Differences

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--- project:bioosm:start [2018/06/07 16:00] – sachy
+++ project:bioosm:start [2023/05/28 14:58] – make it compatible with Centos 7 sachy
@@ Line 3: / Line 3: @@
 {{template>:project:infobox|
 name=Biologicke zbrane ve vasem okoli|
-image= project:bioosm:biohazard.svg?200 |
+image= bioosm:bioosm.jpg?400 |
-founder=[[user:sachy:start]]|
+founder=[[user:sachy]]|
-interested=[[user:sumie]]|
+interested=[[user:sumie-dh]]|
-sw=CC|
+sw=CC-BY-SA|
 hw=N/A|
 status=active}}
 ~~META:
 status = active
-&relation firstimage = :project:bioosm:biohazard.svg
+&relation firstimage = :project:bioosm:bioosm.jpg
 ~~
 [[http://brmlab.s0c4.net/bioosm/|BioOSM]] je mapa vyskytu mikroorganismu (ras, bakterii, plostenek, ...) a do budoucna i dalsich prirodnin (mineralu, ...).
+==== 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
+  * monitoring zivocichu a rostlin podle zajmu prispevovatelu
+  * snadne klikaci katalogovani nalezu skrze Tellico nevyzadujici coding skills
+  * TODO - jednoduche selekce zajmoveho okruhu subjektu [napr. podle rodu, biotopu, datumu] na mape
+  * procvicovani temne magie commandu grep, sed a regexpu
 ==== Jak to funguje ====
@@ Line 20: / Line 28: @@
 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.
-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 ===
@@ Line 40: / Line 52: @@
   - seskupeni dle lokality
-<code>
+<code bash>
 praseTC=$(unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' | grep -Pe '^<entry id="' | grep "<strcit-do-mapy>yep</strcit-do-mapy>" | sed -E 's/(^.*)(<locality>.*<\/locality>)(.*$)/\2\1\3/' | sort)
 </code>
@@ Line 47: / Line 59: @@
 Nazvy vrstev musi byt v JS poli kvuli ovladacimu API (skryti/zobrazeni)
-<code>
+<code javascript>
 var laycon = [vectorLayer,ALL];
 ...
@@ Line 53: / Line 65: @@
 </code>
-<code>
+<code javascript>
 var controls = {
   selector: new OpenLayers.Control.SelectFeature(laycon,{onSelect: createPopup, onUnselect: destroyPopup})
@@ Line 62: / Line 74: @@
 === Prepnuti viditelnych vrstev ===
-<code>
+<code javascript>
 function kinchange() {
   kinsel=document.getElementById('kin');
@@ Line 74: / Line 86: @@
 === Nastaveni brmlabu do paticky map ===
-<code>
+<code javascript>
 OpenLayers.Layer.Vector('Overlay',{attribution:'<a href="http://brmlab.cz">Brmlab</a>'});
 </code>
@@ Line 81: / Line 93: @@
 OSM maji defaultne copyright nesmyslne odsazeny od spodniho okraje mapy, CSS zmena na nejaky rozumny offset:
-<code>
+<code javascript>
 .olControlAttribution
 {
@@ Line 89: / Line 101: @@
 ==== parse_tellico.sh ====
-<code>
+<code bash parse_tellico.sh>
 #!/bin/bash
 # Parse Tellico database to BioOSM index.htm
 # $1 = tellico .tc file
-# Print result to stdout
+# Print result to /json/*.json
-#
-# Generate minis in simg folder
-# find ./ -type f -exec mogrify -verbose -layers Dispose -resize 128\>x128\> -quality 100% {} +
-#
-#
 #
 # Creates:
-#   (to stdout) index.htm file with the map and static entries
+#   (to stdout) HTML file with the map and static entries
 #   ./det/ID.htm details of each and every entry
+#   ./bioosm.json JSON of all entries
+#   ./bioosm.rss updated RSS feed
+#   ./plainlog.htm sorted entries for easy human/alg
 #
 rm -rfv "./det/*"
 mkdir -p "./det"
-#cat "./index_head.htm"
-# Parse Tellico file to list of entries
+ICON_animalia="animalia.png"
-praseTC=$(unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' | grep -Pe '^<entry id="' | grep "<strcit-do-mapy>yep</strcit-do-mapy>" | sed -E 's/(^.*)(<locality>.*<\/locality>)(.*$)/\2\1\3/' | sort)
+ICON_bacteria="bacteria.png"
+ICON_fungi="fungi.png"
+ICON_chromista="chromista.png"
+ICON_plantae="plantae.svg"
+ICON_plostenkoid="plostenkoid.png"
+ICON_protista="protista.png"
+ICON_biohazard="biohazard.svg"
-# Sorted unique Kingdoms (to be passed as selection criteria)
+json=""
-kingdoms=$(echo "$praseTC" | grep -oe ' <new-field-4>.*</new-field-4> ' | sed -E 's/( )*<(\/)?new-field-4>( )*//g' | sort | uniq)
+geojson=""
+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+=$'<description>New entries in the BioOSM database</description>\n'
+rss+=$'<link>https://bioosm.s0c4.net</link>\n'
+rss+=$'<lastBuildDate></lastBuildDate>\n'
+rss+=$'<pubDate></pubDate>\n'
+rss+=$'<ttl>86400</ttl>\n'
+# paticka (co, rok, odkaz)
+function obioosm () {
+ r="<div id='obioosm'><p>Welcome to BioOSM! This site is owned and maintained by members of the <a href='https://brmlab.cz' target='_blank'>hackerspace brmlab</a>. See our wiki page for further <a href='https://brmlab.cz/project/bioosm/start' target='_blank'>details</a><br>License: <a href='https://creativecommons.org/licenses/by-nc-nd/4.0/' target='_blank'>CC BY-NC-ND</a>. In case you have any questions, suggestions, please let us know at bioosm<span id='zavinacvmejlu'></span>s0c4.net.</p><p>To cite any material (including images) in your publication, please use following format: <br><i>Plskova K, Sacha M, brmlab. BioOSM"
+	if [[ "$1" != "" ]]; then
+		r+=" - $1"
+	fi
+	r+=". "
+	if [[ "$2" != "" ]]; then
+		r+="$2. "
+	else
+		r+="2023. "
+	fi
+	if [[ "$3" != "" ]]; then
+		r+="$3"
+	else
+		r+="https://bioosm.s0c4.net"
+	fi
+	r+="</i></p></div>"
+	echo "$r"
+}
+# Return icon by Regnum
+function geticon () {
+	case "$1" in
+		"Animalia")
+			echo "$ICON_animalia";;
+		"Bacteria")
+			echo "$ICON_bacteria";;
+		"Fungi")
+			echo "$ICON_fungi";;
+		"Chromista")
+			echo "$ICON_chromista";;
+		"Plantae")
+			echo "$ICON_plantae";;
+		"Protista")
+			echo "$ICON_protista";;
+		*)
+			echo "$ICON_biohazard";;
+	esac
+}
+function safehtml () {
+	echo "$1" | sed -e 's/#/%23/g' -e "s/'/\&#39;/g" -e 's/"/\&#34;/g' -e 's/</\&lt;/g' -e 's/>/\&gt;/g' -e 's/^[ ]*//g' -e 's/[ ]*$//g'
+}
+function getgeo () {
+	#g=$(echo "$1 $2" | gdallocationinfo -wgs84 ./geo/eusr5000_600dpi_cesko_8b_geo.tif | grep -v 255 | grep -oPe '[0-9]+$')
+	g=$(echo "$1 $2" | gdallocationinfo -wgs84 ./geo/eusr5000_600dpi_cesko_8b_geo.tif | grep -v 255 | grep -oE '[0-9]+$')
+	case "$g" in
+		"1")
+			echo "Fluvial deposits, sediments";;
+		"128")
+			echo "Weathering residues of different rocks, loess";;
+		"130")
+			echo "Volcanic rocks";;
+		"133")
+			echo "Igneous and metamorphic rocks, Palaeozoic sedimentary rocks, loess";;
+		"143")
+			echo "Loess, igneous and metamorphic rocks";;
+		"144")
+			echo "Loess, Cretaceous sandstone and marl";;
+		"147")
+			echo "Igneous, metamorphic and Palaeozoic sedimentary rocks, loess";;
