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behinger (s-ccs 001) 2023-10-05 19:34:08 +00:00
parent e7a5c927ae
commit 294790899d
14 changed files with 1024 additions and 21078 deletions
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8
_extensions/shafayetShafee/downloadthis/_extension.yml Normal file
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title: Downloadthis
author: Shafayet Khan Shafee
version: 1.1.0
quarto-required: ">=1.2.0"
contributes:
shortcodes:
- downloadthis.lua

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_extensions/shafayetShafee/downloadthis/downloadthis.lua Normal file
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--[[
MIT License
Copyright (c) 2023 Shafayet Khan Shafee
Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal
in the Software without restriction, including without limitation the rights
to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
copies of the Software, and to permit persons to whom the Software is
furnished to do so, subject to the following conditions:
The above copyright notice and this permission notice shall be included in all
copies or substantial portions of the Software.
THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
SOFTWARE.
]]--
local str = pandoc.utils.stringify
--local p = quarto.log.output
local function ensureHtmlDeps()
quarto.doc.add_html_dependency({
name = "downloadthis",
version = "1.9.1",
stylesheets = {"resources/css/downloadthis.css"}
})
end
local function optional(arg, default)
if arg == nil or arg == ""
then
return default
else
return arg
end
end
function import(script)
local path = PANDOC_SCRIPT_FILE:match("(.*[/\\])")
package.path = path .. script .. ";" .. package.path
return require(script)
end
local puremagic = import("puremagic.lua")
return {
['downloadthis'] = function(args, kwargs, meta)
-- args and kwargs
local file_path = str(args[1])
local extension = "." .. file_path:match("[^.]+$")
local dname = optional(str(kwargs["dname"]), "file")
local dfilename = dname .. extension
local btn_label = " " .. optional(str(kwargs["label"]), "Download") .. " "
local btn_type = optional(str(kwargs["type"]), "default")
local icon = optional(str(kwargs["icon"]), "download")
local class = " " .. optional(str(kwargs["class"]), "")
local rand = "dnldts" .. str(math.random(1, 65000))
local id = optional(str(kwargs["id"]), rand)
-- reading files
local fh = io.open(file_path, "rb")
if not fh then
io.stderr:write("Cannot open file " ..
file_path ..
" | Skipping adding buttons\n")
return pandoc.Null()
else
local contents = fh:read("*all")
fh:close()
-- creating dataURI object
local b64_encoded = quarto.base64.encode(contents)
local mimetype = puremagic.via_path(file_path)
local data_uri = 'data:' .. mimetype .. ";base64," .. b64_encoded
-- js code taken from
-- https://github.com/fmmattioni/downloadthis/blob/master/R/utils.R#L59
local js = [[fetch('%s').then(res => res.blob()).then(blob => {
const downloadURL = window.URL.createObjectURL(blob);
const a = document.createElement('a');
document.body.appendChild(a);
a.href = downloadURL;
a.download = '%s'; a.click();
window.URL.revokeObjectURL(downloadURL);
document.body.removeChild(a);
});]]
local clicked = js:format(data_uri, dfilename)
-- creating button
local button =
"<button class=\"btn btn-" .. btn_type .. " downloadthis " ..
class .. "\"" ..
" id=\"" .. id .. "\"" ..
"><i class=\"bi bi-" .. icon .. "\"" .. "></i>" ..
btn_label ..
"</button>"
if quarto.doc.is_format("html:js") and quarto.doc.has_bootstrap()
then
ensureHtmlDeps()
return pandoc.RawInline('html',
"<a href=\"#" .. id .. "\"" ..
