Upload folder using huggingface_hub

Dockerfile

@@ -1,281 +1,9 @@
-FROM --platform=linux/amd64 ubuntu:24.04
+FROM 070991/rmd-fixer-api:latest
 
-ENV DEBIAN_FRONTEND=noninteractive
-ENV TZ=Europe/Rome
-ENV LANG=C.UTF-8
-ENV LC_ALL=C.UTF-8
-
-# =============================================================================
-# 1. SYSTEM DEPENDENCIES
-# =============================================================================
-RUN apt-get update && apt-get install -y --no-install-recommends \
-    software-properties-common wget curl git ca-certificates gnupg dirmngr \
-    build-essential gfortran cmake pkg-config autoconf automake libtool \
-    libssl-dev libcurl4-openssl-dev libxml2-dev libgit2-dev \
-    libblas-dev liblapack-dev \
-    libfontconfig1-dev libfreetype6-dev libharfbuzz-dev libfribidi-dev \
-    libjpeg-dev libpng-dev libtiff-dev \
-    libcairo2-dev libpango1.0-dev libx11-dev libxt-dev \
-    libgdal-dev libgeos-dev libproj-dev libsqlite3-dev libudunits2-dev \
-    libgsl-dev libglpk-dev libfftw3-dev \
-    libhdf5-dev libnetcdf-dev libsodium-dev \
-    libbz2-dev liblzma-dev libzstd-dev libpcre2-dev libicu-dev zlib1g-dev \
-    libssh2-1-dev libzmq3-dev \
-    default-jdk-headless \
-    python3-full python3-pip python3-venv python3-dev \
-    pandoc \
-    texlive-latex-base \
-    texlive-latex-recommended \
-    texlive-latex-extra \
-    texlive-fonts-recommended \
-    texlive-plain-generic \
-    texlive-pictures \
-    tex-gyre \
-    libreadline-dev unzip zip \
-    && rm -rf /var/lib/apt/lists/*
-
-# =============================================================================
-# 2. R FROM UBUNTU UNIVERSE REPO (R 4.3.x)
-# =============================================================================
-RUN apt-get update && \
-    apt-get install -y --no-install-recommends \
-        r-base \
-        r-base-dev \
-        r-recommended \
-    && rm -rf /var/lib/apt/lists/*
-
-RUN R CMD javareconf
-
-# =============================================================================
-# 3. CONFIGURE R REPOS (Posit Package Manager — binary packages)
-# =============================================================================
-RUN echo 'options(\
-  repos = c(\
-    PPM  = "https://packagemanager.posit.co/cran/__linux__/noble/latest",\
-    CRAN = "https://cloud.r-project.org"\
-  ),\
-  Ncpus = parallel::detectCores()\
-)' >> /etc/R/Rprofile.site
-
-# =============================================================================
-# 4. R PACKAGES
-# =============================================================================
-
-# ── Batch 1: Infrastructure ─────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "pak", "remotes", "BiocManager",\
-  "Rcpp", "BH", "RcppArmadillo", "RcppEigen", "RcppParallel", "cpp11",\
-  "rlang", "cli", "glue", "vctrs", "lifecycle", "withr",\
-  "fs", "digest", "cachem", "fastmap", "magrittr",\
-  "pkgconfig", "generics", "R6", "bit", "bit64", "blob"\
-))'
-
-# ── Batch 2: String / encoding / color ──────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "stringi", "stringr", "stringdist", "utf8", "fansi", "pillar", "crayon",\
-  "colorspace", "viridisLite", "viridis", "farver", "labeling",\
-  "scales", "munsell", "RColorBrewer", "prismatic"\
-))'
-
-# ── Batch 3: Core data manipulation ─────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "tibble", "dplyr", "tidyr", "tidyselect", "purrr",\
-  "readr", "readxl", "haven", "hms", "tzdb",\
