ireport: iReport.xml annotate

annotate iReport.xml @ 6:42076db43d42 draft

Fixed auto resizing plus various other minor bugs

author	saskia-hiltemann
date	Mon, 16 Nov 2015 08:56:22 -0500
parents	4e21ce709269
children	0f2b740536fb

rev	line source
5 4e21ce709269 Uploaded saskia-hiltemann parents: 4 diff changeset	1 <tool id="iReport" name="iReport" version="1">
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	2
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	3 <!-- Note to Galaxy Admins:
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	4 This wrapper contains one hidden parameter with hardcoded server location, this is currently needed for dalliance genome browser to function correctly,
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	5 please change this value as needed! (see below for parameter: <param name="localhost" type="hidden" value="https://bioninf-galaxian.erasmusmc.nl"/>)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	6 -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	7
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	8
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	9 <description> create an HTML report </description>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	10
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	11 <requirements>
2 e8755431a0cd fixed missing dependencies saskia-hiltemann parents: 1 diff changeset	12 <requirement type="set_environment">REPOSITORY_PATH</requirement>
e8755431a0cd fixed missing dependencies saskia-hiltemann parents: 1 diff changeset	13 </requirements>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	14
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	15 <command interpreter="bash">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	16
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	17 #set $labelb64 = str($label).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	18 #set $coverimageb64 = str($coverimage).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	19
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	20 iReport.sh
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	21 --toolpath \$REPOSITORY_PATH
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	22 --galaxypath ${report.files_path}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	23 --htmlout ${report}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	24 --minwidth ${minwidth}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	25 --coverimage -${coverimageb64}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	26 #for $i, $t in enumerate($tabs)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	27 #set $tabtitleb64 = str($t.tabtitle).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	28 --tab ${tabtitleb64}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	29 #for $j, $u in enumerate($t.content)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	30 #if $u.filetype.itemtype == "image"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	31 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.zoomlevel}:${u.filetype.zoomenable}:${u.filetype.align}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	32 #else if $u.filetype.itemtype == "table"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	33 #if $u.filetype.collink.columnhyperlink == "Y"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	34 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.fancy}:Y:${u.filetype.collink.urlcol}:${u.filetype.collink.urlprefix}:${u.filetype.collink.urlsuffix}:${u.filetype.collink.urlitems}:${u.filetype.minw}:${u.filetype.minh}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	35 #else
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	36 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.fancy}:N:${u.filetype.minw}:${u.filetype.minh}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	37 #end if
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	38 #else if $u.filetype.itemtype == "link"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	39 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${__app__.security.encode_id($u.filetype.item.id)}:${u.filetype.ireport}:${u.filetype.item2}:${localhost}:${proxy}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	40 #else if $u.filetype.itemtype == "weblink"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	41 #set $itemb64 = str($u.filetype.item).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	42 #set $item2b64 = str($u.filetype.item2).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	43 --item "${t.tabtitle}:${u.filetype.itemtype}:${itemb64}:${u.filetype.break}:${item2b64}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	44 #else if $u.filetype.itemtype == "text"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	45 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.md}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	46 #else if $u.filetype.itemtype == "textfile"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	47 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.md}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	48 #else if $u.filetype.itemtype == "htmlfile"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	49 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.height}:${__app__.security.encode_id($u.filetype.item.id)}:${u.filetype.ireport}:${localhost}:${proxy}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	50 #else if $u.filetype.itemtype == "htmlpage"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	51 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}:${u.filetype.height}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	52 #else if $u.filetype.itemtype == "genomebrowser"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	53 #set $itemb64 = str($u.filetype.initialview).encode('base64').replace('\n','')
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	54 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.genomebuild}:${u.filetype.break}:${__app__.security.encode_id($report.id)}:${localhost}:${itemb64}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	55 --newgb "-"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	56 #for $k, $gb in enumerate($u.filetype.gbtracks)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	57 --genomebrowsertrack ${gb.item}:${gb.tracklabel}:${gb.gbfiletype}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	58 #end for
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	59 #else
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	60 --item "${t.tabtitle}:${u.filetype.itemtype}:${u.filetype.item}:${u.filetype.break}"
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	61 #end if
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	62 #end for
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	63 #end for
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	64 --label ${labelb64}
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	65
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	66 </command>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	67
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	68 <inputs>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	69 <!-- this sucks, but need to hardcode where galaxy is running from for some components -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	70 <param name="localhost" type="hidden" value="https://bioinf-galaxian.erasmusmc.nl/galaxy">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	71 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	72 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	73 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	74 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	75 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	76 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	77 <add source=":" target="==colon=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	78 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	79 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	80 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	81 <param name="proxy" type="hidden" value="galaxy"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	82 <!-- /sucks -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	83
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	84
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	85 <param name="label" type="text" size="100" label="Name of Report" >
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	86 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	87 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	88 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	89 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	90 <remove value="$"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	91 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	92 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	93 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	94 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	95 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	96 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	97 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	98 <add source="<" target="&#60;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	99 <add source=">" target="&#62;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	100 <add source=":" target="&#58;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	101 <add source="$" target="&#36;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	102 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	103 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	104 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	105
