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project:bioosm:start [2018/07/15 18:25] – sachyproject:bioosm:start [2019/11/12 19:13] – springs sachy
Line 4: Line 4:
 name=Biologicke zbrane ve vasem okoli| name=Biologicke zbrane ve vasem okoli|
 image= bioosm:bioosm.jpg?400 | image= bioosm:bioosm.jpg?400 |
-founder=[[user:sachy:start]]|+founder=[[user:sachy]]|
 interested=[[user:sumie-dh]]| interested=[[user:sumie-dh]]|
 sw=CC-BY-SA| sw=CC-BY-SA|
Line 18: Line 18:
 ==== K cemu to je ==== ==== K cemu to je ====
  
-  *  interaktivni mapa vhodna k zobrazovani vetsiho mnozstvi fotek, brmlabi wiki, sluzby typu phtagr a soup se zdaly nevhodne k publikaci tohoto typu obsahu, wiki by byla prilis obludna, na beznych sdilecich obrazkovych sluzbach se neda nic pohodlne dohledavat a davat tam biologicky smysluplne a prehledne popisky +  * interaktivni mapa vhodna k zobrazovani vetsiho mnozstvi fotek, brmlabi wiki, sluzby typu phtagr a soup se zdaly nevhodne k publikaci tohoto typu obsahu, wiki by byla prilis obludna, na beznych sdilecich obrazkovych sluzbach se neda nic pohodlne dohledavat a davat tam biologicky smysluplne a prehledne popisky 
-  *  monitoring zivocichu a rostlin podle zajmu prispevovatelu  +  * monitoring zivocichu a rostlin podle zajmu prispevovatelu  
-  *  snadne klikaci katalogovani nalezu skrze Tellico nevyzadujici coding skills +  * snadne klikaci katalogovani nalezu skrze Tellico nevyzadujici coding skills 
-  *  TODO - jednoduche selekce zajmoveho okruhu subjektu [napr. podle rodu, biotopu, datumu] na mape+  * TODO - jednoduche selekce zajmoveho okruhu subjektu [napr. podle rodu, biotopu, datumu] na mape
   * procvicovani temne magie commandu grep, sed a regexpu   * procvicovani temne magie commandu grep, sed a regexpu
  
Line 28: Line 28:
 Podklad jsou [[https://openstreetmap.org|OSM]], ktere maji API [[http://openlayers.org/|OpenLayers]] jez umoznuje pridavat do mapy vlastni body, vrstvy... Podklad jsou [[https://openstreetmap.org|OSM]], ktere maji API [[http://openlayers.org/|OpenLayers]] jez umoznuje pridavat do mapy vlastni body, vrstvy...
  
-Jednotliva pozorovani jsou v databazi [[http://tellico-project.org/|Tellico]]. Udelal jsem script parse_tellico.sh, ktery z .tc databaze (je to vlastne ZIP s XML uvnitr) vyparsuje jednotlive polozky a vygeneruje HTML soubor s mapou a podadresar "det" s HTML strankami s detaily jednotlivych pozorovani.+Jednotliva pozorovani jsou v databazi [[http://tellico-project.org/|Tellico]]. Udelal jsem script parse_tellico.sh, ktery z .tc databaze (je to vlastne ZIP s XML uvnitr) vyparsuje jednotlive polozky a vygeneruje HTML soubor s mapou a podadresar "det" s HTML strankami s detaily jednotlivych pozorovani. Vygeneruje se taky JSON s vyparsovanymi polozkami, ktery lze z webu projektu stahnout. 
 + 
 +Pro nadsence je vygenerovany taky prehled prispevku plainlog.htm serazeny dle data pridani do databaze. 
 + 
 +Pokud chcete vedet co je noveho, odebirejte projektovou [[http://brmlab.s0c4.net/bioosm/bioosm.rss|RSS]]
  
 Obrazky v plnem rozliseni jsou v podadresari "img", nahledy v "simg". Videa jsou nahrana na YT a misto nahledu maji generickou ikonu. Obrazky v plnem rozliseni jsou v podadresari "img", nahledy v "simg". Videa jsou nahrana na YT a misto nahledu maji generickou ikonu.
  
-Pozorovani ktera se v mape zobrazi lze filtrovat dle prislusnosti k radu (bakterie, zvirata, rostliny,...) pripadne cimkoli co lze grepnout z Tellico XML.+Pozorovani ktera se v mape zobrazi lze filtrovat dle prislusnosti k radu (bakterie, zvirata, rostliny,...) az po prislusnost k jednotlivym druhum.
  
 === Tellico sample database === === Tellico sample database ===
Line 103: Line 107:
 # Print result to stdout # Print result to stdout
 # #
-# find ./ -type f -exec mogrify -verbose -layers Dispose -resize 128\>x128\> -quality 100% {} + +# <iframe width="500" height="500" frameborder="0" scrolling="no" marginheight="0" marginwidth="0" src="https://www.openstreetmap.org/export/embed.html?bbox=14.978000%2C49.990000%2C15.022000%2C50.010000&amp;layer=mapnik&amp;marker=50.000000%2C15.000000"></iframe>
-#+
 # // vectorLayer.removeFeatures(atol) # // vectorLayer.removeFeatures(atol)
 # // map.removeLayer(vectorLayer) # // map.removeLayer(vectorLayer)
Line 110: Line 113:
 # #
 # Creates: # Creates:
-#   (to stdout) index.htm file with the map and static entries+#   (to stdout) HTML file with the map and static entries
 #   ./det/ID.htm details of each and every entry #   ./det/ID.htm details of each and every entry
 +#   ./bioosm.json JSON of all entries
 +#   ./bioosm.rss updated RSS feed
 +#   ./plainlog.htm sorted entries for easy human/alg
 # #
 +
 +rm -rfv "./det/*"
 +mkdir -p "./det"
  
 ICON_animalia="animalia.png" ICON_animalia="animalia.png"
Line 122: Line 131:
 ICON_protista="protista.png" ICON_protista="protista.png"
 ICON_biohazard="biohazard.svg" ICON_biohazard="biohazard.svg"
 +
 +json=""
 +
 +rss=$'<?xml version="1.0" encoding="UTF-8" ?>\n'
 +rss+=$'<rss version="2.0">\n'
 +rss+=$'<channel>\n'
 +rss+=$'<title>Brmlab BioOSM RSS feed</title>\n'
 +rss+=$'<description>New entries on BioOSM database</description>\n'
 +rss+=$'<link>https://bioosm.s0c4.net</link>\n'
 +rss+=$'<lastBuildDate></lastBuildDate>\n'
 +rss+=$'<pubDate></pubDate>\n'
 +rss+=$'<ttl>86400</ttl>\n'
  
