up

init.lua

@@ -101,5 +101,7 @@ require 'custom.autocommands'
 require 'kickstart.core.keymaps'
 require 'custom.keymaps'
 
+vim.cmd [[colorscheme moonfly]]
+
 -- The line beneath this is called `modeline`. See `:help modeline`
 -- vim: ts=2 sts=2 sw=2 et

lua/custom/autocommands/quarto.lua

@@ -6,6 +6,7 @@ if not status_wk then
   return
 end
 
+local runner = require 'quarto.runner'
 local group = vim.api.nvim_create_augroup('quarto_autocommands', { clear = true })
 
 vim.api.nvim_create_autocmd('FileType', {
@@ -21,16 +22,26 @@ vim.api.nvim_create_autocmd('FileType', {
     local deinit = function()
       local quarto_cfg = require('quarto.config').config
       quarto_cfg.codeRunner.default_method = 'slime'
-      vim.cmd [[MoltenStop]]
+      vim.cmd [[MoltenInterrupt]]
       vim.cmd [[MoltenDeinit]]
     end
     wk.add {
       { mode = { 'n', 'v', 'i' } },
 
+      { -- Runner
+        { '<leader>r', group = '[r]un', buffer = true },
+        { '<leader>rc', runner.run_cell, desc = 'run [c]ell', buffer = true },
+        { '<leader>ra', runner.run_above, desc = 'run [a]bove', buffer = true },
+        { '<leader>rA', runner.run_all, desc = 'run [A]ll', buffer = true },
+        { '<leader>rl', runner.run_line, desc = 'run [l]ine', buffer = true },
+        { '<leader>rr', runner.run_range, desc = 'run [r]ange', buffer = true },
+
+        { '<c-CR>', runner.run_cell, desc = 'run [c]ell', buffer = true, hidden = true },
+      },
       { -- Quarto
-        { '<leader>q', group = '[q]uarto', buffer = true },
+        { '<leader>Q', group = '[Q]uarto', buffer = true },
-        { '<leader>qp', '<CMD>QuartoPreview<CR>', desc = '[p]review Quarto', buffer = true },
+        { '<leader>Qp', '<CMD>QuartoPreview<CR>', desc = '[p]review Quarto', buffer = true },
-        { '<leader>qs', '<CMD>QuartoSend<CR>', desc = '[s]end to Quarto', buffer = true },
+        { '<leader>Qs', '<CMD>QuartoSend<CR>', desc = '[s]end to Quarto', buffer = true },
       },
 
       { -- Molten
@@ -38,7 +49,7 @@ vim.api.nvim_create_autocmd('FileType', {
         { '<leader>Mi', init, desc = '[i]nitialize Molten', buffer = true },
         { '<leader>Ms', deinit, desc = '[s]top Molten', buffer = true },
         { '<leader>Mp', '<CMD>MoltenPause<CR>', desc = '[p]ause Molten', buffer = true },
-        { '<leader>Mr', '<CMD>MoltenReset<CR>', desc = '[r]eset Molten', buffer = true },
+        { '<leader>Mr', '<CMD>MoltenRestart<CR>', desc = '[r]eset Molten', buffer = true },
       },
 
       { -- Vim-slime
@@ -49,3 +60,9 @@ vim.api.nvim_create_autocmd('FileType', {
     }
   end,
 })
+
+vim.api.nvim_create_autocmd('VimResized', {
+  callback = function()
+    vim.g.molten_output_win_max_width = math.floor(vim.o.columns)
+  end,
+})

lua/custom/keymaps/files.lua

@@ -24,7 +24,7 @@ wk.add {
     },
   },
   {
-    mode = { 'n', 'v', 'i' },
+    mode = { 'n', 'v' },
     { '<C-e>', nth.smart_open, desc = 'File explorer', silent = true, noremap = true, hidden = true },
   },
 }

lua/custom/keymaps/general.lua

@@ -6,7 +6,7 @@ if not status_kh then
   return
 end
 
-kh.map({ 'n', 'v', 'i' }, '<leader>Q', '<CMD>qall<CR>', { silent = true, noremap = true, desc = '[Q]uit all' })
+kh.map({ 'n', 'v', 'i' }, '<leader>q', '<CMD>qall<CR>', { silent = true, noremap = true, desc = '[q]uit all' })
 