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	106 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	107 </sanitizer>
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	108 <validator type="empty_field" />
a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	109 </param>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	110 <param name="coverimage" type="text" size="100" label="Link to cover image" help="Optional. A default image will be used if not specified">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	111 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	112 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	113 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	114 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	115 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	116 <remove value="$"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	117 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	118 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	119 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	120 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	121 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	122 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	123 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	124 <add source=" " target=""/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	125 <add source="<" target="&#60;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	126 <add source=">" target="&#62;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	127 <add source=":" target="&#58;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	128 <add source="$" target="&#36;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	129 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	130 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	131 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	132 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	133 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	134 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	135
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	136 <param name="minwidth" type="integer" min="0" max="5000" value="1200" label="Width of page (in pixels)" />
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	137 <repeat name="tabs" title="Tab" default="1" >
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	138 <param name="tabtitle" type="text" size="50" label="Enter tab name">
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	139 <sanitizer>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	140 <valid initial="default">
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	141 <add preset="string.printable"/>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	142 <remove value=":"/>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	143 <remove value=" "/>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	144 <remove value="$"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	145 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	146 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	147 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	148 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	149 <remove value=")"/>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	150 </valid>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	151 <mapping initial="none">
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	152 <add source=":" target="&#58;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	153 <add source=" " target="&#32;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	154 <add source="$" target="&#36;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	155 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	156 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	157 <add source="(" target="&#40;"/>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	158 </mapping>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	159 </sanitizer>
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	160 <validator type="empty_field" />
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	161 </param>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	162 <repeat name="content" title="Content-Item" default="1">
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	163 <conditional name="filetype">
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	164 <param name="itemtype" type="select" label="Select Item Type" >
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	165 <option value="" > Please choose item type </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	166 <option value="text" > Text Field </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	167 <option value="textfile" > Text File from history </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	168 <option value="htmlfile"> HTML File from history </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	169 <option value="htmlpage"> iFrame with HTML page from web </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	170 <option value="image"> Image </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	171 <option value="pdf" > PDF File </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	172 <option value="table"> Table </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	173 <option value="link" > Link to Dataset </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	174 <option value="links"> Links to Files in Archive Dataset </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	175 <option value="weblink" > Web link </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	176 <option value="genomebrowser" > Genome Browser (beta) </option>
4 a4813532bbc6 Added MarkDown support saskia-hiltemann parents: 2 diff changeset	177 <validator type="empty_field" />
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	178 </param>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	179
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	180 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	181 # Text Field #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	182 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	183 <when value="text">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	184 <param name="md" type="boolean" truevalue="Y" falsevalue="n" checked="false" label="Text in MarkDown format?" help="If checked, text file or field will be interpreted as markdown"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	185 <param name="item" type="text" area="true" size="10x100" label="Text to display." help="can explicitly add whitespace adding \n in your text for a newline or \t for a tab. HTML tags em, strong, b, i, h1-h6 tags" >
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	186 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	187 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	188 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	189 <remove value="\"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	190 <remove value="/"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	191 <remove value=","/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	192 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	193 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	194 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	195 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	196 <remove value="'"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	197 <remove value="""/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	198 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	199 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	200 <remove value="&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	201 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	202 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	203 <remove value="`"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	204 <remove value="$"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	205 <remove value="\|"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	206 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	207 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	208 <add source="\" target="\\"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	209 <add source="/" target="==slash=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	210 <add source="&" target="&&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	211 <add source=" " target="&n"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	212 <add source=" " target="&r"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	213 <add source=":" target="&c"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	214 <add source=" " target="==space=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	215 <add source="," target="==comma=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	216 <add source="<" target="==lt=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	217 <add source=">" target="==gt=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	218 <add source="'" target="==apos=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	219 <add source=""" target="==quote=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	220 <add source=":" target="&#58;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	221 <add source="`" target="==backtick=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	222 <add source="$" target="==dollar=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	223 <add source="\|" target="==bar=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	224 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	225 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	226 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	227 <validator type="empty_field" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	228 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	229 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	230 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	231