+		"148")
+			echo "Igneous and metamorphic rocks, loess";;
+		"149")
+			echo "Igneous and metamorphic rocks, Palaeozoic sedimentary rocks, loess";; # asi fakt stejny jako 133 omg
+		"150")
+			echo "Igneous and metamorphic rocks, palaeozoic sedimentary rocks";;
+		"153")
+			echo "Sandy and loamy loess, Tertiary sediments, fluvial deposits";;
+		"205")
+			echo "Cretaceous and Tertiary flysch, marl, sandstone, limestone";;
+		*)
+			echo "";;
+	esac
+}
+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 = JSON filename without suffix
+# $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)\",\"fund\":\"$2\",\"arma\":["
+	geojson='{"type":"FeatureCollection","version":"BIOOSM_'
+	geojson+="$(date --rfc-3339=seconds)"
+	geojson+='","features":['
+	while IFS='' read -r radek || [[ -n "$radek" ]]; do
+		if [[ "$radek" = "" ]]; then
+			continue;
+		fi
+		entryid=$(echo "$radek" | sed -E 's/^.*<entry id="([0-9]+)">.*$/\1/g;t;d')
+		co=$(echo "$radek" | sed -E 's/^.*<title>(.*)<\/title>.*$/\1/g;t;d')
+		co=$(safehtml "$co")
+		obr=$(echo "$radek" | sed -E 's/^.*<image>(.*)<\/image>.*$/\1/g;t;d' | sed -E 's/^.*\///g')
+		kde=$(echo "$radek" | sed -E 's/^.*<locality>(.*)<\/locality>.*$/\1/g;t;d')
+		kde=$(safehtml "$kde")
+		kdex=$(echo "$kde" | sed -E 's/^[0-9]+\.[0-9]+[, ]*//g;t;d') # keep second part
+		kdey=$(echo "$kde" | sed -E 's/[, ]*[0-9]+\.[0-9]+$//g;t;d') # keep first part
+		kdy=$(echo "$radek" | sed -E 's/^.*<taken-date>(.*)<\/taken-date>.*$/\1/g;t;d' | 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 "$radek" | sed -E 's/^.*<new-field-1>(.*)<\/new-field-1>.*$/\1/g;t;d')
+		skop_typ=$(safehtml "$skop_typ")
+		skop=$(echo "$radek" | sed -E 's/^.*<microscope>(.*)<\/microscope>.*$/\1/g;t;d')
+		skop=$(safehtml "$skop")
+		imp=$(echo "$radek" | sed -E 's/^.*<new-field-3>(.*)<\/new-field-3>.*$/\1/g;t;d')
+		imp=$(safehtml "$imp")
+		reg=$(echo "$radek" | sed -E 's/^.*<new-field-4>(.*)<\/new-field-4>.*$/\1/g;t;d')
+		reg=$(safehtml "$reg")
+		phy=$(echo "$radek" | sed -E 's/^.*<phylum>(.*)<\/phylum>.*$/\1/g;t;d')
+		phy=$(safehtml "$phy")
+		cla=$(echo "$radek" | sed -E 's/^.*<class>(.*)<\/class>.*$/\1/g;t;d')
+		cla=$(safehtml "$cla")
+		ord=$(echo "$radek" | sed -E 's/^.*<order>(.*)<\/order>.*$/\1/g;t;d')
+		ord=$(safehtml "$ord")
+		fam=$(echo "$radek" | sed -E 's/^.*<family>(.*)<\/family>.*$/\1/g;t;d')
+		fam=$(safehtml "$fam")
+		gen=$(echo "$radek" | sed -E 's/^.*<genus>(.*)<\/genus>.*$/\1/g;t;d')
+		gen=$(safehtml "$gen")
+		spe=$(echo "$radek" | sed -E 's/^.*<species>(.*)<\/species>.*$/\1/g;t;d')
+		spe=$(safehtml "$spe")
+		loc=$(echo "$radek" | sed -E 's/^.*<locality---plaintext>(.*)<\/locality---plaintext>.*$/\1/g;t;d')
+		loc=$(safehtml "$loc")
+		des=$(echo "$radek" | sed -E 's/^.*<description>(.*)<\/description>.*$/\1/g;t;d')
+		des=$(safehtml "$des")
+		vid=$(echo "$radek" | sed -E 's/^.*<videolink>(.*)<\/videolink>.*$/\1/g;t;d')
+		vid=$(safehtml "$vid")
+		bio=$(echo "$radek" | sed -E 's/^.*<biotope>(.*)<\/biotope>.*$/\1/g;t;d')
+		bio=$(safehtml "$bio")
+		eng=$(echo "$radek" | sed -E 's/^.*<enlargement>(.*)<\/enlargement>.*$/\1/g;t;d')
+		eng=$(safehtml "$eng")
+		obs=$(echo "$radek" | sed -E 's/^.*<observer>(.*)<\/observer>.*$/\1/g;t;d')
+		obs=$(safehtml "$obs")
+		lnk=$(echo "$radek" | sed -E 's/^.*<localitylink>(.*)<\/localitylink>.*$/\1/g;t;d')
+		lnk=$(safehtml "$lnk")
+		har=$(echo "$radek" | sed -E 's/^.*<harvesting-method>(.*)<\/harvesting-method>.*$/\1/g;t;d')
+		den=$(echo "$radek" | sed -E 's/^.*<population-density>(.*)<\/population-density>.*$/\1/g;t;d')
+		dur=$(echo "$radek" | sed -E 's/^.*<min>(.*)<\/min>.*$/\1/g;t;d')
+		lor=$(echo "$radek" | sed -E 's/^.*<locality-reference>(.*)<\/locality-reference>.*$/\1/g;t;d')
+		lrl=$(echo "$radek" | sed -E 's/^.*<locality-reference---link>(.*)<\/locality-reference---link>.*$/\1/g;t;d')
+		lov=$(echo "$radek" | sed -E 's/^.*<locality---vobrazek>(.*)<\/locality---vobrazek>.*$/\1/g;t;d' | sed -E 's/^.*\///g')
+		lov=$(safehtml "$lov")
+		cls=$(echo "$radek" | sed -E 's/^.*<cluster>([0-9]*)<\/cluster>.*$/\1/g;t;d')
+		mpi=$(echo "$radek" | grep -oe ' <mainpic>yep</mainpic> ')
+		elv=$(echo "$kdex $kdey" | gdallocationinfo -wgs84 ./elev/cesko_big.tiff | grep "Value" | grep -oe '[0-9]+$')
+		geo=$(getgeo "$kdex" "$kdey")
+		gra=$(echo "$radek" | sed -E 's/^.*<grant>(.*)<\/grant>.*$/\1/g;t;d')
+		tem=$(echo "$radek" | sed -E 's/^.*<temperature>(.*)<\/temperature>.*$/\1/g;t;d')
+		cnd=$(echo "$radek" | sed -E 's/^.*<conductivity>(.*)<\/conductivity>.*$/\1/g;t;d')
+		 ph=$(echo "$radek" | sed -E 's/^.*<ph>(.*)<\/ph>.*$/\1/g;t;d')
+		kar=$(echo "$radek" | sed -E 's/^.*<karyotype>(.*)<\/karyotype>.*$/\1/g;t;d')
+		lid=$(echo "$radek" | sed -E 's/^.*<localityid>(.*)<\/localityid>.*$/\1/g;t;d')
+		 #>&2 echo "$co - $har - $den - $dur - $lor - $lrl - $lov - $elv"
+		 #continue;
+		detid=$(echo "brmlab$co$obr$kde$kdy" | md5sum | grep -oe '[a-zA-Z0-9]*')
+		if [[ "$kdex" = "" ]]; then
+			>&2 echo -e "\033[31m $lid KDEX '$kde' '$co' \033[0m"
+			>&2 echo -e "\033[31m $lid RADEK '$radek' \033[0m"
+			continue;
+		fi
+		zkurvenetellico=$(echo "$obr" | grep -oe '\.[a-zA-Z]*$')
+		odkurvenyobr=$(echo "$obr" | sed -e 's/%23/#/g')
+		#if [[ "$zkurvenetellico" = ".jpeg" ]]; then
+		if [[ ! -f "./img/$odkurvenyobr" ]]; then
+			if [[ "$gen" != "negative" ]]; then
+				>&2 echo -e "\033[31m $lid OBR $odkurvenyobr $co\033[0m"
+				continue;
+			fi
+		fi
+		obr=$(safehtml "$obr")
+		if [[ "$spe" = "sp." ]]; then
+			wikisp="https://en.wikipedia.org/wiki/$gen"
+		else
+			wikisp="https://en.wikipedia.org/wiki/$gen $spe"
+		fi
+		povr=""
+		povs=""
+		pov=""
+		if [[ "$phy" = "Platyhelminthes" ]]; then
+			povr=$(cat "./povodi_r.json" | ./povodi.py "$kdey" "$kdex")
+			#povrf=$(echo "$povr" | grep -oPe '^[^ ]*' | tr 'e' 'E')
+			povrf=$(echo "$povr" | sed -e 's/ .*$//g' | tr 'e' 'E')
+			povrn=$(echo "$povr" | sed -e 's/^[^ ]* //g')
+			povs=$(cat "./povodi_s.json" | ./povodi.py "$kdey" "$kdex")
+			#povsf=$(echo "$povs" | grep -oPe '^[^ ]*' | tr 'e' 'E')
+			povsf=$(echo "$povs" | sed -e 's/ .*$//g' | tr 'e' 'E')
+			povsn=$(echo "$povs" | sed -e 's/^[^ ]* //g')
+			if (( $(echo "$povsf < $povrf" | bc -l) )) ; then
+				pov="$povsn - $povrn"
+			else
+				pov="$povrn"
+			fi
+		fi
+		if [[ "$cls" = "" ]]; then
+			cls=0
+		fi
+		if [[ "$mpi" = "" ]]; then
+			mpi=""
+		else
+			mpi="y"
+		fi
+		Tjson="{"