 -- The line beneath this is called `modeline`. See `:help modeline`
 -- vim: ts=2 sts=2 sw=2 et

lua/custom/keymaps/groups.lua

@@ -13,9 +13,10 @@ wk.add {
 
     {
       mode = { 'n', 'v' },
-      { '<leader>e', group = '[e]xplore' },
       { '<leader>b', group = '[b]uffers' },
+      { '<leader>e', group = '[e]xplore' },
       { '<leader>g', group = '[g]it hunk' },
+      { '<leader>o', group = '[o]bsidian' },
     },
   },
   {},

lua/custom/keymaps/init.lua

@@ -9,6 +9,7 @@ require 'custom.keymaps.files'
 require 'custom.keymaps.edit'
 require 'custom.keymaps.search'
 require 'custom.keymaps.toggles'
+require 'custom.keymaps.obsidian'
 
 -- The line beneath this is called `modeline`. See `:help modeline`
 -- vim: ts=2 sts=2 sw=2 et

lua/custom/keymaps/obsidian.lua

@@ -0,0 +1,18 @@
+-- Edition mappings
+--
+
+local status_wk, wk = pcall(require, 'which-key')
+if not status_wk then
+  return
+end
+
+wk.add {
+  {
+    mode = { 'n', 'v', 'i' },
+    { '<leader>on', '<CMD>Obsidian new<CR>', desc = 'create new note', silent = true, noremap = true },
+    { '<leader>os', '<CMD>Obsidian search<CR>', desc = 'search note', silent = true, noremap = true },
+  },
+}
+
+-- The line beneath this is called `modeline`. See `:help modeline`
+-- vim: ts=2 sts=2 sw=2 et

lua/custom/keymaps/toggles.lua

@@ -9,6 +9,7 @@ wk.add {
   -- gitsigns
   { '<leader>tb', gitsigns.toggle_current_line_blame, desc = 'toggle git show [b]lame line' },
   { '<leader>tD', gitsigns.preview_hunk_inline, desc = 'toggle git show [D]eleted' },
+  { '<leader>tm', '<CMD>RenderMarkdown buf_toggle<CR>', desc = 'toggle markdown rendering for current' },
 }
 
 -- The line beneath this is called `modeline`. See `:help modeline`

lua/custom/plugins/neotree-helper.lua

@@ -34,7 +34,8 @@ function M.smart_open()
     -- vim.cmd 'Neotree position=left reveal=true'
     -- Sinon, ouvrir dans le répertoire de travail courant
   else
-    vim.cmd('Neotree toggle position=left reveal_force_cwd=true dir=' .. vim.fn.getcwd())
+    -- vim.cmd('Neotree toggle position=left reveal_force_cwd=true dir=' .. vim.fn.getcwd())
+    vim.cmd 'Neotree toggle position=left reveal_force_cwd=true'
   end
 end
 

lua/kickstart/core/lazy-plugins.lua

@@ -32,9 +32,10 @@ require('lazy').setup({
   require 'kickstart.plugins.which-key',
   require 'kickstart.plugins.quarto',
   require 'kickstart.plugins.obsidian',
+  require 'kickstart.plugins.markdown',
 
   -- Themes
-  require 'kickstart.themes.yorumi',
+  require 'kickstart.plugins.themes',
 
   -- NOTE: The import below can automatically add your own plugins, configuration, etc from `lua/custom/plugins/*.lua`
   --    This is the easiest way to modularize your config.

lua/kickstart/plugins/autocompletion.lua

@@ -1,6 +1,15 @@
 -- Autocompletion
 
 return {
+  {
+    'saghen/blink.compat',
+    -- use v2.* for blink.cmp v1.*
+    version = '2.*',
+    -- lazy.nvim will automatically load the plugin when it's required by blink.cmp
+    lazy = true,
+    -- make sure to set opts so that lazy.nvim calls blink.compat's setup
+    opts = {},
+  },
   { -- Autocompletion
     'saghen/blink.cmp',
     event = 'VimEnter',
@@ -32,8 +41,14 @@ return {
         },
         opts = {},
       },
+      -- R-cmp
+      {
+        'R-nvim/cmp-r',
+      },
+      {
         'folke/lazydev.nvim',
       },
+    },
     --- @module 'blink.cmp'
     --- @type blink.cmp.Config
     opts = {
@@ -78,9 +93,10 @@ return {
       },
 
       sources = {
-        default = { 'lsp', 'path', 'snippets', 'lazydev' },
+        default = { 'lsp', 'path', 'snippets', 'lazydev', 'cmp_r' },
         providers = {
           lazydev = { module = 'lazydev.integrations.blink', score_offset = 100 },
+          cmp_r = { module = 'blink.compat.source', score_offset = 3 },
         },
       },
 

lua/kickstart/plugins/lsp.lua

@@ -21,14 +21,14 @@ return {
       -- Mason must be loaded before its dependents so we need to set it up here.
       -- NOTE: `opts = {}` is the same as calling `require('mason').setup({})`
       { 'mason-org/mason.nvim', opts = {} },
-      'mason-org/mason-lspconfig.nvim',
+      { 'mason-org/mason-lspconfig.nvim' },
-      'WhoIsSethDaniel/mason-tool-installer.nvim',
+      { 'WhoIsSethDaniel/mason-tool-installer.nvim' },
 
