From e8dc0eed6d094063bd694388eaa8f3db96a774e7 Mon Sep 17 00:00:00 2001 From: webofceco Date: Thu, 1 Aug 2024 08:21:31 -0400 Subject: [PATCH] removed app from main repo --- Project.toml | 2 +- README.md | 6 +- app/backend/Dockerfile | 9 - app/backend/app.jl | 104 - app/frontend/index.html | 1 - app/frontend/package-lock.json | 1782 ----------------- app/frontend/package.json | 19 - app/frontend/src/app.tsx | 45 - app/frontend/src/assets/css/app.css | 294 --- app/frontend/src/assets/css/checklist.css | 444 ---- app/frontend/src/assets/css/flow_diagram.css | 160 -- app/frontend/src/assets/css/footer.css | 17 - app/frontend/src/assets/css/header.css | 85 - app/frontend/src/assets/css/home.css | 9 - app/frontend/src/assets/css/notfound.css | 9 - app/frontend/src/assets/favicon.ico | Bin 173308 -> 0 bytes app/frontend/src/assets/fonts/LICENSE.txt | 202 -- app/frontend/src/assets/fonts/README.txt | 71 - .../src/assets/fonts/RobotoSlab-Black.ttf | Bin 127344 -> 0 bytes .../src/assets/fonts/RobotoSlab-Bold.ttf | Bin 127116 -> 0 bytes .../src/assets/fonts/RobotoSlab-ExtraBold.ttf | Bin 127260 -> 0 bytes .../assets/fonts/RobotoSlab-ExtraLight.ttf | Bin 126856 -> 0 bytes .../src/assets/fonts/RobotoSlab-Light.ttf | Bin 126852 -> 0 bytes .../src/assets/fonts/RobotoSlab-Medium.ttf | Bin 127036 -> 0 bytes .../src/assets/fonts/RobotoSlab-Regular.ttf | Bin 126360 -> 0 bytes .../src/assets/fonts/RobotoSlab-SemiBold.ttf | Bin 127260 -> 0 bytes .../src/assets/fonts/RobotoSlab-Thin.ttf | Bin 125620 -> 0 bytes .../fonts/RobotoSlab-VariableFont_wght.ttf | Bin 249868 -> 0 bytes app/frontend/src/assets/svgs/atoz.svg | 5 - app/frontend/src/assets/svgs/check.svg | 5 - app/frontend/src/assets/svgs/circle-x.svg | 5 - app/frontend/src/assets/svgs/cloud.svg | 4 - app/frontend/src/assets/svgs/double-left.svg | 5 - app/frontend/src/assets/svgs/double-right.svg | 5 - app/frontend/src/assets/svgs/down.svg | 3 - app/frontend/src/assets/svgs/download.svg | 5 - app/frontend/src/assets/svgs/edit.svg | 5 - app/frontend/src/assets/svgs/github.svg | 5 - app/frontend/src/assets/svgs/left.svg | 5 - app/frontend/src/assets/svgs/logo.svg | 4 - .../src/assets/svgs/magnifying-glass.svg | 5 - app/frontend/src/assets/svgs/moon.svg | 4 - app/frontend/src/assets/svgs/reset.svg | 5 - app/frontend/src/assets/svgs/right.svg | 5 - app/frontend/src/assets/svgs/square-check.svg | 5 - app/frontend/src/assets/svgs/square.svg | 5 - app/frontend/src/assets/svgs/sun.svg | 4 - app/frontend/src/assets/svgs/trash.svg | 5 - app/frontend/src/assets/svgs/x.svg | 5 - app/frontend/src/assets/svgs/ztoa.svg | 5 - app/frontend/src/components/footer.tsx | 12 - app/frontend/src/components/header.tsx | 79 - app/frontend/src/pages/checklist.tsx | 449 ----- app/frontend/src/pages/flow_diagram.tsx | 1359 ------------- app/frontend/src/pages/home.tsx | 5 - app/frontend/src/pages/notfound.tsx | 10 - app/frontend/tsconfig.json | 16 - app/frontend/vite.config.ts | 7 - src/flow_diagram.jl | 23 + 59 files changed, 27 insertions(+), 5296 deletions(-) delete mode 100644 app/backend/Dockerfile delete mode 100644 app/backend/app.jl delete mode 100644 app/frontend/index.html delete mode 100644 app/frontend/package-lock.json delete mode 100644 app/frontend/package.json delete mode 100644 app/frontend/src/app.tsx delete mode 100644 app/frontend/src/assets/css/app.css delete mode 100644 app/frontend/src/assets/css/checklist.css delete mode 100644 app/frontend/src/assets/css/flow_diagram.css delete mode 100644 app/frontend/src/assets/css/footer.css delete mode 100644 app/frontend/src/assets/css/header.css delete mode 100644 app/frontend/src/assets/css/home.css delete mode 100644 app/frontend/src/assets/css/notfound.css delete mode 100644 app/frontend/src/assets/favicon.ico delete mode 100644 app/frontend/src/assets/fonts/LICENSE.txt delete mode 100644 app/frontend/src/assets/fonts/README.txt delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Black.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Bold.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-ExtraBold.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-ExtraLight.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Light.