+		Tjson+=" \"title\":\"$co\"," # qualis
+		Tjson+=" \"imperium\":\"$imp\","
+		Tjson+=" \"regnum\":\"$reg\","
+		Tjson+=" \"phylum\":\"$phy\","
+		Tjson+=" \"classis\":\"$cla\","
+		Tjson+=" \"ordo\":\"$ord\","
+		Tjson+=" \"familia\":\"$fam\","
+		Tjson+=" \"genus\":\"$gen\","
+		Tjson+=" \"specie\":\"$spe\","
+		Tjson+=" \"locality\":\"$kde\"," # locus
+		Tjson+=" \"x\":\"$kdex\","
+		Tjson+=" \"y\":\"$kdey\","
+		Tjson+=" \"locplain\":\"$loc\","
+		Tjson+=" \"description\":\"$des\"," # depictio
+		Tjson+=" \"takendate\":\"$kdy\"," # quando
+		Tjson+=" \"obr\":\"$obr\","
+		Tjson+=" \"micro\":\"$skop\","
+		Tjson+=" \"microtyp\":\"$skop_typ\","
+		Tjson+=" \"videolink\":\"$vid\"," # vid
+		Tjson+=" \"biotope\":\"$bio\"," # bio
+		Tjson+=" \"enlargement\":\"$eng\"," # amp
+		Tjson+=" \"observer\":\"$obs\"," # spec
+		Tjson+=" \"detid\":\"$detid\","
+		Tjson+=" \"harvestingmethod\":\"$har\"," # har
+		Tjson+=" \"populationdensity\":\"$den\"," # den
+		Tjson+=" \"min\":\"$dur\"," # dur
+		Tjson+=" \"localityreference\":\"$lor\"," # lor
+		Tjson+=" \"localityreferencelink\":\"$lrl\"," #lrl
+		Tjson+=" \"localityvobrazek\":\"$lov\"," # lov
+		Tjson+=" \"localitylink\":\"$lnk\"," # lnk
+		Tjson+=" \"cluster\":$cls," # cls
+		Tjson+=" \"mainpic\":\"$mpi\"," # mpi
+		Tjson+=" \"pov\":\"$pov\","
+		Tjson+=" \"elv\":\"$elv\","
+		Tjson+=" \"geo\":\"$geo\","
+		Tjson+=" \"temperature\":\"$tem\"," # tem
+		Tjson+=" \"conductivity\":\"$cnd\"," # cnd
+		Tjson+=" \"ph\":\"$ph\","
+		Tjson+=" \"karyotype\":\"$kar\"" # kar # Last without ','
+		Tjson+="}"
+		json+="$Tjson,"
+		geojson+='{"type":"Feature","geometry":{"type":"point","coordinates":['
+		geojson+="$kdex,$kdey"
+		geojson+=']},"properties":'
+		geojson+="$Tjson},"
+		rss+=$'<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+="<meta property='og:title' content='BioOSM - $co $kde'>"
+		detpg+="<meta property='og:description' content='$obs found $co and took an image and additional notes.'>"
+		detpg+="<meta property='og:image' content='https://brmlab.s0c4.net/bioosm/img/$obr'>"
+		detpg+="<meta property='og:url' content='https://brmlab.s0c4.net/bioosm/det/$detid.htm'>"
+		detpg+="<meta name='twitter:card' content='summary_large_image'>"
+		detpg+="<meta name='og:type' content='website'>"
+		detpg+="<meta property='og:site_name' content='BioOSM - creatures around us'>"
+		detpg+="<meta name='twitter:image:alt' content='Image of $co'>"
+		detpg+="</head>"
+		if [[ "$cls" != "0" ]]; then
+			detpg+="<script src='../bioosmdet.js'></script>"
+			detpg+="<script>getJSONarma($cls)</script>"
+		fi
+		detpg+="<body>"
+		detpg+="<table class='dettbl'><tr>"
+		detpg+="<h1>$co (<a href='$wikisp' target='_blank'>wiki</a>)</h1>"
+		detpg+="<td style='width:33%;vertical-align:top'>"
+		if [[ "$imp" != "" ]]; then
+			detpg+="<b>Domain:</b> <a href='https://en.wikipedia.org/wiki/$imp' target='_blank'>$imp</a><br>"
+		fi
+		if [[ "$reg" != "" ]]; then
+			detpg+="<b>Kingdom:</b> <a href='https://en.wikipedia.org/wiki/$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 [[ "$cla" != "" ]]; then
+			detpg+="<b>Class:</b> <a href='https://en.wikipedia.org/wiki/$cla' target='_blank'>$cla</a><br>"
+		fi
+		if [[ "$ord" != "" ]]; then
+			detpg+="<b>Order:</b> <a href='https://en.wikipedia.org/wiki/$ord' target='_blank'>$ord</a><br>"
+		fi
+		if [[ "$fam" != "" ]]; then
+			detpg+="<b>Family:</b> <a href='https://en.wikipedia.org/wiki/$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 [[ "$spe" != "" ]]; then
+			detpg+="<b>Species:</b> <a href='$wikisp' target='_blank'>$spe</a><br>"
+		fi
+		if [[ "$kar" != "" ]]; then
+			detpg+="<b>Karyotype:</b> $kar<br>"
+		fi
+		detpg+="<br>"
+		if [[ "$kdy" != "" ]]; then
+			detpg+="<b>Date:</b> $kdy<br>"
+		fi
+		if [[ "$lnk" != "" ]]; then
+			loc="<a href=\"$lnk\" target=\"_blank\">$loc</a>" # Yes, escaped "
+		fi
+		detpg+="<b>Place:</b> $kde ($loc)<br>"
+		if [[ "$elv" != "" ]]; then
+			detpg+="<b>Elevation:</b> $elv m<br>"
+		fi
+		if [[ "$obs" != "" ]]; then
+			detpg+="<b>Observer:</b> $obs<br>"
+		fi
+		if [[ "$bio" != "" ]]; then
+			detpg+="<b>Biotope:</b> $bio<br>"
+		fi
+		if [[ "$pov" != "" ]]; then
+			detpg+="<b>River:</b> $pov<br>"
+		fi
+		if [[ "$geo" != "" ]]; then
+			detpg+="<b>Bedrock:</b> $geo<br>"
+		fi
+		if [[ "$tem" != "" ]]; then
+			detpg+="<b>Temperature:</b> $tem °C<br>"
+		fi
+		if [[ "$cnd" != "" ]]; then
+			detpg+="<b>Conductivity:</b> $cnd mSv<br>"
+		fi
+		if [[ "$ph" != "" ]]; then
+			detpg+="<b>pH:</b> $ph<br>"
+		fi
+		detpg+="<span id='microscopeval'>"
+		if [[ "$skop" != "" ]]; then
+			detpg+="<b>Microscope:</b> $skop ($skop_typ)<br>"
+		fi
+		detpg+="</span>"
+		detpg+="<span id='ampval'>"
+		if [[ "$eng" != "" ]]; then
+			detpg+="<b>Amplification:</b> $eng<br>"
+		fi
+		detpg+="</span>"
+		if [[ "$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> $lor<br>"
+		fi
+		detpg+="<span id='descval'>"
+		if [[ "$des" != "" ]]; then
+			detpg+="<b>Description:</b> $des<br>"
+		fi
+		detpg+="</span>"
+		detpg+="<br><b>More on <a href=\"../\">BioOSM map</a></b><br>"
+		detpg+="<br>"
+		lhx=$(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+="<div id='maximatura'><a href=\"../img/$obr\"><img src=\"../img/$obr\" alt=\"$co\" class='detimg'></a></div>"
+			detpg+="<div id='miniatury'></div>"
+		else
+			if [[ "$vid" != "" ]]; then
+				detyt=$(echo "$vid" | sed -e 's/youtube.com\/watch?v=/youtube.com\/embed\//g')
+				detpg+="<iframe class='detvid' src='$detyt' frameborder='0' allow='encrypted-media' allowfullscreen></iframe>"
+			else
+				if [[ "$gen" == "negative" ]]; then
+					detpg+="<img src=\"../negative.png\" alt=\"Negative observation\" class='detimg'>"
+				else
+					detpg+="<img src=\"../$3\" alt=\"video\" class='detimg'>"
+				fi
+			fi
+		fi
+		if [[ "$lov" != "" ]]; then
+			detpg+="<img class=\"detimg\" src=\"../lokality/$lov\" alt=\"Locality photo\"><br>"
+		fi
+		detpg+="</td></tr></table>"
+		detpg+=$(obioosm "$co" "$quando" "https://brmlab.s0c4.net/bioosm/det/$detid.htm")
+		detpg+="</body><script>document.getElementById('zavinacvmejlu').innerHTML='@'</script></html>"
+		echo "$detpg" > "./det/$detid.htm"
+		# Plain log of entries
+		datelog+="$kdy $kde <a href='./det/$detid.htm' target='_blank'>$co</a><br>\n"
+		>&2 echo -e "\033[32m$lid $co $obs\033[0m"
+		ox="$kdex"
+		oy="$kdey"
+		i=$(($i+1))
+	done <<< $(echo "$1") # Zere parametr spaget, nikoli $1 scriptu !!!