 # Return icon by Regnum # Return icon by Regnum
Line 142: Line 163:
  esac  esac
 } }
 +
 +function safehtml () {
 + echo "$1" | sed -e "s/'/\&#39;/g" -e 's/"/\&#34;/g' -e 's/</\&lt;/g' -e 's/>/\&gt;/g' -e 's/^[ ]*//g' -e 's/[ ]*$//g'
 +}
 +
 +i=1 # GLOBAL increment must persist multiple spagety() calls; incremented to infinity
 +# Core function generating entries matching selection criteria (ie Kingdom)
 +# !!! BEZ ODSAZENI !!!
 +# $1 = list of entries
 +# $2 = layer name
 +# $3 = icon of the points
 +function spagety () {
 +
 + bylo="" # Minula pozice
 + sam="" # HTML samostatneho zaznamu
 + osam="" # predchozi $sam
 + spoj="" # HTML had z popisu stejnych pozic
 + ospoj="" # Predchozi $spoj
 + ox="" # Old X
 + oy="" # Old Y
 + datelog="" # Entries sorted by date for plaintext log
 + json="var data='{\"version\":\"$(date --rfc-3339=seconds)\",\"arma\":["
 +
 + while IFS='' read -r radek || [[ -n "$radek" ]]; do
 + co=$(echo "$radek" | grep -oe ' <title>.*</title> ' | sed -E 's/( )*<(\/)?title>( )*//g')
 + co=$(safehtml "$co")
 + obr=$(echo "$radek" | grep -oe ' <image>.*</image> ' | sed -E 's/( )*<(\/)?image>( )*//g' | grep -oPe '[^/]*$')
 + obr=$(safehtml "$obr")
 + kde=$(echo "$radek" | grep -oe '<locality>.*</locality>' | grep -oPe '[0-9]+\.[0-9]{1,10}[, ]*[0-9]+\.[0-9]{1,10}')
 + kde=$(safehtml "$kde")
 + kdex=$(echo "$kde" | grep -oPe '[0-9]+\.[0-9]{1,10}$')
 + kdex=$(safehtml "$kdex")
 + kdey=$(echo "$kde" | grep -oPe '^[0-9]+\.[0-9]{1,10}')
 + kdey=$(safehtml "$kdey")
 + kdy=$(echo "$radek" | grep -oe ' <taken-date>.*</taken-date> ' | sed -E 's/( )*<(\/)?taken-date>( )*//g' | sed -E 's/([0-9]+)\.([0-9]+)\.([0-9]{4})/\3-\2-\1/g' | sed -E 's/-([0-9])-/-0\1-/g' | sed -E 's/-([0-9])$/-0\1/g')
 + kdy=$(safehtml "$kdy")
 + skop_typ=$(echo "$radek" | grep -oe ' <new-field-1>.*</new-field-1> ' | sed -E 's/( )*<(\/)?new-field-1>( )*//g')
 + skop_typ=$(safehtml "$skop_typ")
 + skop=$(echo "$radek" | grep -oe ' <microscope>.*</microscope> ' | sed -E 's/( )*<(\/)?microscope>( )*//g')
 + skop=$(safehtml "$skop")
 + imp=$(echo "$radek" | grep -oe ' <new-field-3>.*</new-field-3> ' | sed -E 's/( )*<(\/)?new-field-3>( )*//g')
 + imp=$(safehtml "$imp")
 + reg=$(echo "$radek" | grep -oe ' <new-field-4>.*</new-field-4> ' | sed -E 's/( )*<(\/)?new-field-4>( )*//g')
 + reg=$(safehtml "$reg")
 + phy=$(echo "$radek" | grep -oe ' <phylum>.*</phylum> ' | sed -E 's/( )*<(\/)?phylum>( )*//g')
 + phy=$(safehtml "$phy")
 + cla=$(echo "$radek" | grep -oe ' <class>.*</class> ' | sed -E 's/( )*<(\/)?class>( )*//g')
 + cla=$(safehtml "$cla")
 + ord=$(echo "$radek" | grep -oe ' <order>.*</order> ' | sed -E 's/( )*<(\/)?order>( )*//g')
 + ord=$(safehtml "$ord")
 + fam=$(echo "$radek" | grep -oe ' <family>.*</family> ' | sed -E 's/( )*<(\/)?family>( )*//g')
 + fam=$(safehtml "$fam")
 + gen=$(echo "$radek" | grep -oe ' <genus>.*</genus> ' | sed -E 's/( )*<(\/)?genus( )*>//g')
 + gen=$(safehtml "$gen")
 + spe=$(echo "$radek" | grep -oe ' <species>.*</species> ' | sed -E 's/( )*<(\/)?species>( )*//g')
 + spe=$(safehtml "$spe")
 + loc=$(echo "$radek" | grep -oe ' <locality---plaintext>.*</locality---plaintext> ' | sed -E 's/( )*<(\/)?locality---plaintext>( )*//g')
 + loc=$(safehtml "$loc")
 + des=$(echo "$radek" | grep -oe ' <description>.*</description> ' | sed -E 's/( )*<(\/)?description>( )*//g')
 + des=$(safehtml "$des")
 + vid=$(echo "$radek" | grep -oe ' <videolink>.*</videolink> ' | sed -E 's/( )*<(\/)?videolink>( )*//g')
 + vid=$(safehtml "$vid")
 + bio=$(echo "$radek" | grep -oe ' <biotope>.*</biotope> ' | sed -E 's/( )*<(\/)?biotope>( )*//g')
 + bio=$(safehtml "$bio")
 + eng=$(echo "$radek" | grep -oe ' <enlargement>.*</enlargement> ' | sed -E 's/( )*<(\/)?enlargement>( )*//g')
 + eng=$(safehtml "$eng")
 + obs=$(echo "$radek" | grep -oe ' <observer>.*</observer> ' | sed -E 's/( )*<(\/)?observer>( )*//g')
 + obs=$(safehtml "$obs")
 + lnk=$(echo "$radek" | grep -oe ' <localitylink>.*</localitylink> ' | sed -E 's/( )*<(\/)?localitylink>( )*//g')
 + lnk=$(safehtml "$lnk")
 + har=$(echo "$radek" | grep -oe ' <harvesting-method>.*</harvesting-method> ' | sed -E 's/( )*<(\/)?harvesting-method>( )*//g')
 + den=$(echo "$radek" | grep -oe ' <population-density>.*</population-density> ' | sed -E 's/( )*<(\/)?population-density>( )*//g')
 + dur=$(echo "$radek" | grep -oe ' <min>.*</min> ' | sed -E 's/( )*<(\/)?min>( )*//g')
 + lor=$(echo "$radek" | grep -oe ' <locality-reference>.*</locality-reference> ' | sed -E 's/( )*<(\/)?locality-reference>( )*//g')
 + lrl=$(echo "$radek" | grep -oe ' <locality-reference---link>.*</locality-reference---link> ' | sed -E 's/( )*<(\/)?locality-reference---link>( )*//g')
 + lov=$(echo "$radek" | grep -oe ' <locality---vobrazek>.*</locality---vobrazek> ' | sed -E 's/( )*<(\/)?locality---vobrazek>( )*//g' | grep -oPe '[^/]*$')
 +
 + # >&2 echo "$co - $har - $den - $dur - $lor - $lrl - $lov"
 +
 + detid=$(echo "brmlab$co$obr$kde$kdy" | md5sum | grep -oe '[a-zA-Z0-9]*')
 +
 + if [[ "$kdex" = "" ]]; then
 + >&2 echo -e "\033[31m" $(echo "$radek" | grep -oe '<locality>.*</locality>') " $co\033[0m"
 + continue;
 + fi
 + zkurvenetellico=$(echo "$obr" | grep -oe '\.[a-zA-Z]*$')
 + if [[ "$zkurvenetellico" = ".jpeg" ]]; then
 + >&2 echo -e "\033[31m$obr $co\033[0m"
 + continue;
 + fi
 +
 + if [[ "$spe" = "sp." ]]; then
 + wikisp="https://en.wikipedia.org/wiki/$gen"
 + else
 + wikisp="https://en.wikipedia.org/wiki/$gen $spe"
 + fi
 +
 + json+="{"
 + json+=" \"qualis\":\"$co\","
 + json+=" \"imperium\":\"$imp\","
 + json+=" \"regnum\":\"$reg\","
 + json+=" \"phylum\":\"$phy\","
 + json+=" \"classis\":\"$cla\","
 + json+=" \"ordo\":\"$ord\","
 + json+=" \"familia\":\"$fam\","
 + json+=" \"genus\":\"$gen\","
 + json+=" \"specie\":\"$spe\","
 + json+=" \"locus\":\"$kde\","
 + json+=" \"x\":\"$kdex\","
 + json+=" \"y\":\"$kdey\","
 + json+=" \"locplain\":\"$loc\","
 + json+=" \"depictio\":\"$des\","
 + json+=" \"quando\":\"$kdy\","
 + json+=" \"obr\":\"$obr\","
 + json+=" \"micro\":\"$skop\","
 + json+=" \"microtyp\":\"$skop_typ\","
 + json+=" \"vid\":\"$vid\","
 + json+=" \"bio\":\"$bio\","
 + json+=" \"amp\":\"$eng\","
 + json+=" \"spec\":\"$obs\","
 + json+=" \"detid\":\"$detid\","
 + json+=" \"har\":\"$har\","
 + json+=" \"den\":\"$den\","
 + json+=" \"dur\":\"$dur\","
 + json+=" \"lor\":\"$lor\","
 + json+=" \"lrl\":\"$lrl\","
 + json+=" \"lov\":\"$lov\","
 + json+=" \"lnk\":\"$lnk\"" # Lastone without ','
 + json+="},"
 +
 +
 + rss+=$'<item>\n'
 + rss+=$'  <title>'"$co"$'</title>\n'
 + rss+=$'  <description>'"$des"$'</description>\n'
 + rss+=$'  <link>http://brmlab.s0c4.net/bioosm/det/'"$detid"$'.htm</link>\n'
 + rss+=$'  <guid isPermaLink="false">'"$detid"$'</guid>\n'
 + rss+=$'  <pubDate>'"$kdy"$'</pubDate>\n'
 + rss+=$'</item>\n'
 +
 +
 + # Generate detail page
 + detid=$(echo "brmlab$co$obr$kde$kdy" | md5sum | grep -oe '[a-zA-Z0-9]*')
 + detpg="<html><head>"
 + detpg+="<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>"
 + detpg+="<link rel='stylesheet' href='../style.css' type='text/css'>"
 + detpg+="<title>Brmlab - BioOSM $co $kde</title>"
 + detpg+="</head><body>"
 + detpg+="<table class='dettbl'><tr>"
 + detpg+="<h1>$co (<a href='$wikisp' target='_blank'>wiki</a>)</h1>"
 + detpg+="<td style='width:33%;vertical-align:top'>"
 + if [[ "$imp" != "" ]]; then
 + detpg+="<b>Imperium:</b> <a href='https://en.wikipedia.org/wiki/$imp' target='_blank'>$imp</a><br>"
 + fi
 + if [[ "$reg" != "" ]]; then
 + detpg+="<b>Regnum:</b> <a href='https://en.wikipedia.org/wiki/$reg' target='_blank'>$reg</a><br>"
 + fi
 + if [[ "$phy" != "" ]]; then
 + detpg+="<b>Phylum:</b> <a href='https://en.wikipedia.org/wiki/$phy' target='_blank'>$phy</a><br>"
 + fi
 + if [[ "$cla" != "" ]]; then
 + detpg+="<b>Classis:</b> <a href='https://en.wikipedia.org/wiki/$cla' target='_blank'>$cla</a><br>"
 + fi
 + if [[ "$ord" != "" ]]; then
 + detpg+="<b>Ordo:</b> <a href='https://en.wikipedia.org/wiki/$ord' target='_blank'>$ord</a><br>"
 + fi
 + if [[ "$fam" != "" ]]; then
 + detpg+="<b>Familia:</b> <a href='https://en.wikipedia.org/wiki/$fam' target='_blank'>$fam</a><br>"
 + fi
 + if [[ "$gen" != "" ]]; then
 + detpg+="<b>Genus:</b> <a href='https://en.wikipedia.org/wiki/$gen' target='_blank'>$gen</a><br>"
 + fi
 + if [[ "$spe" != "" ]]; then
 + detpg+="<b>Specie:</b> <a href='$wikisp' target='_blank'>$spe</a><br>"
 + fi
 + detpg+="<br>"
 + if [[ "$kdy" != "" ]]; then
 + detpg+="<b>Quando:</b> $kdy<br>"
 + fi
 + if [[ "$lnk" != "" ]]; then
 + loc="<a href=\"$lnk\" target=\"_blank\">$loc</a>" # Yes, escaped "
 + fi
 + detpg+="<b>Locus:</b> $kde ($loc)<br>"
 + if [[ "$obs" != "" ]]; then
 + detpg+="<b>Spectator:</b> $obs<br>"
 + fi
 + if [[ "$bio" != "" ]]; then
 + detpg+="<b>Biotope:</b> $bio<br>"
 + fi
 + if [[ "$skop" != "" ]]; then
 + detpg+="<b>Microscopium:</b> $skop ($skop_typ)<br>"
 + fi
 + if [[ "$eng" != "" ]]; then
 + detpg+="<b>Amplificatio:</b> $eng<br>"
 + fi
 + if [[ "$vid" != "" ]]; then
 + detpg+="<b>Video:</b> <a href=\"$vid\" target=\"_blank\">$vid</a><br>"
 + fi
 + if [[ "$har" != "" ]]; then
 + detpg+="<b>Collecting method:</b> $har<br>"
 + fi
 + if [[ "$den" != "" ]]; then
 + detpg+="<b>Individuals found:</b> $den<br>"
 + fi
 + if [[ "$dur" != "" ]]; then
 + detpg+="<b>Duration on stage:</b> $dur<br>"
 + fi
 + if [[ "$lrl" != "" ]]; then
 + detpg+="<b>Locality reference:</b> <a href=\"$lrl\" target=\"_blank\">$lor</a><br>"
 + elif [[ "$lor" != "" ]]; then
 + detpg+="<b>Locality reference:</b> $lor<br>"
 + fi
 + if [[ "$des" != "" ]]; then
 + detpg+="<b>Depictio:</b> $des<br>"
 + fi
 + detpg+="<br><b>More on <a href=\"../\">BioOSM map</a></b><br>"
 + detpg+="<br>"
 +
 + lhx=$(echo "$kdex-0.022" | bc)
 + lhy=$(echo "$kdey-0.010" | bc)
 + pdx=$(echo "$kdex+0.022" | bc)
 + pdy=$(echo "$kdey+0.010" | bc)
 + detpg+="<iframe id='minimapa' src='https://www.openstreetmap.org/export/embed.html?bbox=$lhx%2C$lhy%2C$pdx%2C$pdy&amp;layer=mapnik&amp;marker=$kdey%2C$kdex'></iframe>"
 + detpg+="</td><td style='min-width:66%;vertical-align:top'>"
 +
 + if [[ "$obr" != "" ]]; then
 + detpg+="<a href=\"../img/$obr\"><img src=\"../img/$obr\" alt=\"$co\" class='detimg'></a>"
 + else
 + if [[ "$vid" != "" ]]; then
 + detyt=$(echo "$vid" | sed -e 's/youtube.com\/watch?v=/youtube.com\/embed\//g')
 + detpg+="<iframe class='detvid' src='$detyt' frameborder='0' allow='encrypted-media' allowfullscreen></iframe>"
 + else
 + detpg+="<img src=\"../$3\" alt=\"video\" class='detimg'>"
 + fi
 + fi
 + if [[ "$lov" != "" ]]; then
 + detpg+="<img class=\"detimg\" src=\"../lokality/$lov\" alt=\"Locality photo\"><br>"
 + fi
 +
 + detpg+="</td></tr></table>"
 + detpg+="</body></html>"
 + echo "$detpg" > "./det/$detid.htm"
 +
 + # Plain log of entries
 + datelog+="$kdy $kde <a href='./det/$detid.htm' target='_blank'>$co</a><br>\n"
 +
 + >&2 echo -e "\033[32m$co $obs\033[0m"
 +
 + ox="$kdex"
 + oy="$kdey"
 +
 + i=$(($i+1))
 +
 + done <<< $(echo "$1") # Zere parametr spaget, nikoli $1 scriptu !!!
 + echo "$json{}]}" | sed -e "s/^var data='//g" > "./bioosm.json"
 + echo "$json{}]}'"
 +
 + rss+=$'</channel>\n'
 + rss+=$'</rss>\n'
 + echo "$rss" > "./bioosm.rss"
 +
 +} # KONEC FCE SPAGETY
  
