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vz update conda yml #3

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e9544e3
create minimalist conda yml file
vickimzhang Dec 5, 2025
faef384
update version number and versions
vickimzhang Dec 8, 2025
d7bb17e
update package version and dependencies version
vickimzhang Dec 9, 2025
297e15f
make versions exact
vickimzhang Dec 12, 2025
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200 changes: 3 additions & 197 deletions src/helloworldR.yml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -2,201 +2,7 @@ name: helloworldR
channels:
- conda-forge
- defaults
- https://repo.anaconda.com/pkgs/main
- https://repo.anaconda.com/pkgs/r
- https://repo.anaconda.com/pkgs/msys2
dependencies:
- _r-mutex=1.0.1=anacondar_1
- bzip2=1.0.8=h2466b09_7
- ca-certificates=2024.12.14=h56e8100_0
- cairo=1.18.0=h91e5215_2
- font-ttf-dejavu-sans-mono=2.37=hab24e00_0
- font-ttf-inconsolata=3.000=h77eed37_0
- font-ttf-source-code-pro=2.038=h77eed37_0
- font-ttf-ubuntu=0.83=h77eed37_3
- fontconfig=2.15.0=h765892d_1
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.12.1=hdaf720e_2
- fribidi=1.0.10=h8d14728_0
- graphite2=1.3.13=h63175ca_1003
- harfbuzz=8.5.0=h81778c3_0
- icu=73.2=h63175ca_0
- intel-openmp=2024.2.1=h57928b3_1083
- lerc=4.0.0=h63175ca_0
- libblas=3.9.0=26_win64_mkl
- libdeflate=1.23=h9062f6e_0
- libexpat=2.6.4=he0c23c2_0
- libffi=3.4.2=h8ffe710_5
- libglib=2.82.2=h7025463_0
- libhwloc=2.11.2=default_hc8275d1_1000
- libiconv=1.17=hcfcfb64_2
- libintl=0.22.5=h5728263_3
- libjpeg-turbo=3.0.0=hcfcfb64_1
- liblapack=3.9.0=26_win64_mkl
- liblzma=5.6.3=h2466b09_1
- libpng=1.6.44=h3ca93ac_0
- libtiff=4.7.0=h797046b_3
- libxml2=2.13.5=he286e8c_1
- libzlib=1.3.1=h2466b09_2
- m2w64-bwidget=1.9.10=2
- m2w64-bzip2=1.0.6=6
- m2w64-expat=2.1.1=2
- m2w64-fftw=3.3.4=6
- m2w64-flac=1.3.1=3
- m2w64-gcc-libgfortran=5.3.0=6
- m2w64-gcc-libs=5.3.0=7
- m2w64-gcc-libs-core=5.3.0=7
- m2w64-gettext=0.19.7=2
- m2w64-gmp=6.1.0=2
- m2w64-gsl=2.1=2
- m2w64-icu=58.2=2
- m2w64-libiconv=1.14=6
- m2w64-libjpeg-turbo=1.4.2=3
- m2w64-libogg=1.3.2=3
- m2w64-libpng=1.6.21=2
- m2w64-libsndfile=1.0.26=2
- m2w64-libtiff=4.0.6=2
- m2w64-libvorbis=1.3.5=2
- m2w64-libwinpthread-git=5.0.0.4634.697f757=2
- m2w64-libxml2=2.9.3=3
- m2w64-mpfr=3.1.4=4
- m2w64-pcre2=10.34=0
- m2w64-speex=1.2rc2=3
- m2w64-speexdsp=1.2rc3=3
- m2w64-tcl=8.6.5=3
- m2w64-tk=8.6.5=3
- m2w64-tktable=2.10=5
- m2w64-wineditline=2.101=5
- m2w64-xz=5.2.2=2
- m2w64-zlib=1.2.8=10
- mkl=2024.2.2=h66d3029_15
- msys2-conda-epoch=20160418=1
- openssl=3.4.0=ha4e3fda_1
- pandoc=2.19.2=h57928b3_2
- pcre2=10.44=h3d7b363_2
- pixman=0.44.2=had0cd8c_0
- pthreads-win32=2.9.1=h2466b09_4
- r-askpass=1.2.0=r41h6d2157b_0
- r-assertthat=0.2.1=r41hc72bb7e_3
- r-backports=1.5.0=r41h6c66454_0
- r-base=4.1.3=h22dd5fe_17
- r-base64enc=0.1_3=r41h6d2157b_1006
- r-bit=4.0.5=r41h6d2157b_1
- r-bit64=4.0.5=r41h6d2157b_2
- r-blob=1.2.4=r41hc72bb7e_0
- r-broom=1.0.5=r41hc72bb7e_0
- r-bslib=0.5.0=r41hc72bb7e_0
- r-cachem=1.1.0=r41h6c66454_0
- r-callr=3.7.3=r41hc72bb7e_0
- r-cellranger=1.1.0=r41hc72bb7e_1005
- r-cli=3.6.3=r41he75b88d_0
- r-clipr=0.8.0=r41hc72bb7e_1
- r-colorspace=2.1_0=r41h6d2157b_1
- r-conflicted=1.2.0=r41h785f33e_0
- r-cpp11=0.4.7=r41hc72bb7e_0
- r-crayon=1.5.2=r41hc72bb7e_1
- r-curl=4.3.3=r41h6d2157b_2
- r-data.table=1.15.4=r41h6d2157b_0
- r-dbi=1.1.3=r41hc72bb7e_1