+	echo -e "$json{}]}" | sed -e "s/^var data='//g" > "./jsonrss/$2.json"
+#	echo -e "$json{}]}'"
+	echo -e "$geojson{}]}" > "./jsonrss/geo_$2.geojson"
+	rss+=$'</channel>\n'
+	rss+=$'</rss>\n'
+	echo "$rss" > "./jsonrss/$2.rss"
+} # KONEC FCE SPAGETY
+# Sorted unique Kingdoms (to be passed as selection criteria)
+#kingdoms=$(unzip -p "$1" tellico.xml | grep -oe '<new-field-4>.*</new-field-4>' | sed -E 's/( )*<(\/)?new-field-4>( )*//g' | sort | uniq)
+kingdoms=$(unzip -p "$1" tellico.xml | sed -E 's/^.*<new-field-4>(.*)<\/new-field-4>.*$/\1/g;t;d' | sort | uniq)
 echo '<!DOCTYPE html>'
@@ Line 120: / Line 603: @@
 echo '<head>'
 echo '	<meta http-equiv="Content-Type" content="text/html; charset=utf-8">'
-echo '	<title>BioOSM</title>'
+echo '	<title>brmlab - BioOSM</title>'
 echo '	<link rel="stylesheet" href="./style.css" type="text/css">'
+echo '	<link rel="favicon" href="./'$ICON_biohazard'">'
 echo '	<script src="./OpenLayers.js"></script>'
 echo '</head>'
+echo '<body>'
+# Generate select
+echo "<div id='plainlog'><b><a href='./bioosm.rss'>RSS feed</a><br><a href='./plainlog.htm'>Quick news log</a></b></div>"
+#echo "<h1 id='title'>BioOSM - arma biologica in tuis vicinia</h1>"
+echo "<h1 id='title'>BioOSM - creatures around us</h1>"
-echo "<body>"
+ksel="<select id='reg' onChange='genphy()'>"
-	echo "<h1 id='title'>BioOSM - armis biologica in tuis vicinia</h1>"
+ksel="$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 "Kingdom: $ksel "
+echo "Phylum: <select id='phy' onChange='gencla()'><option>ALL</option></select> "
+echo "Class: <select id='cla' onChange='genord()'><option>ALL</option></select> "
+echo "Order: <select id='ord' onChange='genfam()'><option>ALL</option></select> "
+echo "Family: <select id='fam' onChange='gengen()'><option>ALL</option></select> "
+echo "Genus: <select id='gen' onChange='genspe()'><option>ALL</option></select>"
+echo "Species: <select id='spe' onChange='armageddon()'><option>ALL</option></select>"
-	# Generate select
+echo "<br><input type='button' value='Platyhelminthes' onClick='plostenkoidy()'>"
-	ksel="<select id='kin' onChange='kinchange()'>"
+echo "<label><input type='checkbox' id='studchecker' onChange='studdrv()'>Springs</label>"
-	ksel="$ksel<option value='ALL' selected>ALL</option>"
+#echo "<input type='button' value='Bugs' onClick='buggy()'>"
-	while IFS='' read -r king || [[ -n "$king" ]]; do
+echo "<form style='display:inline;margin-left:5em'><input type='text' length=10 id='srch'><input type='submit' value='&#x1F50D;' onClick='limit();return false;'></form>"
-		ksel="$ksel<option value='"$king"'>$king</option>"
+echo "<br><br><div id='map' class='smallmap'></div>"
-	done <<< $(echo "$kingdoms")
+echo $(obioosm "" "" "")
-	ksel="$ksel</select>"
-	echo "Regnum: $ksel | "
-	echo "<input type='button' value='Plostenkoidy' onClick='plostenkoid()'><br><br>"
-  echo "<div id='map' class='smallmap'></div>"
 echo "</body>"
-echo '<script>'
+echo "<script>"
+echo 'document.getElementById("zavinacvmejlu").innerHTML="@";'
 echo 'map = new OpenLayers.Map("map");'
 echo 'map.addLayer(new OpenLayers.Layer.OSM());'
@@ Line 158: / Line 653: @@
 echo '	new OpenLayers.Geometry.Point(14.41876, 50.10554).transform(epsg4326, projectTo),'
 echo '		{description:"Atomovy atol Brmkini"} ,'
-echo '		{externalGraphic: "./biohazard.svg", graphicHeight:24, graphicWidth:24, graphicXOffset:-12, graphicYOffset:-12},'
+echo '		{externalGraphic: "./biohazard.svg", graphicHeight:8, graphicWidth:8, graphicXOffset:-4, graphicYOffset:-4},'
 echo ');'
 echo 'vectorLayer.addFeatures(atol);'
@@ Line 166: / Line 661: @@
-i=1 # GLOBAL increment must persist multiple spagety() calls; incremented to infinity
+# Parse Tellico file to get list of entries
-# Core function generating entries matching selection criteria (ie Kingdom)
+granty=$(unzip -p "$1" tellico.xml | grep "<grant>" | sed -E 's/( )*<(\/)?grant>( )*//g' | sed -E 's/_additional$//g' | sort -u | grep -v "^none$")
-# !!! BEZ ODSAZENI !!!