" onclick=\"" .. clicked .. "\">" .. button .. "</a>"
)
else
return pandoc.Null()
end
end
end
}

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_extensions/shafayetShafee/downloadthis/puremagic.lua Normal file
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-- puremagic 1.0.1
-- Copyright (c) 2014 Will Bond <will@wbond.net>
-- Licensed under the MIT license.
function basename(path)
local basename_match = path:match('[/\\]([^/\\]+)$')
if basename_match then
return basename_match, nil
end
return path, nil
end
function extension(path)
path = path:lower()
local tar_match = path:match('%.(tar%.[^.]+)$')
if tar_match then
return tar_match
end
if path:sub(#path - 11, #path) == '.numbers.zip' then
return 'numbers.zip'
end
if path:sub(#path - 9, #path) == '.pages.zip' then
return 'pages.zip'
end
if path:sub(#path - 7, #path) == '.key.zip' then
return 'key.zip'
end
return path:match('%.([^.]+)$')
end
function in_table(value, list)
for i=1, #list do
if list[i] == value then
return true
end
end
return false
end
function string_to_bit_table(chars)
local output = {}
for char in chars:gmatch('.') do
local num = string.byte(char)
local bits = {0, 0, 0, 0, 0, 0, 0, 0}
for bit=8, 1, -1 do
if num > 0 then
bits[bit] = math.fmod(num, 2)
num = (num - bits[bit]) / 2
end
end
table.insert(output, bits)
end
return output
end
function bit_table_to_string(bits)
local output = {}
for i = 1, #bits do
local num = tonumber(table.concat(bits[i]), 2)
table.insert(output, string.format('%c', num))
end
return table.concat(output)
end
function bitwise_and(a, b)
local a_bytes = string_to_bit_table(a)
local b_bytes = string_to_bit_table(b)
local output = {}
for i = 1, #a_bytes do
local bits = {0, 0, 0, 0, 0, 0, 0, 0}
for j = 1, 8 do
if a_bytes[i][j] == 1 and b_bytes[i][j] == 1 then
bits[j] = 1
else
bits[j] = 0
end
end
table.insert(output, bits)
end
return bit_table_to_string(output)
end
-- Unpack a little endian byte string into an integer
function unpack_le(chars)
local bit_table = string_to_bit_table(chars)
-- Merge the bits into a string of 1s and 0s
local result = {}
for i=1, #bit_table do
result[#chars + 1 - i] = table.concat(bit_table[i])
end
return tonumber(table.concat(result), 2)
end
-- Unpack a big endian byte string into an integer
function unpack_be(chars)
local bit_table = string_to_bit_table(chars)
-- Merge the bits into a string of 1s and 0s
for i=1, #bit_table do
bit_table[i] = table.concat(bit_table[i])
end
return tonumber(table.concat(bit_table), 2)
end
-- Takes the first 4-8k of an EBML file and identifies if it is matroska or webm
-- and it it contains just video or just audio.
function ebml_parse(content)
local position = 1
local length = #content
local header_token, header_value, used_bytes = ebml_parse_section(content)
position = position + used_bytes
if header_token ~= '\x1AE\xDF\xA3' then
return nil, 'Unable to find EBML ID'
end
-- The matroska spec sets the default doctype to be 'matroska', however
-- many file specify this anyway. The other option is 'webm'.
local doctype = 'matroska'
if header_value['B\x82'] then
doctype = header_value['B\x82']
end
if doctype ~= 'matroska' and doctype ~= 'webm' then
return nil, 'Unknown EBML doctype'
end
local segment_position = nil
local track_position = nil
local has_video = false
local found_tracks = false
while position <= length do
local ebml_id, ebml_value, used_bytes = ebml_parse_section(content:sub(position, length))
position = position + used_bytes
-- Segment
if ebml_id == '\x18S\x80g' then
segment_position = position
end
-- Meta seek information
if ebml_id == '\x11M\x9Bt' then
-- Look for the seek info about the tracks token
for i, child in ipairs(ebml_value['M\xBB']) do
if child['S\xAB'] == '\x16T\xAEk' then
track_position = segment_position + unpack_be(child['S\xAC'])
position = track_position
break
end
end
end
-- Track
if ebml_id == '\x16T\xAEk' then
found_tracks = true
-- Scan through each track looking for video
for i, child in ipairs(ebml_value['\xAE']) do
-- Look to see if the track type is video
if unpack_be(child['\x83']) == 1 then
has_video = true
break
end
end
break
end
end
if found_tracks and not has_video then
if doctype == 'matroska' then
return 'audio/x-matroska'
else
return 'audio/webm'
end
end
if doctype == 'matroska' then
return 'video/x-matroska'
else
return 'video/webm'
end
end
-- Parses a section of an EBML document, returning the EBML ID at the beginning,
-- plus the value as a table with child EBML IDs as keys and the number of
-- bytes from the content that contained the ID and value
function ebml_parse_section(content)
local ebml_id, element_length, used_bytes = ebml_id_and_length(content)
-- Don't parse the segment since it is the whole file!