  
-rm -rfv "./det/*" 
-mkdir -p "./det" 
-#cat "./index_head.htm" 
  
 # Parse Tellico file to list of entries # Parse Tellico file to list of entries
Line 153: Line 432:
 # Sorted unique Kingdoms (to be passed as selection criteria) # Sorted unique Kingdoms (to be passed as selection criteria)
 kingdoms=$(echo "$praseTC" | grep -oe ' <new-field-4>.*</new-field-4> ' | sed -E 's/( )*<(\/)?new-field-4>( )*//g' | sort | uniq) kingdoms=$(echo "$praseTC" | grep -oe ' <new-field-4>.*</new-field-4> ' | sed -E 's/( )*<(\/)?new-field-4>( )*//g' | sort | uniq)
- 
  
 echo '<!DOCTYPE html>' echo '<!DOCTYPE html>'
Line 164: Line 442:
 echo ' <script src="./OpenLayers.js"></script>' echo ' <script src="./OpenLayers.js"></script>'
 echo '</head>' echo '</head>'
 +echo '<body>'
 +# Generate select
 +echo "<div id='plainlog'><b><a href='./bioosm.rss'>RSS feed</a><br><a href='./plainlog.htm'>Quick news log</a></b></div>"
 +echo "<h1 id='title'>BioOSM - arma biologica in tuis vicinia</h1>"
 +ksel="<select id='reg' onChange='genphy()'>"
 +ksel="$ksel<option value='ALL' selected>ALL</option>"
 +while IFS='' read -r king || [[ -n "$king" ]]; do
 + ksel="$ksel<option value='"$king"'>$king</option>"
 +done <<< $(echo "$kingdoms")
 +ksel="$ksel</select>"
 +echo "Regnum: $ksel "
  
-echo "<body>" +echo "Phylum: <select id='phy' onChange='gencla()'><option>ALL</option></select> " 
- echo "<div style='position:absolute;top:0;right:0;margin:1em'><b><a href='./plainlog.htm'>Plaintext log</a></b></div>" +echo "Classis: <select id='cla' onChange='genord()'><option>ALL</option></select> " 
- echo "<h1 id='title'>BioOSM - arma biologica in tuis vicinia</h1>" +echo "Ordo: <select id='ord' onChange='genfam()'><option>ALL</option></select> " 
- +echo "Familia: <select id='fam' onChange='gengen()'><option>ALL</option></select> " 
- # Generate select +echo "Genus: <select id='gen' onChange='genspe()'><option>ALL</option></select>" 
- ksel="<select id='kin' onChange='kinchange()'>" +echo "Specie: <select id='spe' onChange='armageddon()'><option>ALL</option></select>" 
- ksel="$ksel<option value='ALL' selected>ALL</option>" +echo "<br><input type='button' value='Platyhelminthes' onClick='plostenkoidy()'>" 
- while IFS='' read -r king || [[ -n "$king" ]]; do +echo "<input type='checkbox' id='studchecker' onChange='studdrv()'>&nbsp;Springs" 
- ksel="$ksel<option value='"$king"'>$king</option>" +#echo "<input type='button' value='Bugs' onClick='buggy()'>" 
- done <<< $(echo "$kingdoms") +echo "<br><br><div id='map' class='smallmap'></div>" 
- ksel="$ksel</select>" +echo "<br><p>Welcome! You can download the <a href='./bioosm.json' target='_blank'>source data as JSON file</a><br>" 
- echo "Regnum: $ksel | " +echo "This site is owned by members of the <a href='https://brmlab.cz' target='_blank'>hackerspace brmlab</a>. See our wiki page for <a href='https://brmlab.cz/project/bioosm/start' target='_blank'>details and contact info</a><br>License: CC-BY-SA</p>"
- echo "<input type='button' value='Plostenkoidy' onClick='plostenkoid()'><br><br>" +
- +
-  echo "<div id='map' class='smallmap'></div>"+
 echo "</body>" echo "</body>"
  