+#praseTC=$(unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' | grep -Pe '^<entry id="' | grep "<strcit-do-mapy>yep</strcit-do-mapy>" | sed -E 's/(^.*)(<locality>.*<\/locality>)(.*$)/\2\1\3/' | sort)
-# $1 = list of entries
+#praseTC=$(unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' | grep -Pe '^<entry id="' | sed -E 's/(^.*)(<locality>.*<\/locality>)(.*$)/\2\1\3/' | sort)
-# $2 = layer name
+praseTC=$(unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' | grep -E '^<entry id="' | sed -E 's/(^.*)(<locality>.*<\/locality>)(.*$)/\2\1\3/' | sort)
-# $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 $spoj
-ox="" # Old X
-oy="" # Old Y
-while IFS='' read -r radek || [[ -n "$radek" ]]; do
+velkyvepr=$(echo "$praseTC" | grep "<strcit-do-mapy>yep</strcit-do-mapy>")
+spagety "$velkyvepr" "bioosm" "$ICON_biohazard"
-	co=$(echo "$radek" | grep -oe ' <title>.*</title> ' | sed -E 's/( )*<(\/)?title>( )*//g')
+# VSECHNO i non-public - zakomentuj predchozi "spagety" a odkomunetuj tohle + exit
-	obr=$(echo "$radek" | grep -oe ' <image>.*</image> ' | sed -E 's/( )*<(\/)?image>( )*//g' | grep -oPe '[^/]*$')
+#spagety "$praseTC" "celytraktor" "$ICON_biohazard" # vsechno i non-public
-	kde=$(echo "$radek" | grep -oe '<locality>.*</locality>' | grep -oPe '[0-9]{2}\.[0-9]{1,10}[, ]*[0-9]{2}\.[0-9]{1,10}')
+#exit
-	kdex=$(echo "$kde" | grep -oPe '[0-9]{2}\.[0-9]{1,10}$')
-	kdey=$(echo "$kde" | grep -oPe '^[0-9]{2}\.[0-9]{1,10}')
-	kdy=$(echo "$radek" | grep -oe ' <taken-date>.*</taken-date> ' | sed -E 's/( )*<(\/)?taken-date>( )*//g')
-	skop_typ=$(echo "$radek" | grep -oe ' <new-field-1>.*</new-field-1> ' | sed -E 's/( )*<(\/)?new-field-1>( )*//g')
-	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')
+while IFS='' read -r grnt || [[ -n "$grnt" ]]; do
+ # 'nope' pokud to ma byt jen na grantstrance ale ne ve velkem bioosm
+	#vepr=$(echo "$praseTC" | grep -Pe "<strcit-do-mapy>(yep)|(negative)|(nope)</strcit-do-mapy>" | grep -Pe "<grant>$grnt(_additional)?</grant>")
+	vepr=$(echo "$praseTC" | grep -E "<strcit-do-mapy>(yep)|(negative)|(nope)</strcit-do-mapy>" | grep -E "<grant>$grnt(_additional)?</grant>")
+	spagety "$vepr" "$grnt" "$ICON_biohazard"
+done <<< $(echo "$granty")
-	if [[ "$kdex" = "" ]]; then
+#echo -e "$json{}]}"
-		>&2 echo $(echo "$radek" | grep -oe '<locality>.*</locality>') " $co"
+echo '</script>'
-		continue;
+echo '<script src="./bioosm.js"></script>' # Must be after JSON
-	fi
+echo "</html>"
-	zkurvenetellico=$(echo "$obr" | grep -oe '\.[a-zA-Z]*$')
-	if [[ "$zkurvenetellico" = ".jpeg" ]]; then
-		>&2 echo "$obr $co"
-		continue;
-	fi
+# Create plaintext log
+dateloghtm="<html><head>"
+dateloghtm+="<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>"
+dateloghtm+="<link rel='stylesheet' href='./style.css' type='text/css'>"
+dateloghtm+="<title>Brmlab - BioOSM plaintext log</title>"
+dateloghtm+="</head><body>"
+datelogsort=$(echo -e "$datelog" | sort -r | uniq)
+dateloghtm+="$datelogsort"
+dateloghtm+="</body></html>"
+echo "$dateloghtm" > "./plainlog.htm"
+</code>
-	# Generate detail page
+==== bioosm.js ====
-	detid=$(echo "brmlab$co$obr$kde$kdy" | md5sum | grep -oe '[a-zA-Z0-9]*')
-	detpg="<html><head>"
+<code javascript bioosm.js>
-	detpg="$detpg<meta http-equiv='Content-Type' content='text/html; charset=utf-8'>"
+window.blob=JSON.parse('{}');
-	detpg="$detpg<link rel='stylesheet' href='../style.css' type='text/css'>"
+window.arma=null;
-	detpg="$detpg<title>Brmlab - BioOSM $co $kde</title>"
+//
-	detpg="$detpg</head><body>"
+// MAIN LOAD START HERE
-	detpg="$detpg<table class='dettbl'><tr>"
+// https://web.archive.org/web/20200502112446/http://dev.openlayers.org/releases/OpenLayers-2.13.1/doc/apidocs/files/OpenLayers-js.html
-	detpg="$detpg<td><h1>$co</h1>"
+//
-	if [[ "$imp" != "" ]]; then
+//
-		detpg="$detpg<b>Imperium:</b> $imp<br>"
+function getJSONbioosm()
-	fi
+{
-	if [[ "$reg" != "" ]]; then
+	url="./bioosm.json";
-		detpg="$detpg<b>Regnum:</b> $reg<br>"
+	var request;
-	fi
+	if(window.XMLHttpRequest)
-	if [[ "$phy" != "" ]]; then
+		request=new XMLHttpRequest();
-		detpg="$detpg<b>Phylum:</b> $phy<br>"
-	fi
-	if [[ "$cla" != "" ]]; then
-		detpg="$detpg<b>Classis:</b> $cla<br>"
-	fi
-	if [[ "$ord" != "" ]]; then
-		detpg="$detpg<b>Ordo:</b> $ord<br>"
-	fi
-	if [[ "$fam" != "" ]]; then
-		detpg="$detpg<b>Familia:</b> $fam<br>"
-	fi
-	if [[ "$gen" != "" ]]; then
-		detpg="$detpg<b>Genus:</b> $gen<br>"
-	fi
-	if [[ "$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>"
-	if [[ "$obr" != "" ]]; then
-		detpg="$detpg<a href=\"../img/$obr\"><img src=\"../img/$obr\" alt=\"$co\" class='detimg'></a>"
 	else
-		if [[ "$vid" != "" ]]; then
+		request=new ActiveXObject("Microsoft.XMLHTTP");
-			detyt=$(echo "$vid" | sed -e 's/youtube.com\/watch?v=/youtube.com\/embed\//g')
+	request.onreadystatechange=function()
-			detpg="$detpg<iframe class='detvid' src='$detyt' frameborder='0' allow='encrypted-media' allowfullscreen></iframe>"
+	{
-		else
+		if(request.readyState==4)
-			detpg="$detpg<img src=\"../$3\" alt=\"video\" class='detimg'>"
+		{
-		fi
+			window.blob=JSON.parse(request.responseText);
-	fi
+			window.arma=blob.arma;
-	detpg="$detpg</td></tr></table>"
+			// Display ONLY platyhelminthes if reguired
-	detpg="$detpg</body></html>"
+			pus=document.URL.match(/platyhelminthes=understone/);
-	echo "$detpg" > "./det/$detid.htm"
+			if(pus)
+				plostenkoidy();
+			else
+				// Else initial load
+				armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+wat=document.URL.match(/(index.htm)|(bioosm\/$)/);
+if(wat)
+	getJSONbioosm();
-	# Pokracujem v hadovi
+var stud=JSON.parse('{}');
-	if [[ "$kde" = "$bylo" ]]; then
-		sam="";
+var vectorLayerDynamic = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href="http://brmlab.cz">Brmlab</a>'});
-		spoj="$spoj<tr><td><a href=\"./det/$detid.htm\" target=\"_blank\">"
+var vectorLayerPonygon = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href="http://brmlab.cz">Brmlab</a>'});
-		if [[ "$obr" != "" ]]; then
+map.addLayer(vectorLayerPonygon);
-			spoj="$spoj<img src=\"./simg/$obr\" class=\"hadimg\"></a></td>"
+map.addLayer(vectorLayerDynamic);
+//map.setLayerZIndex(vectorLayerDynamic,999);
+//map.raiseLayer(vectorLayerDynamic,map.layers.length);
+var studlay = new OpenLayers.Layer.Vector("Overlay",{attribution:"<a href=\"http://brmlab.cz\">Brmlab</a>"}); // studanky
+map.addLayer(studlay);
+var regsel=document.getElementById("reg")
+var physel=document.getElementById("phy")
+var clasel=document.getElementById("cla")
+var ordsel=document.getElementById("ord")
+var famsel=document.getElementById("fam")
+var gensel=document.getElementById("gen")
+var spesel=document.getElementById("spe")
+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"
+var ICON_negative="negative.png"
+function getJSONcsop21()
+{
+	url="./CSOP_122123.json";
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.blob=JSON.parse(request.responseText);
+			window.arma=blob.arma;
+			armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+function getJSONcsop22()
+{
+	url="./CSOP_122210.json";
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.blob=JSON.parse(request.responseText);
+			window.arma=blob.arma;
+			armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+function getJSONexfissgtig()
+{
+	url="./none_exfiss_gtig.json";
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.blob=JSON.parse(request.responseText);
+			window.arma=blob.arma;
+			armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+function getJSONempb22()
+{
+	url="./EPMB2022.json"; // jo preklep kurva
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.blob=JSON.parse(request.responseText);
+			window.arma=blob.arma;
+			armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+function getJSONparas()
+{
+	url="./parasitology.json"; // jo preklep kurva
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.blob=JSON.parse(request.responseText);
+			window.arma=blob.arma;
+			armageddon()
+		}
+	}
+	request.open("GET",url,true);
+	request.send();
+}
+function getJSONstud()
+{
+	url="./stud.json";
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	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=[];
+	for(i=0;i<sjs.length;i++)
+	{
+		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});
+		studlay.addFeatures(s[i]);
+	}
+}
+function studdrv()
+{
+	box=document.getElementById("studchecker");
+	if(box.checked)
+		getJSONstud();
+	else
+		studlay.destroyFeatures();
+}
+// Return icon by Regnum
+function geticon (a,i)
+{
+	if(a[i].genus=="negative")
+		return ICON_negative;
+	var p=true;
+	var r=""
+	if(document.getElementById("reg").value!="ALL")
+	{
+		r=document.getElementById("reg").value
+		p=false;
+	}
+	else
+	{
+		r=a[i].regnum
+		for(var e=i;e>=0 && a[e].locality==a[i].locality;e--)
+		{
+			if(a[e].phylum!="Platyhelminthes")
+				p=false;
+			if(a[e].regnum!=a[i].regnum)
+			{
+				r="ALL";
+				break;
+			}
+		}
+	}
+	switch (r)
+	{
+		case "Animalia":
+		{
+			if(p)
+				return ICON_plostenkoid;
+			return ICON_animalia;
+		}
+		case "Bacteria":
+			return ICON_bacteria;
+		case "Fungi":
+			return ICON_fungi;
+		case "Chromista":
+			return ICON_chromista;
+		case "Plantae":
+			return ICON_plantae;
+		case "Protista":
+			return ICON_protista;
+		default:
+			return ICON_biohazard
+	}
+}
+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>"
+	var phyarr=[]
+	for (var i=0;i<window.arma.length-1;i++)
+	{
+		if(regsel.value==window.arma[i].regnum && window.arma[i].phynum!="")
+			phyarr.push(window.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...