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Medium.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Regular.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-SemiBold.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-Thin.ttf delete mode 100644 app/frontend/src/assets/fonts/RobotoSlab-VariableFont_wght.ttf delete mode 100644 app/frontend/src/assets/svgs/atoz.svg delete mode 100644 app/frontend/src/assets/svgs/check.svg delete mode 100644 app/frontend/src/assets/svgs/circle-x.svg delete mode 100644 app/frontend/src/assets/svgs/cloud.svg delete mode 100644 app/frontend/src/assets/svgs/double-left.svg delete mode 100644 app/frontend/src/assets/svgs/double-right.svg delete mode 100644 app/frontend/src/assets/svgs/down.svg delete mode 100644 app/frontend/src/assets/svgs/download.svg delete mode 100644 app/frontend/src/assets/svgs/edit.svg delete mode 100644 app/frontend/src/assets/svgs/github.svg delete mode 100644 app/frontend/src/assets/svgs/left.svg delete mode 100644 app/frontend/src/assets/svgs/logo.svg delete mode 100644 app/frontend/src/assets/svgs/magnifying-glass.svg delete mode 100644 app/frontend/src/assets/svgs/moon.svg delete mode 100644 app/frontend/src/assets/svgs/reset.svg delete mode 100644 app/frontend/src/assets/svgs/right.svg delete mode 100644 app/frontend/src/assets/svgs/square-check.svg delete mode 100644 app/frontend/src/assets/svgs/square.svg delete mode 100644 app/frontend/src/assets/svgs/sun.svg delete mode 100644 app/frontend/src/assets/svgs/trash.svg delete mode 100644 app/frontend/src/assets/svgs/x.svg delete mode 100644 app/frontend/src/assets/svgs/ztoa.svg delete mode 100644 app/frontend/src/components/footer.tsx delete mode 100644 app/frontend/src/components/header.tsx delete mode 100644 app/frontend/src/pages/checklist.tsx delete mode 100644 app/frontend/src/pages/flow_diagram.tsx delete mode 100644 app/frontend/src/pages/home.tsx delete mode 100644 app/frontend/src/pages/notfound.tsx delete mode 100644 app/frontend/tsconfig.json delete mode 100644 app/frontend/vite.config.ts diff --git a/Project.toml b/Project.toml index e0df661..ecca1ba 100644 --- a/Project.toml +++ b/Project.toml @@ -1,7 +1,7 @@ name = "PRISMA" uuid = "7b67a8d2-c4f5-4933-b91c-0fc427024db5" authors = ["Ceco E. Maples "] -version = "0.0.1" +version = "0.0.2" [deps] DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0" diff --git a/README.md b/README.md index e4c1f5d..5336132 100644 --- a/README.md +++ b/README.md @@ -2,15 +2,15 @@
- +

-Julia package and [web application]() built with [`React.js`](https://react.dev/) and [`Oxygen.jl`](https://github.com/OxygenFramework) for generating checklists and flow diagrams based on [the 2020 **P**referred **R**eporting **I**tems for **S**ystematic **R**eviews and **M**eta-**A**nalyses (PRISMA) statement (Page et al., 2021).](https://doi.org/10.1186/s13643-021-01626-4) +Julia package and [web application]() built with [`React.js`](https://react.dev/) for generating checklists and flow diagrams based on [the 2020 **P**referred **R**eporting **I**tems for **S**ystematic **R**eviews and **M**eta-**A**nalyses (PRISMA) statement (Page et al., 2021).](https://doi.org/10.1186/s13643-021-01626-4) :arrow_down: **Installation:** inside the Julia REPL, `using Pkg; Pkg.add("PRISMA")` -:book: **Documentation:** Documentation Stable Documentation Dev +:book: **Documentation:** Documentation Stable Documentation Dev :books: **References:** diff --git a/app/backend/Dockerfile b/app/backend/Dockerfile deleted file mode 100644 index df163f0..0000000 --- a/app/backend/Dockerfile +++ /dev/null @@ -1,9 +0,0 @@ -FROM julia:1.10 - -COPY app.jl . - -RUN julia -e 'using Pkg; Pkg.add(["CSV", "DataFrames", "HTMLTables", "HTTP", "JSON3", "JSONTables", "Oxygen", "PRISMA"]);' - -EXPOSE 5050 - -CMD julia app.jl \ No newline at end of file diff --git a/app/backend/app.jl b/app/backend/app.jl deleted file mode 100644 index b9cb74b..0000000 --- a/app/backend/app.jl +++ /dev/null @@ -1,104 +0,0 @@ -using CSV, DataFrames, HTMLTables, HTTP, JSON3, JSONTables, Oxygen, PRISMA - -const ALLOWED_ORIGINS::Vector{Pair{String,String}} = [ - "Access-Control-Allow-Origin" => "*" -] - -const CORS_HEADERS::Vector{Pair{String,String}} = [ - ALLOWED_ORIGINS..., - "Access-Control-Allow-Methods" => "*", - "Access-Control-Allow-Headers" => "*" -] - -function corshandler(handle::Function)::Function - return function (request::HTTP.Request) - if HTTP.method(request) == "OPTIONS" - return HTTP.Response(200, CORS_HEADERS) - else - response::HTTP.Response = handle(request) - Base.append!