-echo '<script>' +echo "<script>"
 echo 'map = new OpenLayers.Map("map");' echo 'map = new OpenLayers.Map("map");'
 echo 'map.addLayer(new OpenLayers.Layer.OSM());' echo 'map.addLayer(new OpenLayers.Layer.OSM());'
Line 199: Line 484:
 echo ' new OpenLayers.Geometry.Point(14.41876, 50.10554).transform(epsg4326, projectTo),' echo ' new OpenLayers.Geometry.Point(14.41876, 50.10554).transform(epsg4326, projectTo),'
 echo ' {description:"Atomovy atol Brmkini"} ,' echo ' {description:"Atomovy atol Brmkini"} ,'
-echo ' {externalGraphic: "./biohazard.svg", graphicHeight:24, graphicWidth:24, graphicXOffset:-12, graphicYOffset:-12},'+echo ' {externalGraphic: "./biohazard.svg", graphicHeight:8, graphicWidth:8, graphicXOffset:-4, graphicYOffset:-4},'
 echo ');' echo ');'
 echo 'vectorLayer.addFeatures(atol);' echo 'vectorLayer.addFeatures(atol);'
Line 205: Line 490:
 echo "map.addLayer(vectorLayer);" echo "map.addLayer(vectorLayer);"
  
 +spagety "$praseTC" "ALL" "$ICON_biohazard"
  
 +echo '</script>'
 +echo '<script src="./bioosm.js"></script>' # Must be after JSON
 +echo "</html>"
  
-i=1 # GLOBAL increment must persist multiple spagety() calls; incremented to infinity +# Create plaintext log 
-# Core function generating entries matching selection criteria (ie Kingdom) +dateloghtm="<html><head>" 
-# !!! BEZ ODSAZENI !!! +dateloghtm+="<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>" 
-# $1 = list of entries +dateloghtm+="<link rel='stylesheet' href='./style.css' type='text/css'>" 
-# $2 = layer name +dateloghtm+="<title>Brmlab - BioOSM plaintext log</title>" 
-# $3 = icon of the points +dateloghtm+="</head><body>" 
-function spagety () {+datelogsort=$(echo -e "$datelog" | sort -r | uniq) 
 +dateloghtm+="$datelogsort" 
 +dateloghtm+="</body></html>" 
 +echo "$dateloghtm" > "./plainlog.htm" 
 +</code>
  
-bylo="" # Minula pozice +==== bioosm.js ====
-sam="" # HTML samostatneho zaznamu +
-osam="" # predchozi $sam +
-spoj="" # HTML had z popisu stejnych pozic +
-ospoj="" # Predchozi $spoj +
-ox="" # Old X +
-oy="" # Old Y +
-datelog="" # Entries sorted by date for plaintext log+
  
 +<code javascript bioosm.js>
 +var blob=JSON.parse(data)
 +var arma=blob.arma
 +var stud=JSON.parse('{}');
  
-while IFS='' read -r radek || [[ -n "$radek" ]]; do+var vectorLayerDynamic = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href="http://brmlab.cz">Brmlab</a>'}); 
 +map.addLayer(vectorLayerDynamic); 
 +var studlay = new OpenLayers.Layer.Vector("Overlay",{attribution:"<a href=\"http://brmlab.cz\">Brmlab</a>"}); // studanky 
 +map.addLayer(studlay);
  
- co=$(echo "$radek" | grep -oe ' <title>.*</title> ' | sed -E 's/( )*<(\/)?title>( )*//g') +var regsel=document.getElementById("reg") 
- obr=$(echo "$radek" | grep -oe ' <image>.*</image> ' | sed -E 's/( )*<(\/)?image>( )*//g' | grep -oPe '[^/]*$') +var physel=document.getElementById("phy") 
- kde=$(echo "$radek" | grep -oe '<locality>.*</locality>' | grep -oPe '[0-9]{2}\.[0-9]{1,10}[, ]*[0-9]{2}\.[0-9]{1,10}') +var clasel=document.getElementById("cla") 
- kdex=$(echo "$kde" | grep -oPe '[0-9]{2}\.[0-9]{1,10}$') +var ordsel=document.getElementById("ord") 
- kdey=$(echo "$kde" | grep -oPe '^[0-9]{2}\.[0-9]{1,10}') +var famsel=document.getElementById("fam") 
- kdy=$(echo "$radek" | grep -oe ' <taken-date>.*</taken-date> ' | sed -E 's/( )*<(\/)?taken-date>( )*//g' | sed -E 's/([0-9]+)\.([0-9]+)\.([0-9]{4})/\3-\2-\1/g' | sed -E 's/-([0-9])-/-0\1-/g' | sed -E 's/-([0-9])$/-0\1/g') +var gensel=document.getElementById("gen") 
- skop_typ=$(echo "$radek" | grep -oe ' <new-field-1>.*</new-field-1> ' | sed -E 's/( )*<(\/)?new-field-1>( )*//g') +var spesel=document.getElementById("spe")
- skop=$(echo "$radek" | grep -oe ' <microscope>.*</microscope> ' | sed -E 's/( )*<(\/)?microscope>( )*//g') +
- imp=$(echo "$radek" | grep -oe ' <new-field-3>.*</new-field-3> ' | sed -E 's/( )*<(\/)?new-field-3>( )*//g') +
- reg=$(echo "$radek" | grep -oe ' <new-field-4>.*</new-field-4> ' | sed -E 's/( )*<(\/)?new-field-4>( )*//g') +
- phy=$(echo "$radek" | grep -oe ' <phylum>.*</phylum> ' | sed -E 's/( )*<(\/)?phylum>( )*//g') +
- cla=$(echo "$radek" | grep -oe ' <class>.*</class> ' | sed -E 's/( )*<(\/)?class>( )*//g') +
- ord=$(echo "$radek" | grep -oe ' <order>.*</order> ' | sed -E 's/( )*<(\/)?order>( )*//g') +
- fam=$(echo "$radek" | grep -oe ' <family>.*</family> ' | sed -E 's/( )*<(\/)?family>( )*//g') +
- gen=$(echo "$radek" | grep -oe ' <genus>.*</genus> ' | sed -E 's/( )*<(\/)?genus( )*>//g') +
- spe=$(echo "$radek" | grep -oe ' <species>.*</species> ' | sed -E 's/( )*<(\/)?species>( )*//g') +
- loc=$(echo "$radek" | grep -oe ' <locality---plaintext>.*</locality---plaintext> ' | sed -E 's/( )*<(\/)?locality---plaintext>( )*//g') +
- des=$(echo "$radek" | grep -oe ' <description>.*</description> ' | sed -E 's/( )*<(\/)?description>( )*//g') +
- vid=$(echo "$radek" | grep -oe ' <videolink>.*</videolink> ' | sed -E 's/( )*<(\/)?videolink>( )*//g') +
- bio=$(echo "$radek" | grep -oe ' <biotope>.*</biotope> ' | sed -E 's/( )*<(\/)?biotope>( )*//g') +
- eng=$(echo "$radek" | grep -oe ' <enlargement>.*</enlargement> ' | sed -E 's/( )*<(\/)?enlargement>( )*//g') +
- obs=$(echo "$radek" | grep -oe ' <observer>.*</observer> ' | sed -E 's/( )*<(\/)?observer>( )*//g')+
  
 +var ICON_animalia="animalia.png"
 +var ICON_bacteria="bacteria.png"
 +var ICON_fungi="fungi.png"
 +var ICON_chromista="chromista.png"
 +var ICON_plantae="plantae.svg"
 +var ICON_plostenkoid="plostenkoid.png"
 +var ICON_protista="protista.png"
 +var ICON_biohazard="biohazard.svg"
 +var ICON_studanka="studanka.png"
  