-  "vroom", "data.table", "dtplyr",\
-  "forcats", "lubridate", "timechange", "clock"\
-))'
-
-# ── Batch 4: rmarkdown / knitr (CRITICAL for the validator) ─────────────────
-RUN Rscript -e 'install.packages(c(\
-  "xfun", "knitr", "rmarkdown", "htmltools", "evaluate",\
-  "yaml", "jsonlite", "base64enc", "jquerylib",\
-  "sass", "bslib", "fontawesome",\
-  "markdown", "commonmark", "highr", "litedown",\
-  "tinytex",\
-  "kableExtra", "gt", "DT", "htmlwidgets", "reactable"\
-))'
-
-# ── Batch 5: ggplot2 ecosystem ───────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "ggplot2", "gtable", "isoband",\
-  "ggrepel", "ggtext", "ggforce", "ggridges", "ggthemes",\
-  "ggpubr", "ggsignif", "rstatix",\
-  "GGally", "cowplot", "patchwork", "gridExtra",\
-  "ragg", "textshaping", "systemfonts",\
-  "showtext", "showtextdb", "sysfonts",\
-  "svglite"\
-))'
-
-# ── Batch 6: Statistical modeling ───────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "lme4", "minqa", "nloptr", "nlme", "mgcv", "gamm4", "gam",\
-  "gamlss", "gamlss.dist",\
-  "survival", "survminer", "km.ci", "KMsurv",\
-  "glmnet", "glmnetUtils", "betareg", "ordinal",\
-  "lmtest", "sandwich", "multcomp", "emmeans",\
-  "car", "carData", "effects",\
-  "broom", "broom.helpers", "broom.mixed"\
-))'
-
-# ── Batch 7: Time series / finance ──────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "forecast", "tseries", "xts", "zoo", "TTR", "quantmod",\
-  "tsibble", "fable", "feasts", "fabletools",\
-  "fracdiff", "urca", "MTS",\
-  "rugarch", "fGarch", "fBasics",\
-  "PerformanceAnalytics", "PortfolioAnalytics",\
-  "timeSeries", "timeDate",\
-  "vars", "strucchange"\
-))'
-
-# ── Batch 8: Actuarial science ───────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "actuar", "ChainLadder", "lifecontingencies",\
-  "MortalityLaws", "MortalityGaps", "MortCast", "StMoMo",\
-  "insuranceData", "insurancerating",\
-  "Delaporte", "NetSimR",\
-  "triangle", "Pareto",\
-  "QRM", "ReIns", "evd", "evir", "ismev", "extRemes",\
-  "DistributionUtils", "GeneralizedHyperbolic",\
-  "fitdistrplus", "MASS",\
-  "apc", "mondate"\
-))'
-
-# ── Batch 9: Copulas / extreme value / risk ──────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "copula", "VineCopula",\
-  "mvtnorm", "mnormt", "tmvtnorm",\
-  "sn", "nortest", "moments",\
-  "logcondens", "truncnorm",\
-  "pROC", "ROCR", "PRROC",\
-  "ROSE", "smotefamily"\
-))'
-
-# ── Batch 10: Machine learning / tidymodels ──────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "caret", "randomForest", "randomForestSRC", "ranger",\
-  "xgboost", "lightgbm", "gbm", "e1071", "kernlab",\
-  "glmnet", "MASS",\
-  "tidymodels", "parsnip", "workflows", "workflowsets",\
-  "recipes", "tune", "rsample", "yardstick", "dials",\
-  "themis", "hardhat", "infer",\
-  "DALEX", "iml", "shapviz", "SHAPforxgboost",\
-  "mlr3", "mlr3measures", "mlr3misc", "paradox"\
-))'
-
-# ── Batch 11: Spatial / GIS ──────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "sf", "s2", "wk", "units",\
-  "terra", "raster", "stars", "sp",\
-  "spdep", "spatialreg",\
-  "spatstat", "spatstat.data", "spatstat.explore",\
-  "spatstat.geom", "spatstat.model", "spatstat.random", "spatstat.utils",\
-  "geosphere", "lwgeom",\
-  "tmap", "tmaptools", "mapview", "leaflet", "leafem",\
-  "maptiles",\
-  "gstat", "fields", "interp", "deldir",\
-  "geojsonsf", "spData"\
-))'
-