- r-dbplyr=2.3.2=r41hc72bb7e_0
- r-digest=0.6.36=r41he75b88d_0
- r-dplyr=1.1.4=r41ha856d6a_0
- r-dtplyr=1.3.1=r41hc72bb7e_0
- r-ellipsis=0.3.2=r41h6d2157b_2
- r-evaluate=0.21=r41hc72bb7e_0
- r-fansi=1.0.6=r41h6d2157b_0
- r-farver=2.1.2=r41he75b88d_0
- r-fastmap=1.2.0=r41he75b88d_0
- r-fontawesome=0.5.1=r41hc72bb7e_0
- r-forcats=1.0.0=r41hc72bb7e_0
- r-fs=1.6.4=r41h3f0a074_0
- r-gargle=1.4.0=r41h785f33e_0
- r-generics=0.1.3=r41hc72bb7e_1
- r-ggplot2=3.4.2=r41hc72bb7e_0
- r-glue=1.7.0=r41h6d2157b_0
- r-googledrive=2.1.0=r41hc72bb7e_0
- r-googlesheets4=1.1.0=r41h785f33e_0
- r-gtable=0.3.3=r41hc72bb7e_0
- r-gtools=3.9.5=r41h6d2157b_0
- r-haven=2.5.4=r41ha856d6a_0
- r-highr=0.10=r41hc72bb7e_0
- r-hms=1.1.3=r41hc72bb7e_0
- r-htmltools=0.5.8.1=r41ha856d6a_0
- r-httr=1.4.6=r41hc72bb7e_0
- r-ids=1.0.1=r41hc72bb7e_2
- r-isoband=0.2.7=r41ha856d6a_2
- r-jquerylib=0.1.4=r41hc72bb7e_1
- r-jsonlite=1.8.8=r41h6d2157b_0
- r-knitr=1.43=r41hc72bb7e_0
- r-labeling=0.4.2=r41hc72bb7e_2
- r-lattice=0.22_6=r41h6d2157b_0
- r-lifecycle=1.0.3=r41hc72bb7e_1
- r-lubridate=1.9.3=r41h6d2157b_0
- r-magrittr=2.0.3=r41h6d2157b_2
- r-mass=7.3_58.3=r41h6d2157b_0
- r-matrix=1.6_5=r41hb9981e2_0
- r-memoise=2.0.1=r41hc72bb7e_1
- r-mgcv=1.9_1=r41hb9981e2_0
- r-mime=0.12=r41h6d2157b_2
- r-modelr=0.1.11=r41hc72bb7e_0
- r-munsell=0.5.0=r41hc72bb7e_1005
- r-nlme=3.1_165=r41hd63c432_0
- r-openssl=2.0.6=r41h81a3cea_1
- r-pillar=1.9.0=r41hc72bb7e_0
- r-pkgconfig=2.0.3=r41hc72bb7e_2
- r-plogr=0.2.0=r41hc72bb7e_1004
- r-prettyunits=1.1.1=r41hc72bb7e_2
- r-processx=3.8.4=r41h6d2157b_0
- r-progress=1.2.2=r41hc72bb7e_3
- r-ps=1.7.6=r41h6d2157b_0
- r-purrr=1.0.2=r41h6d2157b_0
- r-r6=2.5.1=r41hc72bb7e_1
- r-ragg=1.3.2=r41he767bbc_0
- r-rappdirs=0.3.3=r41h6d2157b_2
- r-rcolorbrewer=1.1_3=r41h785f33e_1
- r-rcpp=1.0.12=r41ha856d6a_0
- r-readr=2.1.5=r41ha856d6a_0
- r-readxl=1.4.3=r41h1c2d66b_0
- r-rematch=1.0.1=r41hc72bb7e_1005
- r-rematch2=2.1.2=r41hc72bb7e_2
- r-reprex=2.0.2=r41hc72bb7e_1
- r-rlang=1.1.4=r41he75b88d_0
- r-rmarkdown=2.22=r41hc72bb7e_0
- r-rsqlite=2.3.4=r41ha856d6a_0
- r-rstudioapi=0.14=r41hc72bb7e_1
- r-rsyncrosim=2.0.0=r41hd8ed1ab_0
- r-rvest=1.0.3=r41hc72bb7e_1
- r-sass=0.4.9=r41ha856d6a_0
- r-scales=1.2.1=r41hc72bb7e_1
- r-selectr=0.4_2=r41hc72bb7e_2
- r-stringi=1.8.4=r41h3f0a074_0
- r-stringr=1.5.0=r41h785f33e_0
- r-sys=3.4.2=r41h6d2157b_1
- r-systemfonts=1.1.0=r41h754b566_0
- r-terra=1.5_21=r41ha856d6a_8
- r-textshaping=0.4.0=r41hdd868d5_0
- r-tibble=3.2.1=r41h6d2157b_2
- r-tidyr=1.3.1=r41ha856d6a_0
- r-tidyselect=1.2.0=r41h6addd8b_1
- r-tidyverse=2.0.0=r41h785f33e_0
- r-timechange=0.3.0=r41ha856d6a_0
- r-tinytex=0.45=r41hc72bb7e_0
- r-tzdb=0.4.0=r41ha856d6a_1
- r-utf8=1.2.4=r41h6d2157b_0
- r-uuid=1.2_0=r41h6d2157b_0
- r-vctrs=0.6.5=r41ha856d6a_0
- r-viridislite=0.4.1=r41hc72bb7e_1
- r-vroom=1.6.5=r41ha856d6a_0
- r-withr=2.5.0=r41hc72bb7e_1
- r-xfun=0.45=r41he75b88d_0
- r-xml2=1.3.3=r41ha856d6a_2
- r-yaml=2.3.8=r41h6d2157b_0
- tbb=2021.13.0=h62715c5_1
- ucrt=10.0.22621.0=h57928b3_1
- vc=14.3=ha32ba9b_23
- vc14_runtime=14.42.34433=he29a5d6_23
- vs2015_runtime=14.42.34433=hdffcdeb_23
- zlib=1.3.1=h2466b09_2
- zstd=1.5.6=h0ea2cb4_0
prefix: C:\Users\DorianaRomualdi\miniconda3\envs\helloworldR
- r-base=4.1.3
- r-rsyncrosim=2.1.7
- r-terra=1.5_21
Comment on lines +6 to +8
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⚠️ Potential issue | 🔴 Critical