if ebml_id == '\x18\x53\x80\x67' then
return ebml_id, nil, used_bytes
end
local ebml_value = content:sub(used_bytes + 1, used_bytes + element_length)
used_bytes = used_bytes + element_length
-- We always parse the return value of level 0/1 elements
local recursive_parse = false
if #ebml_id == 4 then
recursive_parse = true
-- We need Seek information
elseif ebml_id == '\x4D\xBB' then
recursive_parse = true
-- We want the top-level of TrackEntry to grab the TrackType
elseif ebml_id == '\xAE' then
recursive_parse = true
end
if recursive_parse then
local buffer = ebml_value
ebml_value = {}
-- Track which child entries have been converted to an array
local array_children = {}
while #buffer > 0 do
local child_ebml_id, child_ebml_value, child_used_bytes = ebml_parse_section(buffer)
if array_children[child_ebml_id] then
table.insert(ebml_value[child_ebml_id], child_ebml_value)
-- Single values are just stores by themselves
elseif ebml_value[child_ebml_id] == nil then
-- Force seek info and tracks to be arrays even if there is only one
if child_ebml_id == 'M\xBB' or child_ebml_id == '\xAE' then
child_ebml_value = {child_ebml_value}
array_children[child_ebml_id] = true
end
ebml_value[child_ebml_id] = child_ebml_value
-- If there is already a value for the ID, turn it into a table
else
ebml_value[child_ebml_id] = {ebml_value[child_ebml_id], child_ebml_value}
array_children[child_ebml_id] = true
end
-- Move past the part we've parsed
buffer = buffer:sub(child_used_bytes + 1, #buffer)
end
end
return ebml_id, ebml_value, used_bytes
end
-- Should accept 12+ bytes, will return the ebml id, the data length and the
-- number of bytes that were used to hold those values.
function ebml_id_and_length(chars)
-- The ID is encoded the same way as the length, however, we don't want
-- to remove the length bits from the ID value or intepret it as an
-- unsigned int since all of the documentation online references the IDs in
-- encoded form.
local _, id_length = ebml_length(chars:sub(1, 4))
local ebml_id = chars:sub(1, id_length)
local remaining = chars:sub(id_length + 1, id_length + 8)
local element_length, used_bytes = ebml_length(remaining)
return ebml_id, element_length, id_length + used_bytes
end
-- Should accept 8+ bytes, will return the data length plus the number of bytes
-- that were used to hold the data length.