       -- Useful status updates for LSP.
       { 'j-hui/fidget.nvim', opts = {} },
 
       -- Allows extra capabilities provided by blink.cmp
-      'saghen/blink.cmp',
+      { 'saghen/blink.cmp' },
     },
     config = function()
       -- Brief aside: **What is LSP?**

lua/kickstart/plugins/markdown.lua

@@ -0,0 +1,116 @@
+-- Markdown
+-- https://github.com/MeanderingProgrammer/render-markdown.nvim
+
+return {
+  {
+    'MeanderingProgrammer/render-markdown.nvim',
+    -- dependencies = { 'nvim-treesitter/nvim-treesitter', 'echasnovski/mini.nvim' }, -- if you use the mini.nvim suite
+    -- dependencies = { 'nvim-treesitter/nvim-treesitter', 'echasnovski/mini.icons' }, -- if you use standalone mini plugins
+    dependencies = { 'nvim-treesitter/nvim-treesitter', 'nvim-tree/nvim-web-devicons' }, -- if you prefer nvim-web-devicons
+    ---@module 'render-markdown'
+    ---@type render.md.UserConfig
+    opts = {
+      -- run on both Markdown and Quarto files
+      file_types = { 'markdown', 'quarto' },
+      -- means that in normal, command, and terminal modes you'll get a rendered view,
+      -- and in other modes such as insert the marks added by the plugin will disappear.
+      -- render_modes = { 'n', 'c', 't' },
+      -- in all modes
+      render_modes = true,
+      completions = {
+        blink = { enabled = true },
+        lsp = { enabled = true },
+      },
+      -- checkbox = {
+      --   enabled = true,
+      --   render_modes = true,
+      --   bullet = true,
+      --   right_pad = 1,
+      --   unchecked = {
+      --     icon = '󰄱 ',
+      --     highlight = 'RenderMarkdownUnchecked',
+      --     scope_highlight = nil,
+      --   },
+      --   checked = {
+      --     icon = '󰱒 ',
+      --     highlight = 'RenderMarkdownChecked',
+      --     scope_highlight = nil,
+      --   },
+      --   custom = {
+      --     todo = {
+      --       raw = '[-]',
+      --       rendered = '󰥔 ',
+      --       highlight = 'RenderMarkdownTodo',
+      --       scope_highlight = nil,
+      --     },
+      --     important = {
+      --       raw = '[~]',
+      --       rendered = '󰓎 ',
+      --       highlight = 'DiagnosticWarn',
+      --     },
+      --     checked = {
+      --       scope_highlight = '@markup.strikethrough',
+      --     },
+      --   },
+      -- },
+      --   code = {
+      --     enabled = true,
+      --     render_modes = false,
+      --     sign = true,
+      --     conceal_delimiters = true,
+      --     language = true,
+      --     position = 'left',
+      --     language_icon = true,
+      --     language_name = true,
+      --     language_info = true,
+      --     language_pad = 0,
+      --     disable_background = { 'diff' },
+      --     width = 'full',
+      --     left_margin = 0,
+      --     left_pad = 0,
+      --     right_pad = 0,
+      --     min_width = 0,
+      --     border = 'hide',
+      --     language_border = '█',
+      --     language_left = '',
+      --     language_right = '',
+      --     above = '▄',
+      --     below = '▀',
+      --     inline = true,
+      --     inline_left = '',
+      --     inline_right = '',
+      --     inline_pad = 0,
+      --     highlight = 'RenderMarkdownCode',
+      --     highlight_info = 'RenderMarkdownCodeInfo',
+      --     highlight_language = nil,
+      --     highlight_border = 'RenderMarkdownCodeBorder',
+      --     highlight_fallback = 'RenderMarkdownCodeFallback',
+      --     highlight_inline = 'RenderMarkdownCodeInline',
+      --     style = 'full',
+      --   },
+      --   latex = {
+      --     enabled = true,
+      --     render_modes = false,
+      --     converter = 'latex2text',
+      --     highlight = 'RenderMarkdownMath',
+      --     position = 'above',
+      --     top_pad = 0,
+      --     bottom_pad = 0,
+      --   },
+      --   quote = {
+      --     enabled = true,
+      --     render_modes = false,
+      --     icon = '▋',
+      --     repeat_linebreak = false,
+      --     highlight = {
+      --       'RenderMarkdownQuote1',
+      --       'RenderMarkdownQuote2',
+      --       'RenderMarkdownQuote3',
+      --       'RenderMarkdownQuote4',
+      --       'RenderMarkdownQuote5',
+      --       'RenderMarkdownQuote6',
+      --     },
+      --   },
+    },
+  },
+}