(response.headers, ALLOWED_ORIGINS) - - return response - end - end -end - -Oxygen.post("/checklist/generate") do req::HTTP.Request - try - paper::PRISMA.Checklist = PRISMA.checklist(req.body) - - clist_title::String = paper.metadata["title"] - clist_table::String = HTMLTables.table(paper.df, classes="checklist", css=false, editable=true, footer=false) - - return Oxygen.json( - status=200, - Dict{String,String}("title" => clist_title, "checklist" => clist_table) - ) - catch error - return Oxygen.json( - status=500, - Dict{String,String}("error" => "error generating checklist: $error") - ) - end -end - -Oxygen.post("/checklist/export") do req::HTTP.Request - try - checklists::JSON3.Object = JSON3.read(String(req.body)) - - csv_files::Dict{String,String} = Dict{String,String}() - for checklist in checklists["checklists"] - io::IO = IOBuffer() - CSV.write(io, HTMLTables.read(checklist["checklist"], DataFrame)) - csv_files["$(checklist["title"]).csv"] = String(take!(io)) - end - - return Oxygen.json(status=200, csv_files) - catch error - return Oxygen.json(status=500, Dict{String,String}("error" => "error exporting checklists: $error")) - end -end - -Oxygen.post("/flow_diagram/generate") do req::HTTP.Request - try - flow_diagram_options::JSON3.Object = JSON3.read(String(req.body)) - - flow_diagram_gv::PRISMA.FlowDiagram = PRISMA.flow_diagram( - DataFrame(JSONTables.jsontable(flow_diagram_options["data"])), - - background_color = flow_diagram_options["background_color"], - grayboxes = flow_diagram_options["grayboxes"], - grayboxes_color = flow_diagram_options["grayboxes_color"], - top_boxes = flow_diagram_options["top_boxes"], - top_boxes_borders = flow_diagram_options["top_boxes_borders"], - top_boxes_color = flow_diagram_options["top_boxes_color"], - side_boxes = flow_diagram_options["side_boxes"], - side_boxes_borders = flow_diagram_options["side_boxes_borders"], - side_boxes_color = flow_diagram_options["side_boxes_color"], - previous_studies = flow_diagram_options["previous_studies"], - other_methods = flow_diagram_options["other_methods"], - borders = flow_diagram_options["borders"], - border_style = flow_diagram_options["border_style"], - border_width = flow_diagram_options["border_width"], - border_color = flow_diagram_options["border_color"], - font = flow_diagram_options["font"], - font_color = flow_diagram_options["font_color"], - font_size = flow_diagram_options["font_size"], - arrow_head = flow_diagram_options["arrow_head"], - arrow_size = flow_diagram_options["arrow_size"], - arrow_color = flow_diagram_options["arrow_color"], - arrow_width = flow_diagram_options["arrow_width"] - ) - - tempname_svg::String = Base.Filesystem.tempname() * ".svg" - PRISMA.flow_diagram_save(tempname_svg, flow_diagram_gv) - svg_string::String = Base.read(tempname_svg, String) - Base.Filesystem.rm(tempname_svg) - - return Oxygen.json(status=200, Dict{String,String}("svg" => svg_string)) - catch error - return Oxygen.json(status=500, Dict{String,String}("error" => "error generating flow diagram: $error")) - end -end - -Oxygen.serve(host="0.0.0.0", port=5050, middleware=[corshandler]) diff --git a/app/frontend/index.html b/app/frontend/index.html deleted file mode 100644 index a46f1eb..0000000 --- a/app/frontend/index.html +++ /dev/null @@ -1 +0,0 @@ - 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-import "./assets/css/app.css"; - -import Header from "./components/header.tsx"; -import Home from "./pages/home.tsx"; -import Checklist from "./pages/checklist.tsx"; -import FlowDiagram from "./pages/flow_diagram.tsx"; -import NotFound from "./pages/notfound.tsx"; -import Footer from "./components/footer.tsx"; - -function AppLayout(props: ParentProps) { - return ( - <> -
- {props.children} -