-# ── Batch 12: Network / graph ────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "igraph", "network", "sna", "intergraph", "ergm",\
-  "ggraph", "tidygraph",\
-  "visNetwork", "networkD3", "DiagrammeR"\
-))'
-
-# ── Batch 13: Reporting / tables / output ───────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "bookdown", "rticles", "prettydoc",\
-  "huxtable", "formattable", "stargazer", "texreg",\
-  "skimr", "janitor",\
-  "xtable", "openxlsx", "writexl", "readxl"\
-))'
-
-# ── Batch 14: Parallelism / workflow / utilities ─────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "foreach", "doParallel", "doFuture",\
-  "future", "future.apply", "furrr", "parallelly",\
-  "callr", "processx", "ps",\
-  "targets", "tarchetypes",\
-  "memoise", "cachem",\
-  "bench", "microbenchmark", "profvis"\
-))'
-
-# ── Batch 15: Database / storage ─────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "DBI", "RSQLite", "RPostgres", "RMySQL", "odbc",\
-  "dbplyr", "pool",\
-  "arrow", "nanoarrow", "feather",\
-  "fst", "qs", "vroom"\
-))'
-
-# ── Batch 16: Web / API / IO ─────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "httr", "httr2", "curl", "rvest", "xml2", "XML",\
-  "jsonlite", "yaml",\
-  "googledrive", "googlesheets4", "gargle",\
-  "gh", "gitcreds", "credentials",\
-  "openssl", "sodium", "keyring"\
-))'
-
-# ── Batch 17: Dev tools / testing ────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "devtools", "usethis", "pkgbuild", "pkgload",\
-  "testthat", "mockery", "covr", "vdiffr",\
-  "roxygen2", "Rdpack",\
-  "sessioninfo", "desc", "rprojroot", "here",\
-  "reprex", "renv"\
-))'
-
-# ── Batch 18: Shiny / interactive ────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "shiny", "shinyWidgets", "shinyjs", "shinythemes",\
-  "miniUI", "crosstalk",\
-  "plotly", "dygraphs", "threejs",\
-  "leaflet", "leaflet.providers"\
-))'
-
-# ── Batch 19: Bayesian / MCMC ────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "rstan", "StanHeaders", "rstantools", "bayesplot",\
-  "loo", "posterior", "bridgesampling",\
-  "MCMCpack", "coda",\
-  "bayestestR", "parameters", "performance", "insight",\
-  "effectsize", "correlation"\
-))'
-
-# ── Batch 20: Misc / datasets ────────────────────────────────────────────────
-RUN Rscript -e 'install.packages(c(\
-  "Hmisc", "psych", "reshape2", "plyr",\
-  "validate", "assertthat", "checkmate",\
-  "lobstr", "uuid", "ids",\
-  "reticulate",\
-  "rJava",\
-  "nycflights13", "palmerpenguins", "gapminder",\
-  "ISLR", "AmesHousing", "Lahman",\
-  "plotly", "rgl",\
-  "wordcloud", "wordcloud2",\
-  "quanteda", "quanteda.textstats", "quanteda.textplots",\
-  "text2vec", "tokenizers", "tm", "SnowballC"\
-))'
-
-# =============================================================================
-# 5. PYTHON DEPENDENCIES
-# =============================================================================
 WORKDIR /app
-COPY requirements.txt /app/
-RUN pip3 install --no-cache-dir --break-system-packages -r requirements.txt
-
-# =============================================================================
-# 6. APP FILES
-# =============================================================================
 COPY app.py validator.py /app/
 RUN mkdir -p /app/temp /app/logs
 
-# =============================================================================
-# 7. HUGGING FACE SPACES — port 7860
-# =============================================================================
 ENV PORT=7860
 EXPOSE 7860