- if [[ "$kdex" = "" ]]; then +function getJSONstud() 
- >&2 echo $(echo "$radek" | grep -oe '<locality>.*</locality>') " $co" +{ 
- continue; + url="./stud.json"; 
- fi + var request; 
- zkurvenetellico=$(echo "$obr" | grep -oe '\.[a-zA-Z]*$') + if(window.XMLHttpRequest) 
- if [[ "$zkurvenetellico" = ".jpeg" ]]; then + request=new XMLHttpRequest(); 
- >&2 echo "$obr $co" + else 
- continue; + request=new ActiveXObject("Microsoft.XMLHTTP"); 
- fi+ request.onreadystatechange=function() 
 + { 
 + if(request.readyState==4) 
 + { 
 + stud=JSON.parse(request.responseText); 
 + studdraw(stud); 
 + } 
 + } 
 + request.open("GET",url,true); 
 + request.send(); 
 +}
  
 +function studdraw(sj)
 +{
 + studlay.destroyFeatures();
 + sjs=stud.std;
 + s=[];
  
- # Generate detail page + for(i=0;i<sjs.length;i++) 
- detid=$(echo "brmlab$co$obr$kde$kdy" | md5sum | grep -oe '[a-zA-Z0-9]*') + { 
- detpg="<html><head>" + s[i] = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point(sjs[i].lon,sjs[i].lat).transform(epsg4326,projectTo),{'description':"<table class=\"hadtbl\">"+sjs[i].name+"</table>"},{'externalGraphic':ICON_studanka,'graphicHeight':24,'graphicWidth':24,'graphicXOffset':-12,'graphicYOffset':-12}); 
- detpg="$detpg<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>" + studlay.addFeatures(s[i]); 
- detpg="$detpg<link rel='stylesheet' href='../style.css' type='text/css'>" + } 
- detpg="$detpg<title>Brmlab - BioOSM $co $kde</title>" +} 
- detpg="$detpg</head><body>" + 
- detpg="$detpg<table class='dettbl'><tr>" +function studdrv() 
- detpg="$detpg<td><h1>$co (<a href='https://en.wikipedia.org/wiki/$co' target='_blank'>wiki</a>)</h1>" +{ 
- if [[ "$imp" != "" ]]; then + box=document.getElementById("studchecker"); 
- detpg="$detpg<b>Imperium:</b> <a href='https://en.wikipedia.org/wiki/$imp' target='_blank'>$imp</a><br>" + if(box.checked) 
- fi + getJSONstud();
- if [[ "$reg" != "" ]]; then +
- detpg="$detpg<b>Regnum:</b> <a href='https://en.wikipedia.org/wiki/$reg' target='_blank'>$reg</a><br>" +
- fi +
- if [[ "$phy" != "" ]]; then +
- detpg="$detpg<b>Phylum:</b> <a href='https://en.wikipedia.org/wiki/$phy' target='_blank'>$phy</a><br>" +
- fi +
- if [[ "$cla" != "" ]]; then +
- detpg="$detpg<b>Classis:</b> <a href='https://en.wikipedia.org/wiki/$cla' target='_blank'>$cla</a><br>" +
- fi +
- if [[ "$ord" != "" ]]; then +
- detpg="$detpg<b>Ordo:</b> <a href='https://en.wikipedia.org/wiki/$ord' target='_blank'>$ord</a><br>" +
- fi +
- if [[ "$fam" != "" ]]; then +
- detpg="$detpg<b>Familia:</b> <a href='https://en.wikipedia.org/wiki/$fam' target='_blank'>$fam</a><br>" +
- fi +
- if [[ "$gen" != "" ]]; then +
- detpg="$detpg<b>Genus:</b> <a href='https://en.wikipedia.org/wiki/$gen' target='_blank'>$gen</a><br>" +
- fi +
- if [[ "$spe" != "" ]]; then +
- detpg="$detpg<b>Specie:</b> $spe<br>" +
- fi +
- detpg="$detpg<br>" +
- if [[ "$kdy" != "" ]]; then +
- detpg="$detpg<b>Quando:</b> $kdy<br>" +
- fi +
- detpg="$detpg<b>Locus:</b> $kde ($loc)<br>" +
- if [[ "$obs" != "" ]]; then +
- detpg="$detpg<b>Spectator:</b> $obs<br>" +
- fi +
- if [[ "$bio" != "" ]]; then +
- detpg="$detpg<b>Biotope:</b> $bio<br>" +
- fi +
- detpg="$detpg<br>" +
- if [[ "$skop" != "" ]]; then +
- detpg="$detpg<b>Microscopium:</b> $skop ($skop_typ)<br>" +
- fi +
- if [[ "$eng" != "" ]]; then +
- detpg="$detpg<b>Amplificatio:</b> $eng<br>" +
- fi +
- detpg="$detpg<br>" +
- if [[ "$des" != "" ]]; then +
- detpg="$detpg<b>Depictio:</b> $des<br>" +
- fi +
- if [[ "$vid" != "" ]]; then +
- detpg="$detpg<b>Video:</b> <a href=\"$vid\" target=\"_blank\">$vid</a><br>" +
- fi +
- detpg="$detpg</td><td style='min-width:66%'>" +
- if [[ "$obr" != "" ]]; then +
- detpg="$detpg<a href=\"../img/$obr\"><img src=\"../img/$obr\" alt=\"$co\" class='detimg'></a>"+
  else  else
- if [[ "$vid" != "" ]]; then + studlay.destroyFeatures(); 
- detyt=$(echo "$vid" | sed -e 's/youtube.com\/watch?v=/youtube.com\/embed\//g') +}
- detpg="$detpg<iframe class='detvid' src='$detyt' frameborder='0' allow='encrypted-media' allowfullscreen></iframe>" +
- else +
- detpg="$detpg<img src=\"../$3\" alt=\"video\" class='detimg'>" +
- fi +
- fi +
- detpg="$detpg</td></tr></table>" +
- detpg="$detpg</body></html>" +
- echo "$detpg" > "./det/$detid.htm"+
  
- # Plain log of entries +// Return icon by Regnum 
- datelog="$datelog $kdy $kde <a href='./det/$detid.htm' target='_blank'>$co</a><br>\n"+function geticon (a,i) 
 +{ 
 + var r="" 
 + if(document.getElementById("reg").value!="ALL") 
 + r=document.getElementById("reg").value 
 + else 
 + { 
 + r=a[i].regnum 
 + for(var e=i;e>=0 && a[e].locus==a[i].locus;e--) 
 + if(a[e].regnum!=a[i].regnum) 
 + { 
 + r="ALL"; 
 + break; 
 + } 
 + }
  
- # Pokracujem v hadovi + switch (r) 
- if [[ "$kde" = "$bylo" ]]; then + { 
- sam=""; + case "Animalia": 
- spoj="$spoj<tr><td><a href=\"./det/$detid.htm\" target=\"_blank\">" + return ICON_animalia; 
- if [[ "$obr" != "" ]]; then + case "Bacteria": 
- spoj="$spoj<img src=\"./simg/$obr\" class=\"hadimg\"></a></td>" + return ICON_bacteria; 
- else + case "Fungi": 
- spoj="$spoj<img src=\"./$3\" class=\"hadimg\"></a></td>" + return ICON_fungi; 
- fi + case "Chromista": 
- spoj="$spoj<td>$co<br>$kdy</td>" + return ICON_chromista; 
- spoj="$spoj<!-- $reg -->" # Metadata + case "Plantae": 
- spoj="$spoj</tr>" + return ICON_plantae; 
- ox="$kdex" + case "Protista": 
- oy="$kdey" + return ICON_protista; 
- continue; + default: 
- fi+ return ICON_biohazard 
 + } 
 +}
  
- # Bud prvni zaznam, nebo zmena pozice+function genphy() { 
 + physel.innerHTML="<option>ALL</option>" 
 + clasel.innerHTML="<option>ALL</option>" 
 + ordsel.innerHTML="<option>ALL</option>" 
 + famsel.innerHTML="<option>ALL</option>" 
 + gensel.innerHTML="<option>ALL</option>" 
 + spesel.innerHTML="<option>ALL</option>"
  
- # Predchozi pozice jen 1 zaznam? + var phyarr=[] 
- if [[ "$sam" != "" ]]; then + for (var i=0;i<arma.length-1;i++) 
- samicon=$(geticon $(echo "$sam" | grep -oPe "<b>Regnum:</b> <[^>]*>[a-zA-Z0-9]*" | grep -oPe "[a-zA-Z0-9]*$")) + { 
- # >&2 echo "$samicon"+ if(regsel.value==arma[i].regnum && arma[i].phynum!="") 
 + phyarr.push(arma[i].phylum) 
 + } 
 + phyarr.sort() 
 + for (var i=0;i<phyarr.length;i++) 
 + { 
 + if(i==0) 
 + { 
 + physel.innerHTML+="<option>"+phyarr[0]+"</option>" 
 + continue 
 + } 
 + if(phyarr[i]!=phyarr[i-1]) 
 + physel.innerHTML+="<option>"+phyarr[i]+"</option>" 
 + } 
 + armageddon() // Populate the map with monsters... 
 +}
  
- echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($ox,$oy).transform(epsg4326,projectTo),{description:'"$sam"'},{externalGraphic:'./$samicon',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});" +function gencla() { 
- echo "$2.addFeatures(n$i);" + clasel.innerHTML="<option>ALL</option>" 
- spoj="" + ordsel.innerHTML="<option>ALL</option>" 
- sam="" + famsel.innerHTML="<option>ALL</option>" 
- fi # ELSE vytvori prazdny radek + gensel.innerHTML="<option>ALL</option>" 
- # Predchozi pozice vic zaznamu? + spesel.innerHTML="<option>ALL</option>"
- if [[ "$spoj" != "" ]]; then +
- muchicons=$(echo "$spoj" | grep -oPe "<!-- [a-zA-Z0-9]* -->" | grep -oPe "[a-zA-Z0-9]*" | sort | uniq | wc -l) +
- #>&2 echo "*** $muchicons" +
- if [[ "$muchicons" == "1" ]]; then +
- spojicon=$(geticon $(echo "$spoj" | grep -oPe "<!-- [a-zA-Z0-9]* -->" | grep -oPe "[a-zA-Z0-9]*" | sort | uniq)) +
- #>&2 echo "*** $spojicon" +
- else +
- spojicon="$ICON_biohazard" +
- fi +
- echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($ox,$oy).transform(epsg4326,projectTo),{description:'<table class=\"hadtbl\">"$spoj"</table>'},{externalGraphic:'./$spojicon',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});" +
-    echo "$2.addFeatures(n$i);" +
- spoj="" +
- sam="" +
- fi+
  
- bylo="$kde" + var claarr=[] 
- spoj="<tr><td><a href=\"./det/$detid.htm\" target=\"_blank\">" + for (var i=0;i<arma.length-1;i++) 
- if [[ "$obr" != "" ]]; then + { 
- spoj="$spoj<img src=\"./simg/$obr\" class=\"hadimg\"></a></td>" + if(physel.value==arma[i].phylum && arma.classis!="") 
- else + claarr.push(arma[i].classis) 
- spoj="$spoj<img src=\"./$3\" class=\"hadimg\"</a></td>" + } 
- fi + claarr.sort() 
- spoj="$spoj<td>$co<br>$kdy</td>" + for (var i=0;i<claarr.length;i++) 
- spoj="$spoj<!-- $reg -->" # Metadata pyco + { 
- spoj="$spoj</tr>"+ if(i==0) 
 + { 
 + clasel.innerHTML+="<option>"+claarr[0]+"</option>" 
 + continue 
 + } 
 + if(claarr[i]!=claarr[i-1]) 
 + clasel.innerHTML+="<option>"+claarr[i]+"</option>" 
 + } 
 + armageddon() // Populate the map with monsters... 
 +}
  
- sam="<a href=\"./det/$detid.htm\" target=\"_blank\"><img src=\"./simg/$obr\" alt=\"$co\" class=\"buttimg\"></a>" +function genord() { 
- sam="$sam<br><span class=\"butttext\">" + ordsel.innerHTML="<option>ALL</option>" 
- sam="$sam<b>Qualis:</b> <a href=\"https://en.wikipedia.org/wiki/$co\" target=\"_blank\">$co</a><br>" + famsel.innerHTML="<option>ALL</option>" 
- if [[ "$imp" != "" ]]; then + gensel.innerHTML="<option>ALL</option>" 
- sam="$sam<b>Imperium:</b> <a href=\"https://en.wikipedia.org/wiki/$imp\" target=\"_blank\">$imp</a><br>" + spesel.innerHTML="<option>ALL</option>" 
- fi + var ordarr=[] 
- if [[ "$reg" != "" ]]; then + for (var i=0;i<arma.length-1;i++) 
- sam="$sam<b>Regnum:</b> <a href=\"https://en.wikipedia.org/wiki/$reg\" target=\"_blank\">$reg</a><br>" + { 
- fi + if(clasel.value==arma[i].classis && arma[i].ordo!="") 
- if [[ "$phy" != "" ]]; then + ordarr.push(arma[i].ordo) 
- sam="$sam<b>Phylum:</b> <a href=\"https://en.wikipedia.org/wiki/$phy\" target=\"_blank\">$phy</a><br>" + } 
- fi + ordarr.sort() 
- if [[ "$cla" != "" ]]; then + for (var i=0;i<ordarr.length;i++) 
- sam="$sam<b>Classis:</b> <a href=\"https://en.wikipedia.org/wiki/$cla\" target=\"_blank\">$cla</a><br>" + { 
- fi + if(i==0) 
- if [[ "$ord" != "" ]]; then + { 
- sam="$sam<b>Ordo:</b> <a href=\"https://en.wikipedia.org/wiki/$ord\" target=\"_blank\">$ord</a><br>" + ordsel.innerHTML+="<option>"+ordarr[0]+"</option>" 
- fi + continue 
- if [[ "$fam" != "" ]]; then + } 
- sam="$sam<b>Familia:</b> <a href=\"https://en.wikipedia.org/wiki/$fam\" target=\"_blank\">$fam</a><br>" + if(ordarr[i]!=ordarr[i-1]) 
- fi + ordsel.innerHTML+="<option>"+ordarr[i]+"</option>" 
- if [[ "$gen" != "" ]]; then + } 
- sam="$sam<b>Genus:</b> <a href=\"https://en.wikipedia.org/wiki/$gen\" target=\"_blank\">$gen</a><br>" + armageddon() // Populate the map with monsters... 
- fi +}
- if [[ "$spe" != "" ]]; then +
- sam="$sam<b>Specie:</b> $spe<br>" +
- fi +
- if [[ "$bio" != "" ]]; then +
- sam="$sam<b>Biotope:</b> $bio<br>" +
- fi +
- if [[ "$kdy" != "" ]]; then +
- sam="$sam<b>Quando:</b> $kdy<br>" +
- fi +
- sam="$sam<b>Locus:</b> $kde ($loc)<br>" +
- if [[ "$obs" != "" ]]; then +
- sam="$sam<b>Spectator:</b> $obs<br>" +
- fi +
- if [[ "$skop" != "" ]]; then +
- sam="$sam<b>Microscopium:</b> $skop ($skop_typ)<br>" +
- fi +
- if [[ "$eng" != "" ]]; then +
- sam="$sam<b>Amplificatio:</b> $eng<br>" +
- fi +
-# if [[ "$des" != "" ]]; then +
-# sam="$sam<b>Depictio:</b> $des<br>" +
-# fi +
- if [[ "$vid" != "" ]]; then +
- sam="$sam<b>Video:</b> <a href=\"$vid\" target=\"_blank\">$vid</a><br>" +
- fi +
- sam="$sam</span>"+
  
- >&2 echo "$co $obs"+function genfam() { 
 + famsel.innerHTML="<option>ALL</option>" 
 + gensel.innerHTML="<option>ALL</option>" 
 + spesel.innerHTML="<option>ALL</option>" 
 + var famarr=[] 
 + for (var i=0;i<arma.length-1;i++) 
 + { 
 + if(ordsel.value==arma[i].ordo && arma[i].familia!="") 
 + famarr.push(arma[i].familia) 
 + } 
 + famarr.sort() 
 + for (var i=0;i<famarr.length;i++) 
 + { 
 + if(i==0) 
 + { 
 + famsel.innerHTML+="<option>"+famarr[0]+"</option>" 
 + continue 
 + } 
 + if(famarr[i]!=famarr[i-1]) 
 + famsel.innerHTML+="<option>"+famarr[i]+"</option>" 
 + } 
 + armageddon() // Populate the map with monsters... 
 +}
  
 +function gengen() {
 + gensel.innerHTML="<option>ALL</option>"
 + spesel.innerHTML="<option>ALL</option>"
 + var genarr=[]
 + for (var i=0;i<arma.length-1;i++)
 + {
 + if(famsel.value==arma[i].familia && arma[i].genus!="")
 + genarr.push(arma[i].genus)
 + }
 + genarr.sort()
 + for (var i=0;i<genarr.length;i++)
 + {
 + if(i==0)
 + {
 + gensel.innerHTML+="<option>"+genarr[0]+"</option>"
 + continue
 + }
 + if(genarr[i]!=genarr[i-1])
 + gensel.innerHTML+="<option>"+genarr[i]+"</option>"
 + }
 + //genspe() // ...and here we go
 + armageddon() // Populate the map with monsters...
 +}
  