function ebml_length(chars)
-- We substring chars to ensure we don't build a huge table we don't need
local bit_tables = string_to_bit_table(chars:sub(1, 8))
local value_length = 1
for i=1, #bit_tables[1] do
if bit_tables[1][i] == 0 then
value_length = value_length + 1
else
-- Clear the indicator bit so the rest of the byte
bit_tables[1][i] = 0
break
end
end
local bits = {}
for i=1, value_length do
table.insert(bits, table.concat(bit_tables[i]))
end
return tonumber(table.concat(bits), 2), value_length
end
function binary_tests(content, ext)
local length = #content
local _1_8 = content:sub(1, 8)
local _1_7 = content:sub(1, 7)
local _1_6 = content:sub(1, 6)
local _1_5 = content:sub(1, 5)
local _1_4 = content:sub(1, 4)
local _1_3 = content:sub(1, 3)
local _1_2 = content:sub(1, 2)
local _9_12 = content:sub(9, 12)
-- Images
if _1_4 == '\xC5\xD0\xD3\xC6' then
-- With a Windows-format EPS, the file starts right after a 30-byte
-- header, or a 30-byte header followed by two bytes of padding
if content:sub(33, 42) == '%!PS-Adobe' or content:sub(31, 40) == '%!PS-Adobe' then
return 'application/postscript'
end
end
if _1_8 == '%!PS-Ado' and content:sub(9, 10) == 'be' then
return 'application/postscript'
end
if _1_4 == 'MM\x00*' or _1_4 == 'II*\x00' then
return 'image/tiff'
end
if _1_8 == '\x89PNG\r\n\x1A\n' then
return 'image/png'
end
if _1_6 == 'GIF87a' or _1_6 == 'GIF89a' then
return 'image/gif'
end
if _1_4 == 'RIFF' and _9_12 == 'WEBP' then
return 'image/webp'
end
if _1_2 == 'BM' and length > 14 and in_table(content:sub(15, 15), {'\x0C', '(', '@', '\x80'}) then
return 'image/x-ms-bmp'
end
local normal_jpeg = length > 10 and in_table(content:sub(7, 10), {'JFIF', 'Exif'})
local photoshop_jpeg = length > 24 and _1_4 == '\xFF\xD8\xFF\xED' and content:sub(21, 24) == '8BIM'
if normal_jpeg or photoshop_jpeg then
return 'image/jpeg'
end
if _1_4 == '8BPS' then
return 'image/vnd.adobe.photoshop'
end
if _1_8 == '\x00\x00\x00\x0CjP ' and _9_12 == '\r\n\x87\n' then
return 'image/jp2'
end
if _1_4 == '\x00\x00\x01\x00' then
return 'application/vnd.microsoft.icon'
end
-- Audio/Video
if _1_4 == '\x1AE\xDF\xA3' and length > 1000 then
local mimetype, err = ebml_parse(content)
if mimetype then
return mimetype
end
end
if _1_4 == 'MOVI' then
if in_table(content:sub(5, 8), {'moov', 'mdat'}) then
return 'video/quicktime'
end
end
if length > 8 and content:sub(5, 8) == 'ftyp' then
local lower_9_12 = _9_12:lower()
if in_table(lower_9_12, {'avc1', 'isom', 'iso2', 'mp41', 'mp42', 'mmp4', 'ndsc', 'ndsh', 'ndsm', 'ndsp', 'ndss', 'ndxc', 'ndxh', 'ndxm', 'ndxp', 'ndxs', 'f4v ', 'f4p ', 'm4v '}) then
return 'video/mp4'
end
if in_table(lower_9_12, {'msnv', 'ndas', 'f4a ', 'f4b ', 'm4a ', 'm4b ', 'm4p '}) then
return 'audio/mp4'
end
if in_table(lower_9_12, {'3g2a', '3g2b', '3g2c', 'kddi'}) then
return 'video/3gpp2'
end
if in_table(lower_9_12, {'3ge6', '3ge7', '3gg6', '3gp1', '3gp2', '3gp3', '3gp4', '3gp5', '3gp6', '3gs7'}) then
return 'video/3gpp'
end
if lower_9_12 == 'mqt ' or lower_9_12 == 'qt ' then
return 'video/quicktime'
end
if lower_9_12 == 'jp2 ' then
return 'image/jp2'
end
end
-- MP3
if bitwise_and(_1_2, '\xFF\xF6') == '\xFF\xF2' then
local byte_3 = content:sub(3, 3)
if bitwise_and(byte_3, '\xF0') ~= '\xF0' and bitwise_and(byte_3, "\x0C") ~= "\x0C" then
return 'audio/mpeg'
end
end
if _1_3 == 'ID3' then
return 'audio/mpeg'
end
if _1_4 == 'fLaC' then
return 'audio/x-flac'
end
if _1_8 == '0&\xB2u\x8Ef\xCF\x11' then