+}
+function gencla() {
+	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>"
+	var claarr=[]
+	for (var i=0;i<window.arma.length-1;i++)
+	{
+		if(physel.value==window.arma[i].phylum && window.arma.classis!="")
+			claarr.push(window.arma[i].classis)
+	}
+	claarr.sort()
+	for (var i=0;i<claarr.length;i++)
+	{
+		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...
+}
+function genord() {
+	ordsel.innerHTML="<option>ALL</option>"
+	famsel.innerHTML="<option>ALL</option>"
+	gensel.innerHTML="<option>ALL</option>"
+	spesel.innerHTML="<option>ALL</option>"
+	var ordarr=[]
+	for (var i=0;i<window.arma.length-1;i++)
+	{
+		if(clasel.value==window.arma[i].classis && window.arma[i].ordo!="")
+			ordarr.push(window.arma[i].ordo)
+	}
+	ordarr.sort()
+	for (var i=0;i<ordarr.length;i++)
+	{
+		if(i==0)
+		{
+			ordsel.innerHTML+="<option>"+ordarr[0]+"</option>"
+			continue
+		}
+		if(ordarr[i]!=ordarr[i-1])
+			ordsel.innerHTML+="<option>"+ordarr[i]+"</option>"
+	}
+	armageddon() // Populate the map with monsters...
+}
+function genfam() {
+	famsel.innerHTML="<option>ALL</option>"
+	gensel.innerHTML="<option>ALL</option>"
+	spesel.innerHTML="<option>ALL</option>"
+	var famarr=[]
+	for (var i=0;i<window.arma.length-1;i++)
+	{
+		if(ordsel.value==window.arma[i].ordo && window.arma[i].familia!="")
+			famarr.push(window.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<window.arma.length-1;i++)
+	{
+		if(famsel.value==window.arma[i].familia && window.arma[i].genus!="")
+			genarr.push(window.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...
+}
+function genspe()
+{
+	spesel.innerHTML="<option>ALL</option>"
+	var spearr=[]
+	for (var i=0;i<window.arma.length-1;i++)
+	{
+		if(gensel.value==window.arma[i].genus && window.arma[i].specie!="")
+			spearr.push(window.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=[]
+	if(speval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].specie==speval && window.arma[i].genus==genval) // Check genus because of unknown "sp."
+				a.push(window.arma[i])
+	}
+	else if(genval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].genus==genval)
+				a.push(window.arma[i])
+	}
+	else if(famval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].familia==famval)
+				a.push(window.arma[i])
+	}
+	else if(ordval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].ordo==ordval)
+				a.push(window.arma[i])
+	}
+	else if(claval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].classis==claval)
+				a.push(window.arma[i])
+	}
+	else if(phyval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].phylum==phyval)
+				a.push(window.arma[i])
+	}
+	else if(regval!="ALL")
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			if(window.arma[i].regnum==regval)
+				a.push(window.arma[i])
+	}
+	else // Regnum: ALL
+	{
+		for(var i=0;i<window.arma.length-1;i++)
+			a.push(window.arma[i])
+	}
+	icongeddon(a)
+}
+function buggy()
+{
+	var p=[]
+	for(var i=0;i<window.arma.length-1;i++)
+	{
+		if(window.arma[i].regnum==""||
+	     window.arma[i].phylum==""||
+	     window.arma[i].classis==""||
+	     window.arma[i].ordo==""||
+	     window.arma[i].familia==""||
+	     window.arma[i].genus=="")
+		  p.push(window.arma[i])
+	}
+	icongeddon(p)
+}
+function plostenkoidy()
+{
+	var p=[]
+	for(var i=0;i<window.arma.length-1;i++)
+	{
+		if(window.arma[i].phylum=="Platyhelminthes")
+			p.push(window.arma[i])
+	}
+	icongeddon(p)
+}
+function icongeddon(a)
+{
+	//alert(a.length) // #thingies to show in the map'
+	while(map.popups.length)
+		map.removePopup(map.popups[0])
+	vectorLayerDynamic.destroyFeatures()
+	var bylo="" // Minula pozice
+	var sam="" // HTML samostatneho zaznamu
+	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
+	for(;i<a.length;i++) // -1 fix for last empty entry
+	{
+		if(a[i].cluster!=0&&a[i].mainpic!="y") // show only in gallery, without icon in map
+			continue;
+		// Pokracujem v hadovi
+		if(a[i].locality == bylo)
+		{
+			sam="";
+			spoj+="<tr><td>"
+			spoj+='<a href="./det/'+a[i].detid+'.htm" target="_blank">'
+			if(a[i].obr != "")
+				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].title+"<br>"+a[i].takendate+"</td>"
+			spoj+="</tr>"
+			ox=a[i].x
+			oy=a[i].y
+			continue;
+		}
+		switch(a[i].specie)
+		{
+			case "sp.":
+			{
+				wikisp="https://en.wikipedia.org/wiki/"+a[i].genus
+				break;
+			}
+			case "negative":
+			case "":
+			{
+				wikisp="https://en.wikipedia.org/wiki/Null_result"
+				break;
+			}
+			default:
+			{
+				wikisp="https://en.wikipedia.org/wiki/"+a[i].genus+" "+a[i].specie
+				break;
+			}
+		}
+		// Bud prvni zaznam, nebo zmena pozice
+		// 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=""
+		}
+		bylo=a[i].locality
+		spoj='<tr><td><a href="./det/'+a[i].detid+'.htm" target="_blank">'
+		if(a[i].obr != "")
+			spoj+='<img src="./simg/'+a[i].obr+'" class="hadimg"></a></td>'
 		else
-			spoj="$spoj<img src=\"./$3\" class=\"hadimg\"></a></td>"
+			spoj+='<img src="./'+geticon(a,i)+'" class="hadimg"</a></td>'
-		fi
+		spoj+='<td>'+a[i].title+'<br>'+a[i].takendate+'</td>'
-		spoj="$spoj<td>$co<br>$kdy</td>"
+		spoj+="</tr>"
-		spoj="$spoj</tr>"
-		ox="$kdex"
-		oy="$kdey"
-		continue;
-	fi
-	# Bud prvni zaznam, nebo zmena pozice
+		sam='<a href="./det/'+a[i].detid+'.htm" target="_blank"><img src="'+(a[i].genus=='negative'?ICON_negative:'./simg/'+a[i].obr)+'" alt="'+a[i].title+'" class="buttimg"></a>'
+		sam+='<br><span class="butttext">'
+		sam+='<a href="'+wikisp+'" target="_blank">'+(a[i].title=="negative"?"Negative observation":a[i].title)+'</a><br>'
+		if(a[i].imperium != "")
+			sam+='<b>Domain:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].imperium+'" target="_blank">'+a[i].imperium+'</a><br>'
+		if(a[i].regnum != "")
+    	sam+='<b>Kingdom:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].regnum+'" target="_blank">'+a[i].regnum+'</a><br>'
+		if(a[i].phylum != "")
+			sam+='<b>Phylum:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].phylum+'" target="_blank">'+a[i].phylum+'</a><br>'
+		if(a[i].classis != "")
+			sam+='<b>Class:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].classis+'" target="_blank">'+a[i].classis+'</a><br>'
+		if(a[i].ordo != "")
+			sam+='<b>Order:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].ordo+'" target="_blank">'+a[i].ordo+'</a><br>'
+		if(a[i].familia != "")
+			sam+='<b>Family:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].familia+'" target="_blank">'+a[i].familia+'</a><br>'
+		if(a[i].genus != "" && a[i].genus!="negative")
+			sam+='<b>Genus:</b> <a href="https://en.wikipedia.org/wiki/'+a[i].genus+'" target="_blank">'+a[i].genus+'</a><br>'
+		if(a[i].specie != "")
+			sam+='<b>Species:</b> <a href="'+wikisp+'" target="_blank">'+a[i].specie+'</a><br>'
+		if(a[i].biotope != "")
+			sam+="<b>Biotope:</b> "+a[i].biotope+"<br>"
+		if(a[i].pov != "")
+			sam+="<b>River:</b> "+a[i].pov+"<br>"
+		if(a[i].temperature != "")
+			sam+="<b>Temperature:</b> "+a[i].temperature+" °C<br>"
+		if(a[i].pov != "")
+			sam+="<b>Conductivity:</b> "+a[i].conductivity+" mSv<br>"
+		if(a[i].pov != "")
+			sam+="<b>pH:</b> "+a[i].ph+"<br>"
-	# Predchozi pozice jen 1 zaznam?