- ox="$kdex" +function genspe() 
- oy="$kdey"+{ 
 + spesel.innerHTML="<option>ALL</option>" 
 + var spearr=[] 
 + for (var i=0;i<arma.length-1;i++) 
 + { 
 + if(gensel.value==arma[i].genus && arma[i].specie!="") 
 + spearr.push(arma[i].specie) 
 + } 
 + spearr.sort() 
 + for (var i=0;i<spearr.length;i++) 
 + { 
 + if(i==0) 
 + { 
 + spesel.innerHTML+="<option>"+spearr[0]+"</option>" 
 + continue 
 + } 
 + if(spearr[i]!=spearr[i-1]) 
 + spesel.innerHTML+="<option>"+spearr[i]+"</option>" 
 + } 
 + armageddon() // Populate the map with monsters... 
 +}
  
 +function armageddon()
 +{
 + var speval=document.getElementById("spe").value
 + var genval=document.getElementById("gen").value
 + var famval=document.getElementById("fam").value
 + var ordval=document.getElementById("ord").value
 + var claval=document.getElementById("cla").value
 + var phyval=document.getElementById("phy").value
 + var regval=document.getElementById("reg").value
 + var a=[]
  
- i=$(($i+1))+ if(speval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].specie==speval && arma[i].genus==genval) // Check genus because of unknown "sp." 
 + a.push(arma[i]) 
 + } 
 + else if(genval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].genus==genval) 
 + a.push(arma[i]) 
 + } 
 + else if(famval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].familia==famval) 
 + a.push(arma[i]) 
 + } 
 + else if(ordval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].ordo==ordval) 
 + a.push(arma[i]) 
 + } 
 + else if(claval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].classis==claval) 
 + a.push(arma[i]) 
 + } 
 + else if(phyval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].phylum==phyval) 
 + a.push(arma[i]) 
 + } 
 + else if(regval!="ALL") 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + if(arma[i].regnum==regval) 
 + a.push(arma[i]) 
 + } 
 + else // Regnum: ALL 
 + { 
 + for(var i=0;i<arma.length-1;i++) 
 + a.push(arma[i]) 
 + }
  
- # Precti XML, vyfiltruj jen to co ma prijit do mapy a serad to dle umisteni + icongeddon(a) 
- #  Umisteni je razene kvuli vic vzorkum z jednoho mista+}
  
-done <<< $(echo "$1") # Zere parametr spaget, nikoli $1 scriptu !!!+function buggy() 
 +{ 
 + var p=[] 
 + for(var i=0;i<arma.length-1;i++) 
 + { 
 + if(arma[i].regnum==""|| 
 +      arma[i].phylum==""|| 
 +      arma[i].classis==""|| 
 +      arma[i].ordo==""|| 
 +      arma[i].familia==""|| 
 +      arma[i].genus=="") 
 +   p.push(arma[i]) 
 + } 
 + icongeddon(p) 
 +}
  
-# Do not forget to print last line when WHILE ends! +function plostenkoidy() 
-if [[ "$sam" = "" ]]; then +{ 
- muchicons=$(echo "$spoj" | grep -oPe "<!-- [a-zA-Z0-9]* -->" | grep -oPe "[a-zA-Z0-9]*" | sort | uniq | wc -l) + var p=[] 
- if [[ "$muchicons" == "1" ]]; then + for(var i=0;i<arma.length-1;i++) 
- samicon=$(geticon $(echo "$spoj" | grep -oPe "<!-- [a-zA-Z0-9]* -->" | grep -oPe "[a-zA-Z0-9]*" | sort | uniq)) + { 
- else + if(arma[i].phylum=="Platyhelminthes") 
- samicon="$ICON_biohazard" + p.push(arma[i]) 
- fi + } 
- sam="<table style=\"hadtbl\">$spoj</table>" + icongeddon(p) 
-else +}
- samicon=$(geticon $(echo "$sam" | grep -oPe "<b>Regnum:</b> [a-zA-Z0-9]*" | grep -oPe "[a-zA-Z0-9]*$")) +
-fi +
-echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($kdex,$kdey).transform(epsg4326,projectTo),{description:'"$sam"'},{externalGraphic:'./$samicon',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});" +
-echo "$2.addFeatures(n$i);"+
  
-} # KONEC FCE SPAGETY !!!+function icongeddon(a) 
 +{ 
 + //alert(a.length) // #thingies to show in the map' 
 + while(map.popups.length) 
 + map.removePopup(map.popups[0]) 
 + vectorLayerDynamic.destroyFeatures()
  
-echo "var ALL = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href=\"http://brmlab.cz\">Brmlab</a>'});" + var bylo="" // Minula pozice 
-spagety "$praseTC" "ALL" "$ICON_biohazard" + var sam="" // HTML samostatneho zaznamu 
-echo "map.addLayer(ALL);"+ var osam="" // predchozi $sam 
 + var spoj="" // HTML had z popisu stejnych pozic 
 + var ospoj="" // Predchozi spoj 
 + var ox="" // Old X 
 + var oy="" // Old Y 
 + var datelog="" // Entries sorted by date for plaintext log 
 + var i=0 // Iterator over a[] (needed after FOR) 
 + var n=[] // New points in the layer 
 + var muchicons=0 // How much Regnum's? 
 + var samicon=ICON_biohazard // Icon 
 + var spojicon=ICON_biohazard // Icon
  
-# Create plaintext log JUST AFTER "spagety ALL" + for(;i<a.length;i++) // -1 fix for last empty entry 
-dateloghtm="<html><head>" + { 
-dateloghtm="$dateloghtm<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>" + // Pokracujem v hadovi 
-dateloghtm="$dateloghtm<link rel='stylesheet' href='./style.css' type='text/css'>" + if(a[i].locus == bylo) 
-dateloghtm="$dateloghtm<title>Brmlab - BioOSM plaintext log</title>" + { 
-dateloghtm="$dateloghtm</head><body>" + sam=""; 
-datelogsort=$(echo -e "$datelog" | sort -r | uniq) + spoj+="<tr><td>" 
-dateloghtm="$dateloghtm $datelogsort" + spoj+='<a href="./det/'+a[i].detid+'.htm" target="_blank">' 
-dateloghtm="$dateloghtm</body></html>" + if(a[i].obr != "") 
-echo "$dateloghtm" > "./plainlog.htm"+ spoj+='<img src="./simg/'+a[i].obr+'" class="hadimg"></a></td>' 
 + else 
 + spoj+='<img src=./"'+ICON_biohazard+'" class="hadimg"></a></td>' 
 + spoj+="<td>"+a[i].qualis+"<br>"+a[i].quando+"</td>" 
 + spoj+="</tr>" 
 + ox=a[i].x 
 + oy=a[i].y 
 + continue; 
 + }
  
-echo "var laycon = [vectorLayer,ALL];" # Layer controls JS array + if(a[i].specie=="sp.") 
-while IFS='' read -r spag || [[ -n "$spag" ]]; do + wikisp="https://en.wikipedia.org/wiki/"+a[i].genus 
- echo "var $spag = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href=\"http://brmlab.cz\">Brmlab</a>'});" + else 
- spg=$(echo "$praseTC" | grep "<new-field-4>$spag</new-field-4>") + wikisp="https://en.wikipedia.org/wiki/"+a[i].genus+" "+a[i].specie
- icon=$(geticon "$spag") +
- spagety "$spg" "$spag" "$icon" +
- echo "laycon.push($spag);" +
-done <<< $(echo "$kingdoms")+
  
-# Plostenky + // Bud prvni zaznam, nebo zmena pozice
-spg=$(echo "$praseTC" | grep "<phylum>Platyhelminthes</phylum>") +
-echo "var Platyhelminthes = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href=\"http://brmlab.cz\">Brmlab</a>'});" +
-spagety "$spg" "Platyhelminthes" "$ICON_plostenkoid" +
-echo "laycon.push(Platyhelminthes)"+
  
 + // Predchozi pozice jen 1 zaznam?
 + if(sam != "")
 + {
 + samicon=geticon(a,i-1)
 + n[i] = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point(ox,oy).transform(epsg4326,projectTo),{'description':sam},{'externalGraphic':samicon,'graphicHeight':24,'graphicWidth':24,'graphicXOffset':-12,'graphicYOffset':-12});
 + vectorLayerDynamic.addFeatures(n[i]);
 + spoj=""
 + sam=""
 + } // ELSE vytvori prazdny radek
 + // Predchozi pozice vic zaznamu?
 + if(spoj!="")
 + {
 + spojicon=geticon(a,i-1)
 + n[i] = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point(ox,oy).transform(epsg4326,projectTo),{'description':"<table class=\"hadtbl\">"+spoj+"</table>"},{'externalGraphic':spojicon,'graphicHeight':24,'graphicWidth':24,'graphicXOffset':-12,'graphicYOffset':-12});
 + vectorLayerDynamic.addFeatures(n[i]);
 + spoj=""
 + sam=""
 + }
  