-- Without writing a full-on ASF parser, we can just scan for the
-- UTF-16 string "AspectRatio"
if content:find('\x00A\x00s\x00p\x00e\x00c\x00t\x00R\x00a\x00t\x00i\x00o', 1, true) then
return 'video/x-ms-wmv'
end
return 'audio/x-ms-wma'
end
if _1_4 == 'RIFF' and _9_12 == 'AVI ' then
return 'video/x-msvideo'
end
if _1_4 == 'RIFF' and _9_12 == 'WAVE' then
return 'audio/x-wav'
end
if _1_4 == 'FORM' and _9_12 == 'AIFF' then
return 'audio/x-aiff'
end
if _1_4 == 'OggS' then
local _29_33 = content:sub(29, 33)
if _29_33 == '\x01vorb' then
return 'audio/vorbis'
end
if _29_33 == '\x07FLAC' then
return 'audio/x-flac'
end
if _29_33 == 'OpusH' then
return 'audio/ogg'
end
-- Theora and OGM
if _29_33 == '\x80theo' or _29_33 == 'vide' then
return 'video/ogg'
end
end
if _1_3 == 'FWS' or _1_3 == 'CWS' then
return 'application/x-shockwave-flash'
end
if _1_3 == 'FLV' then
return 'video/x-flv'
end
if _1_5 == '%PDF-' then
return 'application/pdf'
end
if _1_5 == '{\\rtf' then
return 'text/rtf'
end
-- Office '97-2003 formats
if _1_8 == '\xD0\xCF\x11\xE0\xA1\xB1\x1A\xE1' then
if in_table(ext, {'xls', 'csv', 'tab'}) then
return 'application/vnd.ms-excel'
end
if ext == 'ppt' then
return 'application/vnd.ms-powerpoint'
end
-- We default to word since we need something if the extension isn't recognized
return 'application/msword'
end
if _1_8 == '\x09\x04\x06\x00\x00\x00\x10\x00' then
return 'application/vnd.ms-excel'
end
if _1_6 == '\xDB\xA5\x2D\x00\x00\x00' or _1_5 == '\x50\x4F\x5E\x51\x60' or _1_4 == '\xFE\x37\x00\x23' or _1_3 == '\x94\xA6\x2E' then
return 'application/msword'
end
if _1_4 == 'PK\x03\x04' then
-- Office XML formats
if ext == 'xlsx' then
return 'application/vnd.ms-excel'
end
if ext == 'pptx' then
return 'application/vnd.ms-powerpoint'
end
if ext == 'docx' then
return 'application/msword'
end
-- Open Office formats
if ext == 'ods' then
return 'application/vnd.oasis.opendocument.spreadsheet'
end
if ext == 'odp' then
return 'application/vnd.oasis.opendocument.presentation'
end
if ext == 'odt' then
return 'application/vnd.oasis.opendocument.text'
end
-- iWork - some programs like Mac Mail change the filename to
-- .numbers.zip, etc
if ext == 'pages' or ext == 'pages.zip' then
return 'application/vnd.apple.pages'
end
if ext == 'key' or ext == 'key.zip' then
return 'application/vnd.apple.keynote'
end
if ext == 'numbers' or ext == 'numbers.zip' then
return 'application/vnd.apple.numbers'
end
-- Otherwise just a zip
return 'application/zip'
end
-- Archives
if length > 257 then
if content:sub(258, 263) == 'ustar\x00' then
return 'application/x-tar'
end
if content:sub(258, 265) == 'ustar\x40\x40\x00' then
return 'application/x-tar'
end
end
if _1_7 == 'Rar!\x1A\x07\x00' or _1_8 == 'Rar!\x1A\x07\x01\x00' then
return 'application/x-rar-compressed'
end
if _1_2 == '\x1F\x9D' then
return 'application/x-compress'
end
if _1_2 == '\x1F\x8B' then
return 'application/x-gzip'
end
if _1_3 == 'BZh' then
return 'application/x-bzip2'
end
if _1_6 == '\xFD7zXZ\x00' then
return 'application/x-xz'
end
if _1_6 == '7z\xBC\xAF\x27\x1C' then
return 'application/x-7z-compressed'
end
if _1_2 == 'MZ' then
local pe_header_start = unpack_le(content:sub(61, 64))
local signature = content:sub(pe_header_start + 1, pe_header_start + 4)
if signature == 'PE\x00\x00' then
local image_file_header_start = pe_header_start + 5
local characteristics = content:sub(image_file_header_start + 18, image_file_header_start + 19)
local is_dll = bitwise_and(characteristics, '\x20\x00') == '\x20\x00'