-	if [[ "$sam" != "" ]]; then
-		echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($ox,$oy).transform(epsg4326,projectTo),{description:'"$sam"'},{externalGraphic:'./$3',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});"
-		echo "$2.addFeatures(n$i);"
-		spoj=""
-		sam=""
-	fi # ELSE vytvori prazdny radek
-	# Predchozi pozice vic zaznamu?
-	if [[ "$spoj" != "" ]]; then
-		echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($ox,$oy).transform(epsg4326,projectTo),{description:'<table class=\"hadtbl\">"$spoj"</table>'},{externalGraphic:'./$3',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});"
-    echo "$2.addFeatures(n$i);"
-		spoj=""
-		sam=""
-	fi
-	bylo="$kde"
-	spoj="<tr><td><a href=\"./det/$detid.htm\" target=\"_blank\">"
+		if(a[i].takendate != "")
-	if [[ "$obr" != "" ]]; then
+			sam+="<b>Date:</b> "+a[i].takendate+"<br>"
-		spoj="$spoj<img src=\"./simg/$obr\" class=\"hadimg\"></a></td>"
+		sam+="<b>Location:</b> "+a[i].locality+" ("+a[i].locplain+")<br>"
+		if(a[i].observer != "")
+ 			sam+="<b>Spectator:</b> "+a[i].observer+"<br>"
+		if(a[i].micro != "")
+			sam+="<b>Microscope:</b> "+a[i].micro+" ("+a[i].microtyp+")<br>"
+		if(a[i].enlargement != "")
+			sam+="<b>Amplification:</b> "+a[i].enlargement+"<br>"
+		/* if [[ "$des" != "" ]]; then
+		#   sam="$sam<b>Depictio:</b> $des<br>"
+		# fi */
+		//if(a[i].videolink != "")
+		//	sam+='<b>Video:</b> <a href="'+a[i].videolink+'" target="_blank">'+a[i].videolink+'</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>'
+	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});
+	vectorLayerDynamic.addFeatures(n[i]);
+} // Konec armageddonu
+//var laycon = [vectorLayer,vectorLayerPonygon,vectorLayerDynamic,studlay];
+var laycon = [vectorLayer,vectorLayerDynamic,studlay];
+var controls = {selector: new OpenLayers.Control.SelectFeature(laycon, { onSelect: createPopup, onUnselect: destroyPopup })};
+map.addControl(controls['selector']);
+controls['selector'].activate();
+function createPopup(feature)
+{
+	feature.popup = new OpenLayers.Popup.FramedCloud('pop',
+		feature.geometry.getBounds().getCenterLonLat(),
+		null,
+		'<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;
+}
+// Vyhledavani
+function limit()
+{
+	srch=document.getElementById("srch").value.toLowerCase();
+	var p=[]
+	for(var i=0;i<window.arma.length-1;i++)
+	{
+		if(window.arma[i].title.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].imperium.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].regnum.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].phylum.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].classis.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].ordo.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].familia.toLowerCase().indexOf(srch)>=0||
+		   //window.arma[i].genus.toLowerCase().indexOf(srch)>=0|| // v "qualis"
+		   //window.arma[i].observerie.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].locplain.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].description.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].takendate.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].micro.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].microtyp.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].biotope.toLowerCase().indexOf(srch)>=0||
+		   window.arma[i].pov.toLowerCase().indexOf(srch)>=0)
+		  p.push(arma[i])
+	}
+	icongeddon(p)
+}
+// ====== GEOJSON ======
+var metageo=JSON.parse("{}");
+var geje=[];
+var gejbarva="";
+function placegeo(coor,gejbarva)
+{
+	var geja=new Array;
+	epsg4326 =  new OpenLayers.Projection("EPSG:4326"); //WGS 1984 projection
+	projectTo = map.getProjectionObject();
+	for(i=0;i<coor.length;i++)
+	{
+		geja.push(new OpenLayers.Geometry.Point(coor[i][0],coor[i][1]).transform(epsg4326, projectTo))
+	}
+/* "default" namespaces work for Layers, not Features
+	var lajna=new OpenLayers.StyleMap({
+	    "default": new OpenLayers.Style({
+        //strokeColor: "#FF0000",
+        strokeColor: gejbarva,
+        strokeOpacity: 1,
+        strokeWidth: 5,
+        pointRadius: 6,
+	    }),
+	    "select": new OpenLayers.Style({
+	      //strokeColor: "#0000FF",
+	      strokeColor: gejbarva,
+	      strokeOpacity: 1,
+	      strokeWidth: 5,
+	      pointRadius: 6,
+	    })
+	}); */
+	var lajna={ // Feature without the namespaces
+        strokeColor: gejbarva,
+        strokeOpacity: 1,
+        strokeWidth: 5,
+        pointRadius: 6,
+	};
+	gejs=new OpenLayers.Geometry.LineString(geja);
+	vectorLayerPonygon.addFeatures([new OpenLayers.Feature.Vector(gejs,{},lajna)]);
+}
+function getsld(url,s,g)
+{
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
 	else
-		spoj="$spoj<img src=\"./$3\" class=\"hadimg\"</a></td>"
+		request=new ActiveXObject("Microsoft.XMLHTTP");
-	fi
+	request.overrideMimeType("text/plain");
-	spoj="$spoj<td>$co<br>$kdy</td>"
+	request.onreadystatechange=function()
-	spoj="$spoj</tr>"
+	{
+		if(request.readyState==4)
+		{
+			tmpc=request.responseText;
+			tmpc=tmpc.match(/SvgParameter name="stroke">#[0-9a-fA-F]*<\/se:SvgParameter/)[0].match(/#[0-9a-fA-F]*/)[0];
+			getgeo(url,g,tmpc);
+			//console.log(tmpc);
+		}
+	}
+	request.open("GET",url+s,true);
+	request.send();
+}
-	sam="<a href=\"./det/$detid.htm\" target=\"_blank\"><img src=\"./simg/$obr\" alt=\"$co\" class=\"buttimg\"></a>"
-	sam="$sam<br><span class=\"butttext\"><b>Qualis:</b> $co<br>"
-	if [[ "$imp" != "" ]]; then
-		sam="$sam<b>Imperium:</b> $imp<br>"
-	fi
-	if [[ "$reg" != "" ]]; then
-		sam="$sam<b>Regnum:</b> $reg<br>"
-	fi
-	if [[ "$phy" != "" ]]; then
-		sam="$sam<b>Phylum:</b> $phy<br>"
-	fi
-	if [[ "$cla" != "" ]]; then
-		sam="$sam<b>Classis:</b> $cla<br>"
-	fi
-	if [[ "$ord" != "" ]]; then
-		sam="$sam<b>Ordo:</b> $ord<br>"
-	fi
-	if [[ "$fam" != "" ]]; then
-		sam="$sam<b>Familia:</b> $fam<br>"
-	fi
-	if [[ "$gen" != "" ]]; then
-		sam="$sam<b>Genus:</b> $gen<br>"
-	fi
-	if [[ "$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 "$sam"
+function getgeo(url,g,c)
-	>&2 echo "$co $obs"
+{
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.overrideMimeType("application/geo+json");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			tmpg=JSON.parse(request.responseText);
+			for(var e=0;e<tmpg.features.length;e++)
+			{
+				if(typeof tmpg.features[e].properties === 'undefined') // || tmpg.features[e].properties.osm_type!="way")
+					continue;
+				for(var i=0;i<tmpg.features[e].geometry.coordinates.length;i++)
+				{
+					for(var j=0;j<tmpg.features[e].geometry.coordinates[i].length;j++)
+					{
+						if(tmpg.features[e].geometry.coordinates[i][j].length<2)
+							continue;
+						//console.log(tmpg.features[e].properties.osm_type+" "+tmpg.features[e].geometry.coordinates[i][j].length);
+						placegeo(tmpg.features[e].geometry.coordinates[i][j],c);
+					}
+				}
+			}
+		}
+	}
+	request.open("GET",url+g,true);
+	request.send();
+}
-	ox="$kdex"
+// ENTRY POINT
-	oy="$kdey"
+// parametr je ./ adresar ve kterem je metadata.json S LOMITKEM NA KONCI
+function drawgeojson(url)
+{
+	var request;
+	if(window.XMLHttpRequest)
+		request=new XMLHttpRequest();
+	else
+		request=new ActiveXObject("Microsoft.XMLHTTP");
+	request.onreadystatechange=function()
+	{
+		if(request.readyState==4)
+		{
+			window.metageo=JSON.parse(request.responseText);
+			for(var i=0;i<metageo.layers.length;i++)
+			{
+				//console.log(metageo.layers[i].geojson);
+				getsld(url,metageo.layers[i].sld,metageo.layers[i].geojson)
+			}
+		}
+	}
+	request.open("GET",url+"metadata.json",true);
+	request.send();
+}
+</code>
-	i=$(($i+1))
+==== Springs ====
-	# Precti XML, vyfiltruj jen to co ma prijit do mapy a serad to dle umisteni
+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/]].