-echo "var controls = {" + bylo=a[i].locus 
-echo " selector: new OpenLayers.Control.SelectFeature(laycon, { onSelect: createPopup, onUnselect: destroyPopup })" + spoj='<tr><td><a href="./det/'+a[i].detid+'.htm" target="_blank">' 
-echo "};" + if(a[i].obr != "") 
-echo "map.addControl(controls['selector']);" + spoj+='<img src="./simg/'+a[i].obr+'" class="hadimg"></a></td>' 
-echo "controls['selector'].activate();"+ else 
 + spoj+='<img src="./'+geticon(a,i)+'" class="hadimg"</a></td>' 
 + spoj+='<td>'+a[i].qualis+'<br>'+a[i].quando+'</td>' 
 + spoj+="</tr>"
  
  
 + sam='<a href="./det/'+a[i].detid+'.htm" target="_blank"><img src="./simg/'+a[i].obr+'" alt="'+a[i].qualis+'" class="buttimg"></a>'
 + sam+='<br><span class="butttext">'
 + sam+='<b>Qualis:</b> <a href="'+wikisp+'" target="_blank">'+a[i].qualis+'</a><br>'
 + if(a[i].imperium != "")
 + sam+='<b>Imperium:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].imperium+'" target="_blank">'+a[i].imperium+'</a><br>'
 + if(a[i].regnum != "")
 +    sam+='<b>Regnum:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].regnum+'" target="_blank">'+a[i].regnum+'</a><br>'
 + if(a[i].phylum != "")
 + sam+='<b>Phylum:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].phylum+'" target="_blank">'+a[i].phylum+'</a><br>'
 + if(a[i].classis != "")
 + sam+='<b>Classis:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].classis+'" target="_blank">'+a[i].classis+'</a><br>'
 + if(a[i].ordo != "")
 + sam+='<b>Ordo:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].ordo+'" target="_blank">'+a[i].ordo+'</a><br>'
 + if(a[i].familia != "")
 + sam+='<b>Familia:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].familia+'" target="_blank">'+a[i].familia+'</a><br>'
 + if(a[i].genus != "")
 + sam+='<b>Genus:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].genus+'" target="_blank">'+a[i].genus+'</a><br>'
 + if(a[i].specie != "")
 + sam+='<b>Specie:</b> <a href="'+wikisp+'" target="_blank">'+a[i].specie+'</a><br>'
 + if(a[i].bio != "")
 + sam+="<b>Biotope:</b> "+a[i].bio+"<br>"
 + if(a[i].quando != "")
 + sam+="<b>Quando:</b> "+a[i].quando+"<br>"
 + sam+="<b>Locus:</b> "+a[i].locus+" ("+a[i].locplain+")<br>"
 + if(a[i].spec != "")
 +  sam+="<b>Spectator:</b> "+a[i].spec+"<br>"
 + if(a[i].micro != "")
 + sam+="<b>Microscopium:</b> "+a[i].micro+" ("+a[i].microtyp+")<br>"
 + if(a[i].amp != "")
 + sam+="<b>Amplificatio:</b> "+a[i].amp+"<br>"
 + /* if [[ "$des" != "" ]]; then
 + #   sam="$sam<b>Depictio:</b> $des<br>"
 + # fi */
 + if(a[i].vid != "")
 + sam+='<b>Video:</b> <a href="'+a[i].vid+'" target="_blank">'+a[i].vid+'</a><br>'
 + sam+="</span>"
  
 + ox=a[i].x
 + oy=a[i].y
 + } // Konec prochazeni a[]
  
 + // Do not forget to print last line when FOR ends!
 + samicon=geticon(a,i-1)
 + if(sam == "")
 + sam='<table style="hadtbl">'+spoj+'</table>'
  
-echo "function createPopup(feature) {" + n[i]=new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point(a[i-1].x,a[i-1].y).transform(epsg4326,projectTo),{description:"'"+sam+"'"},{externalGraphic:samicon,graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12}); 
- echo " feature.popup = new OpenLayers.Popup.FramedCloud('pop'," + vectorLayerDynamic.addFeatures(n[i]);
- echo " feature.geometry.getBounds().getCenterLonLat()," +
- echo " null," +
- echo " '<div class=\"markerContent\">'+feature.attributes.description+'</div>'," +
- echo " null," +
- echo " false," +
- echo " function() { controls['selector'].unselectAll(); }" +
- echo " );" +
- echo " //feature.popup.closeOnMove = true;" +
- echo " map.addPopup(feature.popup);" +
-echo "}"+
  
-echo "function destroyPopup(feature) {" +} // Konec armageddonu
- echo " feature.popup.destroy();" +
- echo " feature.popup = null;" +
-echo "}"+
  
 +var laycon = [vectorLayer,vectorLayerDynamic,studlay];
  
-echo "function kinchange() {" +var controls = {selector: new OpenLayers.Control.SelectFeature(laycon, { onSelect: createPopup, onUnselect: destroyPopup })}; 
- echo " kinsel=document.getElementById('kin');" +map.addControl(controls['selector']); 
- echo " kinopt=kinsel.options[kinsel.selectedIndex].text;" +controls['selector'].activate();
- echo " for (var i = map.layers.length - 1; i >= 1; i--) {" +
- echo " map.removeLayer(map.layers[i]);" +
- echo " }" +
- echo " map.addLayer(window[kinopt])" +
-echo "}"+
  
-echo "function plostenkoid() {" +function createPopup(feature) 
- echo " for (var i=map.layers.length-1;i>=1;i--) {" +{ 
- echo " map.removeLayer(map.layers[i]);" + feature.popup = new OpenLayers.Popup.FramedCloud('pop', 
- echo " }" + feature.geometry.getBounds().getCenterLonLat(), 
- echo " map.addLayer(Platyhelminthes)" + null, 
-echo "}"+ '<div class="markerContent">'+feature.attributes.description+'</div>', 
 + null, 
 + false, // Close button? 
 + function() { controls['selector'].unselectAll(); } 
 + ); 
 + //feature.popup.closeOnMove = true; 
 + map.addPopup(feature.popup); 
 +}
  
 +function destroyPopup(feature) {
 + feature.popup.destroy();
 + feature.popup = null;
 +}
  
-echo "</script>" +// Run armageddon on initial load 
-echo "</html>"+armageddon() 
 +</code> 
 + 
 +==== Springs ==== 
 + 
 +To be able to better plan routes for collecting planarians, the knowledge of locations of springs seems to be important. So BioOSM can show them! Below is a script to get the locations from OSM XMLs obtainable from [[http://osm.kyblsoft.cz/archiv/]]. 
 + 
 +<code bash studanky.sh> 
 +#!/bin/bash 
 +# generate BioOSM compatible "springs" 
 +# Usage: studanky.sh osmdump.xml 
 +#  
 +# Download OSM file to be passed as $1 
 +# wget "http://osm.kyblsoft.cz/archiv/czech_republic-2019-11-03.osm.gz" 
 +# gzip -kd ./czech_republic-2019-11-03.osm.gz 
 +# 
 +# Pozor ^^ sezere spoustu rameti 
 +# 
 + 
 +osm=$(cat "$1" | sed -e 's/<node/\'$'\a<node/g' -e 's/<\/node>/<\/node\'$'\a/g' -e 's/<way/\'$'\a<way/g' -e 's/<\/way>/<\/way>\'$'\a/g' -e 's/<relation/\'$'\a<relation/g' -e 's/<\/relation>/<\/relation>\'$'\a/g' | tr -d '\n' | tr '\a' '\n' | grep 'v="spring"' | grep 'k="natural"') 
 + 
 +json='{"version":"'$(date --rfc-3339=seconds)'","std":[' 
 + 
 +while IFS='' read -r spr || [[ -n "$spr" ]]; do 
 + n=$(echo "$spr" | grep -oPe 'k="name" v="[^"]*"' | sed -e 's/k="name" v="//g' -e 's/"$//g') 
 + lat=$(echo "$spr" | grep -oPe ' lat="[^"]*"' | sed -e 's/ lat="//g' -e 's/"$//g') 
 + lon=$(echo "$spr" | grep -oPe ' lon="[^"]*"' | sed -e 's/ lon="//g' -e 's/"$//g') 
 + 
 + if [ "$lat" = "" ] || [ "$lon" = "" ]; then 
 + continue; # <way> a tak 
 + fi 
 + if [[ "$n" = "" ]]; then 
 + n="inkognito" 
 + >&2 echo -e "\033[34m $lat $lon \033[0m"; 
 + fi 
 + 
 + json+="{" 
 + json+=" \"name\":\"$n\"," 
 + json+=" \"lon\":\"$lon\"," 
 + json+=" \"lat\":\"$lat\"" 
 + json+="}," 
 + 
 + >&2 echo -e "\033[32m $n $lat $lon\033[0m" 
 + 
 +done <<< $(echo "$osm") 
 + 
 +echo "$json{}]}"
 </code> </code>
project/bioosm/start.txt · Last modified: 2023/09/21 12:15 by sachy