if is_dll then
return 'application/x-msdownload'
end
return 'application/octet-stream'
end
end
return nil
end
function text_tests(content)
local lower_content = content:lower()
if content:find('^%%!PS-Adobe') then
return 'application/postscript'
end
if lower_content:find('<?php', 1, true) or content:find('<?=', 1, true) then
return 'application/x-httpd-php'
end
if lower_content:find('^%s*<%?xml') then
if content:find('<svg') then
return 'image/svg+xml'
end
if lower_content:find('<!doctype html') then
return 'application/xhtml+xml'
end
if content:find('<rss') then
return 'application/rss+xml'
end
return 'application/xml'
end
if lower_content:find('^%s*<html') or lower_content:find('^%s*<!doctype') then
return 'text/html'
end
if lower_content:find('^#![/a-z0-9]+ ?python') then
return 'application/x-python'
end
if lower_content:find('^#![/a-z0-9]+ ?perl') then
return 'application/x-perl'
end
if lower_content:find('^#![/a-z0-9]+ ?ruby') then
return 'application/x-ruby'
end
if lower_content:find('^#![/a-z0-9]+ ?php') then
return 'application/x-httpd-php'
end
if lower_content:find('^#![/a-z0-9]+ ?bash') then
return 'text/x-shellscript'
end
return nil
end
local ext_map = {
css = 'text/css',
csv = 'text/csv',
htm = 'text/html',
html = 'text/html',
xhtml = 'text/html',
ics = 'text/calendar',
js = 'application/javascript',
php = 'application/x-httpd-php',
php3 = 'application/x-httpd-php',
php4 = 'application/x-httpd-php',
php5 = 'application/x-httpd-php',
inc = 'application/x-httpd-php',
pl = 'application/x-perl',
cgi = 'application/x-perl',
py = 'application/x-python',
rb = 'application/x-ruby',
rhtml = 'application/x-ruby',
rss = 'application/rss+xml',
sh = 'text/x-shellscript',
tab = 'text/tab-separated-values',
vcf = 'text/x-vcard',
xml = 'application/xml'
}
function ext_tests(ext)
local mimetype = ext_map[ext]
if mimetype then
return mimetype
end
return 'text/plain'
end
local _M = {}
function _M.via_path(path, filename)
local f, err = io.open(path, 'r')
if not f then
return nil, err
end
local content = f:read(4096)
f:close()
if not filename then
filename = basename(path)
end
return _M.via_content(content, filename)
end
function _M.via_content(content, filename)
local ext = extension(filename)
-- If there are no low ASCII chars and no easily distinguishable tokens,
-- we need to detect by file extension
local mimetype = nil
mimetype = binary_tests(content, ext)
if mimetype then
return mimetype
end
-- Binary-looking files should have been detected so far
if content:find('[%z\x01-\x08\x0B\x0C\x0E-\x1F]') then
return 'application/octet-stream'
end
mimetype = text_tests(content)
if mimetype then
return mimetype
end
return ext_tests(ext)
end
return _M

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@ -0,0 +1,13 @@
.downloadthis:focus,
.downloadthis:active {
box-shadow: none !important;
}
.downloadthis:hover {
transition: 0.2s;
filter: brightness(0.90);
}
.downloadthis:active {
filter: brightness(0.80);
}

2
_quarto.yml
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@ -73,7 +73,7 @@ website:
text: "🛠 2 - Visualizations: Exercises"
- href: material/3_wed/linalg/slides.qmd
text: "📝 3 - LinearAlgebra"
- href: material/3_wed/regression/missing.jl
- href: material/3_wed/regression/MultipleRegressionBasics.qmd
text: "📝 4 - Multiple Regression"
- section: "Thursday"

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material/1_mon/firststeps/firststeps_handout.qmd