lua/kickstart/plugins/obsidian.lua

@@ -53,7 +53,7 @@ return {
       -- Optional, if you keep daily notes in a separate directory.
       folder = 'journal/daily',
       -- Optional, if you want to change the date format for the ID of daily notes.
-      date_format = '%Y-%m-%d',
+      date_format = '%Y%m%d',
       -- Optional, if you want to change the date format of the default alias of daily notes.
       alias_format = '%B %-d, %Y',
       -- Optional, default tags to add to each new daily note created.

lua/kickstart/plugins/quarto.lua

@@ -4,6 +4,11 @@
 -- molten: https://github.com/benlubas/molten-nvim
 --
 
+--local wh_status, wh = pcall(require, 'custom.plugins.window-helper')
+--if not wh_status then
+--  return
+--end
+
 return {
   {
     'quarto-dev/quarto-nvim',
@@ -17,10 +22,21 @@ return {
       lspFeatures = {
         enabled = true,
         chunks = 'curly',
+        languages = { 'r', 'python', 'julia', 'bash', 'html' },
+        diagnostics = {
+          enabled = true,
+          triggers = { 'BufWritePost' },
+        },
+        completion = {
+          enabled = true,
+        },
       },
       codeRunner = {
         enabled = true,
-        default_method = 'slime',
+        default_method = 'slime', -- "molten", "slime", "iron" or <function>
+        ft_runners = {}, -- filetype to runner, ie. `{ python = "molten" }`.
+        -- Takes precedence over `default_method`
+        never_run = { 'yaml' }, -- filetypes which are never sent to a code runner
       },
     },
   },
@@ -87,6 +103,12 @@ return {
       vim.g.molten_auto_open_output = true
       -- vim.g.molten_auto_open_html_in_browser = true
       vim.g.molten_tick_rate = 200
+      vim.g.molten_output_win_col = math.floor((vim.o.columns - vim.o.columns * 0.9) / 2)
+      vim.g.molten_output_win_max_width = math.floor(vim.o.columns * 0.9)
+      vim.g.molten_output_win_border = { '╭', '─', '╮', '│', '╯', '─', '╰', '│' }
+      vim.g.molten_use_border_highlights = true
+      vim.g.molten_output_win_style = 'minimal' -- Style minimal pour la fenêtre
+      vim.g.molten_output_win_hide_on_leave = false -- Garder la fenêtre visible après avoir quitté
     end,
     config = function()
       -- local init = function()
@@ -108,7 +130,7 @@ return {
     end,
     opts = {
       auto_scroll = true,
-      jupyter_command = '/home/jeff/.asdf/shims/jupyter',
+      -- jupyter_command = '/home/jeff/.asdf/shims/jupyter',
     },
   },
   {
@@ -124,7 +146,7 @@ return {
           download_remote_images = true,
           only_render_image_at_cursor = false,
           only_render_image_at_cursor_mode = 'popup',
-          floating_windows = false, -- if true, images will be rendered in floating markdown windows
+          floating_windows = true, -- if true, images will be rendered in floating markdown windows
           filetypes = { 'markdown', 'vimwiki', 'quarto' }, -- markdown extensions (ie. quarto) can go here
         },
         neorg = {
@@ -145,7 +167,7 @@ return {
       max_width = nil,
       max_height = nil,
       max_width_window_percentage = nil,
-      max_height_window_percentage = 50,
+      max_height_window_percentage = 70,
       window_overlap_clear_enabled = false, -- toggles images when windows are overlapped
       window_overlap_clear_ft_ignore = { 'cmp_menu', 'cmp_docs', 'snacks_notif', 'scrollview', 'scrollview_sign' },
       editor_only_render_when_focused = false, -- auto show/hide images when the editor gains/looses focus