-	#  Umisteni je razene kvuli vic vzorkum z jednoho mista
-done <<< $(echo "$1") # Zere parametr spaget, nikoli $1 scriptu !!!
+<code bash studanky.sh>
+#!/bin/bash
+# generate BioOSM compatible "springs"
+# Usage: studanky.sh osmdump.xml
+#
+# Download OSM file to be passed as $1
+# wget "http://osm.kyblsoft.cz/archiv/czech_republic-2019-11-03.osm.gz"
+# gzip -kd ./czech_republic-2019-11-03.osm.gz
+#
+# Pozor ^^ sezere spoustu rameti
+#
-# Do not forget to print last line when WHILE ends!
+osm=$(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>\'$'\a/g' | tr -d '\n' | tr '\a' '\n' | grep 'v="spring"' | grep 'k="natural"')
-if [[ "$sam" = "" ]]; then
-	sam="<table style=\"hadtbl\">$spoj</table>"
-fi
-echo "var n$i = new OpenLayers.Feature.Vector(new OpenLayers.Geometry.Point($kdex,$kdey).transform(epsg4326,projectTo),{description:'"$sam"'},{externalGraphic:'./$3',graphicHeight:24,graphicWidth:24,graphicXOffset:-12,graphicYOffset:-12});"
-echo "$2.addFeatures(n$i);"
-} # KONEC FCE SPAGETY !!!
+json='{"version":"'$(date --rfc-3339=seconds)'","std":['
-echo "var ALL = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href=\"http://brmlab.cz\">Brmlab</a>'});"
+while IFS='' read -r spr || [[ -n "$spr" ]]; do
-spagety "$praseTC" "ALL" "biohazard.svg"
+	n=$(echo "$spr" | grep -oPe 'k="name" v="[^"]*"' | sed -e 's/k="name" v="//g' -e 's/"$//g')
-echo "map.addLayer(ALL);"
+	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')
-echo "var laycon = [vectorLayer,ALL];" # Layer controls JS array
+	if [ "$lat" = "" ] || [ "$lon" = "" ]; then
-while IFS='' read -r spag || [[ -n "$spag" ]]; do
+		continue; # <way> a tak
-	echo "var $spag = new OpenLayers.Layer.Vector('Overlay',{attribution:'<a href=\"http://brmlab.cz\">Brmlab</a>'});"
+	fi
-	spg=$(echo "$praseTC" | grep "<new-field-4>$spag</new-field-4>")
+	if [[ "$n" = "" ]]; then
-	case "$spag" in
+		n="inkognito"
-		"Animalia")
+		>&2 echo -e "\033[34m $lat $lon \033[0m";
-			icon="animalia.png";;
+	fi
-		"Bacteria")
-			icon="bacteria.png";;
-		"Fungi")
-			icon="fungi.png";;
-		"Chromista")
-			icon="chromista.png";;
-		"Plantae")
-			icon="plantae.svg";;
-		"Protista")
-			icon="protista.png";;
-		*)
-			icon="biohazard.svg";;
-	esac
-	spagety "$spg" "$spag" "$icon"
+	json+="{"
-	echo "laycon.push($spag);"
+	json+=" \"name\":\"$n\","
-done <<< $(echo "$kingdoms")
+	json+=" \"lon\":\"$lon\","
+	json+=" \"lat\":\"$lat\""
+	json+="},"
-# Plostenky
+	>&2 echo -e "\033[32m $n $lat $lon\033[0m"
-spg=$(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" "plostenkoid.png"
-echo "laycon.push(Platyhelminthes)"
+done <<< $(echo "$osm")
-echo "var controls = {"
+echo "$json{}]}"
-echo "	selector: new OpenLayers.Control.SelectFeature(laycon, { onSelect: createPopup, onUnselect: destroyPopup })"
+</code>
-echo "};"
-echo "map.addControl(controls['selector']);"
-echo "controls['selector'].activate();"
+=== LocalityID ===
+<code bash ajdy.sh>
+#!/bin/bash
+T=$(mktemp)
+unzip -p "$1" tellico.xml | tr -d '\n' | sed -e $'s/<entry id="/\\\n<entry id="/g' -e $'s/<\/entry>/<\/entry>\\\n/g' > "$T"
+hf=$(cat "$T" | grep -Pe '^<entry id="' | grep '<hasflatworms>yep</hasflatworms>')
+# nejvyssi dosazene ID
+mid=$(cat "$T" | grep -Pe '^<entry id="' | grep -oe ' <localityid>.*</localityid> ' | grep -oPe '[0-9]+' | sort | tail -n 1)
+mid=$(($mid+1))
-echo "function createPopup(feature) {"
-	echo "	feature.popup = new OpenLayers.Popup.FramedCloud('pop',"
-		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) {"
+function ll()
-	echo "	feature.popup.destroy();"
+{
-	echo "	feature.popup = null;"
+	while IFS='' read -r r || [[ -n "$r" ]]; do
-echo "}"
+		t=$(echo "$r" | grep -oe ' <taken-date>.*</taken-date> ' | sed -E 's/( )*<(\/)?taken-date>( )*//g' | sed -E 's/([0-9]+)\.([0-9]+)\.([0-9]{4})/\3-\2-\1/g' | sed -E 's/-([0-9])-/-0\1-/g' | sed -E 's/-([0-9])$/-0\1/g')
+		l=$(echo "$r" | grep -oe '<locality>.*</locality>' | grep -oPe '[0-9]+\.[0-9]+[, ]*[0-9]+\.[0-9]+')
+		 echo "$t@$l"
+	done <<< $(echo "$1")
+}
+srt=$(ll "$hf" | sort -u)
-echo "function kinchange() {"
+uid=$mid
-	echo "	kinsel=document.getElementById('kin');"
+while IFS='' read -r r || [[ -n "$r" ]]; do
-	echo "	kinopt=kinsel.options[kinsel.selectedIndex].text;"
+	l=$(echo "$r" | grep -oPe '@.*$' | tr -d '@')
-	echo "	for (var i = map.layers.length - 1; i >= 1; i--) {"
+	lid=$(cat "$T" | grep  " <locality>$l</locality> " | grep -oe ' <localityid>.*</localityid> ' | grep -oPe '[0-9]+')
-	echo "		map.removeLayer(map.layers[i]);"
+	if [[ "$lid" = "" ]]; then
-	echo "	}"
-	echo "	map.addLayer(window[kinopt])"
-echo "}"
-echo "function plostenkoid() {"
+		sedexp="s/( <locality>$l<\/locality> .*<hasflatworms>yep<\/hasflatworms> )/ \\1 <localityid>$uid<\/localityid> /g"
-	echo "	for (var i=map.layers.length-1;i>=1;i--) {"
+		#echo "$sedexp"
-	echo "		map.removeLayer(map.layers[i]);"
+		sed -E "$sedexp" -i "$T"
-	echo "	}"
+		uid=$(($uid+1))
-	echo "	map.addLayer(Platyhelminthes)"
+	fi
-echo "}"
+done <<< $(echo "$srt")
+D=$(mktemp -d)
+cp -f "$T" "$D/tellico.xml"
+zip -j "./micro_new.tc" "$D/tellico.xml"
-echo "</script>"
+rm -rfv "$T"
-echo "</html>"
+rm -rfv "$D"
 </code>