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@ -21,10 +21,6 @@ VSCode automatically loads the `Revise.jl` package, which screens all your activ
## Syntax differences Python/R/MatLab
### In the beginning there was `nothing`
`nothing`- but also `NaN` and also `Missing`.
Each of those has a specific purpose, but most likely we will only need `a = nothing` and `b = NaN`.
### Control Structures
@ -94,6 +90,14 @@ end
myfunction(args...;kwargs...) = myotherfunction(newarg,args...;kwargs...)
```
### In the beginning there was `nothing`
`nothing`- but also `NaN` and also `Missing`.
Each of those has a specific purpose, but most likely we will only need `a = nothing` and `b = NaN`.
Note that `NaN` counts as a Float-Number, whereas nothing & missing does not.
#### Excourse: splatting & slurping
Think of it as unpacking / collecting something

2
material/1_mon/rse/rse_basics_slides.qmd
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@ -25,8 +25,6 @@ Find all slides, all materials, and the schedule
- Check out the schedule
- You will learn to use basic Julia
- In the beginning we will focus on the Research Software Engineering part!
- Advanced Julia, later this week and by request ;)

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@ -0,0 +1,84 @@
{
"cells": [
{
"cell_type": "markdown",
"metadata": {},
"source": [
"# Task 1: Docstrings {#1}\n",
"1. Add Docstrings to some of your functions.\n",
"2. Load the package, and check you can see the docstrings using e.g. `?rse_mean`\n",
"\n",
"-----\n",
"\n",
"# Task 2: Documenter.jl {#1}\n",
"### Folderstructure\n",
"1. create folders/files:\n",
"```\n",
"docs/\n",
"├── src/\n",
"├── src/mydocs.jl\n",
"└── make.jl\n",
"```\n",
"\n",
"### add some docs\n",
"2. with mydocs containing\n",
"\n",
"\n",
"````{verbatim}\n",
"```@docs \n",
"func(x)\n",
"```\n",
"\n",
"````\n",
"\n",
"and\n",
"\n",
"`make.jl` containing\n",
"```julia\n",
"using Documenter, Example\n",
"\n",
"makedocs(sitename=\"My Documentation\")\n",
"```\n",
"\n",
"### 3. Generate\n",
"Generate the docs using `include(\"make.jl\")` after activating the `./docs/Project.toml`\n",
"\n",
":::callout\n",
"## Bonus-Task\n",
" Use [`LiveServer.jl`](https://github.com/tlienart/LiveServer.jl) to automatically update a local preview of your documentation (follow [this tutorial](https://github.com/tlienart/LiveServer.jl#serve-docs) )\n",
":::\n",
"\n",
"### 4. Add a tutorial\n",
"Now add a tutorial `./docs/src/tutorial.md` which should contain a brief example simulating some data (using `rand`) and calculating mean, tstat and std on them.\n",
"\n",
"Use the `makedocs(...page=)` keywordargument.\n",
"\n",
"----\n",
"\n",
"# Task 3: PkgTemplate.jl {#3}\n",
"Generate a package MySecondStatsPackage using PkgTemplate. \n",
"\n",
"- Add github-actions for:\n",
" - coverage\n",
" - unittests\n",
" - docs\n",
"- MIT license\n",
"- README.md\n",
"\n",
"::: callout-tipp\n",
" Don't forget to activate the github-page in the github settings!\n",
":::"
],
"id": "7ec915e0"
}
],
"metadata": {
"kernelspec": {
"name": "python3",
"language": "python",
"display_name": "Python 3 (ipykernel)"
}
},
"nbformat": 4,
"nbformat_minor": 5
}

6
material/3_wed/linalg/slides.qmd
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@ -1,7 +1,11 @@
---
---
## Slides
The slides are available [in pptx format here](Julia_Matrices_Optimization_JuMP_Stuttgart2023.pptx). Note that there are a few extra slides in case you are motivated to learn more!
