda.anaconda.org/conda-forge/noarch/jupyterlab-3.6.1-pyhd8ed1ab_0.cond https://conda.anaconda.org/conda-forge/noarch/nbgitpuller-1.1.1-pyhd8ed1ab_0.tar.bz2#a2c72cf8c5fb4cd269bff97e9bf196e8 https://conda.anaconda.org/conda-forge/noarch/r-biomod2-4.2_2-r42hc72bb7e_0.conda#4301bba4223addaf64fa0c63e7a6d348 https://conda.anaconda.org/conda-forge/noarch/r-cowplot-1.1.1-r42hc72bb7e_1.tar.bz2#aeff9827393b7225a5f688f489341840 -https://conda.anaconda.org/conda-forge/noarch/r-dbplyr-2.3.0-r42hc72bb7e_0.conda#c51795b067c1cd13c32b512eb1b13711 https://conda.anaconda.org/conda-forge/noarch/r-dtplyr-1.3.0-r42hc72bb7e_0.conda#bf7ffecd43a402b6f2e013884328caaa https://conda.anaconda.org/conda-forge/noarch/r-googlesheets4-1.0.1-r42h785f33e_1.tar.bz2#d10dcdb6b3c2797b7f44b948dbb9e820 https://conda.anaconda.org/conda-forge/noarch/r-htmlwidgets-1.6.1-r42hc72bb7e_0.conda#0aec2cc4c41792604194d4545ff1315b @@ -617,6 +623,7 @@ https://conda.anaconda.org/conda-forge/noarch/r-xaringan-0.28-r42hc72bb7e_0.cond https://conda.anaconda.org/conda-forge/noarch/dask-labextension-6.0.0-pyhd8ed1ab_0.tar.bz2#32a0ba2d4b9ed598d90463d0032aace3 https://conda.anaconda.org/conda-forge/noarch/jupyterhub-singleuser-3.1.1-pyh2a2186d_0.conda#6d0a3394efe9ff7c0ad1ed03a6ca3720 https://conda.anaconda.org/conda-forge/noarch/r-broom-1.0.3-r42hc72bb7e_0.conda#d7d739609a1aca2256b5d648d831e384 +https://conda.anaconda.org/conda-forge/noarch/r-dbplyr-2.3.1-r42hc72bb7e_0.conda#c5477ab0dd1b1c8f4c14468e320b896e https://conda.anaconda.org/conda-forge/linux-64/r-fields-14.1-r42hac0b197_1.conda#2a4b23e5e1a3bc4b280101a32c13ebbb https://conda.anaconda.org/conda-forge/linux-64/r-gstat-2.1_0-r42h06615bd_0.tar.bz2#40b07615a3406fe0895983fd7c5b809b https://conda.anaconda.org/conda-forge/linux-64/r-haven-2.5.1-r42h7525677_0.tar.bz2#e4f07a451fcbf395759390452d24c7c2 diff --git a/r/environment.yml b/r/environment.yml index 0ce002a..90d6ca4 100644 --- a/r/environment.yml +++ b/r/environment.yml @@ -41,6 +41,7 @@ dependencies: - r-rerddap - r-foreach - r-foreign + - r-fracdiff - r-gbm >=2.1.3 - r-geometry - r-geosphere @@ -59,6 +60,7 @@ dependencies: - r-lattice - r-leaflet - r-littler + - r-lmtest - r-lpsolve - r-lubridate - r-mmand @@ -115,9 +117,11 @@ dependencies: - r-tiff - r-tmap - r-tmaptools + - r-tseries - r-tsibble - r-tzdb - r-udunits2 + - r-urca - r-vegan - r-viridis - r-vroom