lua/kickstart/plugins/themes.lua

@@ -0,0 +1,63 @@
+-- Themes
+--
+--
+
+return {
+  -- You can easily change to a different colorscheme.
+  -- Change the name of the colorscheme plugin below, and then
+  -- change the command in the config to whatever the name of that colorscheme is.
+  --
+  -- If you want to see what colorschemes are already installed, you can use `:Telescope colorscheme`.
+
+  {
+    'bluz71/vim-moonfly-colors',
+    lazy = false,
+    priority = 1000,
+    config = function()
+      vim.cmd.syntax 'enable'
+      vim.g.moonflyCursorColor = true
+      vim.g.moonflyItalics = true
+      vim.g.moonflyNormalFloat = true
+      vim.g.moonflyTerminalColors = true
+      vim.g.moonflyUndercurls = true
+      vim.g.moonflyUnderlineMatchParen = true
+      vim.g.moonflyVirtualTextColor = true
+
+      vim.api.nvim_set_hl(0, 'MoltenOutputBorder', { link = 'Normal' })
+      vim.api.nvim_set_hl(0, 'MoltenOutputBorderFail', { link = 'MoonflyCrimson' })
+      vim.api.nvim_set_hl(0, 'MoltenOutputBorderSuccess', { link = 'MoonflyBlue' })
+    end,
+  },
+
+  {
+    -- Like many other themes, this one has different styles, and you could load
+    -- any other, such as 'tokyonight-storm', 'tokyonight-moon', or 'tokyonight-day'.
+    'folke/tokyonight.nvim',
+    priority = 1000, -- Make sure to load this before all the other start plugins.
+    config = function()
+      ---@diagnostic disable-next-line: missing-fields
+      require('tokyonight').setup {
+        styles = {
+          comments = { italic = false }, -- Disable italics in comments
+        },
+      }
+    end,
+  },
+  {
+    'yorumicolors/yorumi.nvim',
+    priority = 1000, -- Make sure to load this before all the other start plugins.
+    config = function()
+      ---@diagnostic disable-next-line: missing-fields
+    end,
+  },
+  {
+    'navarasu/onedark.nvim',
+    priority = 1000, -- make sure to load this before all the other start plugins
+    config = function()
+      require('onedark').setup {
+        style = 'darker',
+      }
+      -- require('onedark').load()
+    end,
+  },
+}

lua/kickstart/themes/onedark.lua

@@ -1,15 +0,0 @@
--- Themes
---
-
-return {
-  {
-    'navarasu/onedark.nvim',
-    priority = 1000, -- make sure to load this before all the other start plugins
-    config = function()
-      require('onedark').setup {
-        style = 'darker',
-      }
-      require('onedark').load()
-    end,
-  },
-}

lua/kickstart/themes/tokyonight.lua

@@ -1,26 +0,0 @@
--- Tokyonight
--- https://github.com/folke/tokyonight.nvim
-
-return {
-  { -- You can easily change to a different colorscheme.
-    -- Change the name of the colorscheme plugin below, and then
-    -- change the command in the config to whatever the name of that colorscheme is.
-    --
-    -- If you want to see what colorschemes are already installed, you can use `:Telescope colorscheme`.
-    'folke/tokyonight.nvim',
-    priority = 1000, -- Make sure to load this before all the other start plugins.
-    config = function()
-      ---@diagnostic disable-next-line: missing-fields
-      require('tokyonight').setup {
-        styles = {
-          comments = { italic = false }, -- Disable italics in comments
-        },
-      }
-
-      -- Load the colorscheme here.
-      -- Like many other themes, this one has different styles, and you could load
-      -- any other, such as 'tokyonight-storm', 'tokyonight-moon', or 'tokyonight-day'.
-      vim.cmd.colorscheme 'tokyonight-night'
-    end,
-  },
-}

lua/kickstart/themes/yorumi.lua

@@ -1,22 +0,0 @@
--- Yorumi
--- https://github.com/yorumicolors/yorumi.nvim
-
-return {
-  { -- You can easily change to a different colorscheme.
-    -- Change the name of the colorscheme plugin below, and then
-    -- change the command in the config to whatever the name of that colorscheme is.
-    --
-    -- If you want to see what colorschemes are already installed, you can use `:Telescope colorscheme`.
-    'yorumicolors/yorumi.nvim',
-    priority = 1000, -- Make sure to load this before all the other start plugins.
-    config = function()
-      ---@diagnostic disable-next-line: missing-fields
-
-      -- Load the colorscheme here.
-      -- Like many other themes, this one has different styles, and you could load
-      -- any other, such as 'tokyonight-storm', 'tokyonight-moon', or 'tokyonight-day'.
-      vim.cmd.colorscheme 'yorumi'
-    end,
-  },
-}
-