## Exercise
The exercise is available [as a jupyter-notebook here](Julia_Matrices_Optimization_JuMP_Stuttgart2023.ipynb).
The exercise is rendered [as html here](Julia_Matrices_Optimization_JuMP_Stuttgart2023.ipynb) but can also be downloaded {{< downloadthis Julia_Matrices_Optimization_JuMP_Stuttgart2023.ipynb label="Download as ipynb" >}}

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material/3_wed/vis/handout.qmd
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@ -229,7 +229,18 @@ data(penguins) * mapping(:bill_length_mm, :bill_depth_mm, color=:species) * (lin
data(penguins) * mapping(:bill_length_mm, :bill_depth_mm, color=:species) * (smooth() + visual(Scatter)) |> draw
```
### Advanced
```julia
h = data(penguins) * mapping(:bill_length_mm, :bill_depth_mm, color=:species) * (smooth() + visual(Scatter)) |> draw
h.grid
ax = h.grid[1,1].axis
ax + tab -> ax.xticks
h
```
## Task 3
[Click here for the next task](tasks.qmd#3)
[Click here for the next task](tasks.qmd#3)
df = CSV.read(download("https://raw.githubusercontent.com/rfordatascience/tidytuesday/master/data/2023/2023-04-11/egg-production.csv"),DataFrame)

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material/3_wed/vis/tasks.qmd
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@ -158,4 +158,40 @@ PlutoExtras.BondTable([
```
:::
# Task 3: AlgebraOfGraphics
# Task 3: AlgebraOfGraphics
For this task we need a dataset, and I choose the US EGG dataset for it's simplicity for you.
to load the data, use the following code
```julia
using DataFrames, HTTP, CSV
# dataset via https://github.com/rfordatascience/tidytuesday/tree/master
df = CSV.read(download("https://raw.githubusercontent.com/rfordatascience/tidytuesday/master/data/2023/2023-04-11/egg-production.csv"),DataFrame)
```
:::callout-tip
## If you dislike Pluto.jl
If you dont like to use Pluto.jl, you can of course switch back to VSCode. Then you have to create a new environment and add the packages you use before.
:::
## 🥚 vs. 🗓
Visualize the number of eggs against the year
:::callout-tip
To get a first overview, `first(df)` , `describe(df)` and `names(df)` are typically helpful
:::
## Split them up
Next split them up, choose `color` and `col` and choose reasonable columns from the dataset
## Rotate the labels
Use the trick from the handout to modify a plot after it was generated: Rotate the x-label ticks by some 30°
:::callout-tip
instead of rotating each axis manually, you can also replace the `draw` command in your pipeline with an anonymous function. This allows you to specify additional arguments e.g. to the axis, for all "sub"-plots
```julia
... |> x-> draw(x;axis=(;xlims = (-3,2))) # <1>
```
1. Note the `;` before xlims, this enforces that a `NamedTuple` is created