🧩 Analysis chain

🏁 Script executed:

# First, let's explore the repository structure to find PR context or testing information
git log --oneline -1

Repository: ApexRMS/helloworldConda

Length of output: 94

🏁 Script executed:

# Check if there's any PR description or testing documentation in the repository
find . -type f \( -name "*.md" -o -name "*.txt" -o -name ".github" \) | head -20

Repository: ApexRMS/helloworldConda

Length of output: 78

🏁 Script executed:

# Look for any CI/CD configuration files that might show testing setup
find . -type f -name "*.yml" -o -name "*.yaml" | grep -E "(\.github|\.gitlab|\.circleci|\.travis)" | head -10

Repository: ApexRMS/helloworldConda

Length of output: 49

🌐 Web query:

r-terra conda-forge version 1.5_21

💡 Result:

Short answer: conda-forge does not appear to provide r-terra version 1.5_21. The conda-forge r-terra package index shows other versions (e.g. 1.3_22, 1.8_86) but not 1.5_21. [1][2] The CRAN/Debian archives do contain a terra 1.5-21 source/package (CRAN/Ubuntu), so that specific CRAN release exists but it hasn't been published to conda-forge under the r-terra name. [3]

Sources:

  • conda-forge / anaconda.org r-terra package page (versions list). [1]
  • conda-forge package metadata / prefix.dev (current published version examples). [2]
  • CRAN / Ubuntu archive showing terra 1.5-21 (r-cran-terra_1.5-21). [3]

r-terra version 1.5_21 does not exist in conda-forge—this specification will fail during environment creation.

Web search confirms that while CRAN includes terra 1.5-21, conda-forge's r-terra package does not have a published version 1.5_21. Available versions in conda-forge include 1.3_22 and 1.8_86, among others. The environment file must specify a version that actually exists in the conda-forge channel to be reproducible. Verify the correct version number and update the pin accordingly.

🤖 Prompt for AI Agents 
In src/helloworldR.yml around lines 6 to 8, the pinned package r-terra=1.5_21
does not exist on conda-forge and will cause environment creation to fail;
update the spec to a conda-forge-available version (for example r-terra=1.8_86)
or remove the hard pin, and ensure the environment.yml uses the conda-forge
channel so the chosen r-terra version is resolvable; verify the exact available
version with conda search --channel conda-forge r-terra and update the file
accordingly.

6 changes: 3 additions & 3 deletions src/package.xml
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,5 +1,5 @@
<?xml version="1.0" encoding="utf-8"?>
<package name="helloworldConda" displayName="Hello World Conda (R)" description="Example demonstrating how to create a package with conda" version="2.0.0" url="https://apexrms.github.io/helloworldEnhanced/">
<package name="helloworldConda" displayName="Hello World Conda (R)" description="Example demonstrating how to create a package with conda" version="2.0.1" url="https://apexrms.github.io/helloworldEnhanced/">

<!--Scenario Datasheets-->

Expand All @@ -16,7 +16,7 @@

<!--Transformer-->

<transformer name="Main" displayName="Hello World" programArguments="model.R" condaEnv="helloworldR.yml" condaEnvVersion="1">
<transformer name="Main" displayName="Hello World" programArguments="model.R" condaEnv="helloworldR.yml" condaEnvVersion="2">
<dataSheet name="InputDatasheet" type="Input"/>
<dataSheet name="OutputDatasheet" type="Output"/>
</transformer>
Expand All @@ -29,4 +29,4 @@
<item name="OutputDatasheet"/>
</layout>

</package>
</package>