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	232 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	233 # Text File #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	234 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	235 <when value="textfile">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	236 <param name="md" type="boolean" truevalue="Y" falsevalue="n" checked="false" label="Text in MarkDown format?" help="If checked, text file or field will be interpreted as markdown. Will use pandoc if this is installed on the system, else uses a custom script"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	237 <param name="item" type="data" label="Text File" help="Text file to display verbatim"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	238 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	239 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	240
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	241 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	242 # HTML File #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	243 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	244 <when value="htmlfile">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	245 <param name="item" type="data" label="HTML File" help="Contents of html file will be displayed in an iframe"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	246 <param name="ireport" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="is the link another iReport?"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	247 <param name="height" type="integer" min="0" max="500000" value="350" label="Height (in pixels)" help="Height of the iFrame displaying the html page"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	248 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	249 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	250
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	251 <when value="htmlpage">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	252 <param name="item" type="text" label="URL" size="100" help="Contents of webpage will be displayed in an iframe">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	253 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	254 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	255 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	256 <remove value="&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	257 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	258 <remove value="/"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	259 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	260 <remove value="$"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	261 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	262 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	263 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	264 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	265 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	266 <add source="&" target="&#38;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	267 <add source=":" target="&#58;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	268 <add source="/" target="&#47;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	269 <add source=" " target="&#32;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	270 <add source="$" target="&#36;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	271 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	272 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	273 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	274 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	275 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	276 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	277 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	278 <param name="height" type="integer" min="0" max="500000" value="350" label="Height (in pixels)" help="Height of the iFrame displaying the html page"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	279 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	280 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	281
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	282 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	283 # Images #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	284 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	285 <when value="image">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	286 <param name="item" type="data" label="Image File" format="png,svg,jpg,jpeg" help="Supported formats: png, jpg, svg. If image is scaled by choice of width, zoom-on-mousover effect is added."/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	287 <param name="zoomlevel" type="integer" min="0" max="5000" value="250" label="Width (in pixels)" help="enter 0 to keep original size" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	288 <param name="zoomenable" type="boolean" checked="True" truevalue="Y" falsevalue="N" label="Enable zoom-on-mouseover effect?" help="If checked and nonzero width, zoom-on-mousover effect added"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	289 <param name="align" type="select" label="Alignment of image (float)" help="Use left or right align to have images and text next to each other. Always specify image first (with alignment), then text, if you want to show them side by side." >
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	290 <option value="none" > default (recommended) </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	291 <option value="left" > left </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	292 <option value="right" > right </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	293 <option value="middle"> center </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	294 <!--<option value="top"> top </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	295 <option value="bottom"> bottom </option>-->
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	296 </param>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	297 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	298 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	299
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	300 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	301 # Table #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	302 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	303 <when value="table">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	304 <param name="item" type="data" label="Table File" help="must be a tab-delimited file with a 1-line header" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	305 <param name="fancy" type="boolean" checked="True" truevalue="Y" falsevalue="N" label="Fancy table)?" help="If selected, will create, sortable, searchable, paginated table. Otherwise not (for small tables)"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	306 <param name="minw" type="integer" value="0" label="Minimum width of table (in pixels)" help="only needed when tables are not displaying correctly"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	307 <param name="minh" type="integer" value="0" label="Minimum height of table (in pixels)" help="only needed when tables are not displaying correctly"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	308 <conditional name="collink">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	309 <param name="columnhyperlink" type="select" label="create url links from one of the columns in your table?" help="For example: from column with gene names, link to genecards page">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	310 <option value="N"> No </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	311 <option value="Y"> Yes </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	312 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	313 <when value="Y">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	314 <param name="urlcol" type="data_column" data_ref="item" multiple="False" label="Column to turn in to weblinks" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	315 <param name="urlprefix" type="text" size="75" label="URL prefix" help="this will be placed before value in column to form the weblink. e.g. for genecards use: http://www.genecards.org/cgi-bin/carddisp.pl?gene=">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	316 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	317 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	318 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	319 <remove value="&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	320 <remove value=":"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	321 <remove value="/"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	322 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	323 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	324 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	325 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	326 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	327 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	328 <add source="&" target="==amp=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	329 <add source=":" target="==colon=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	330 <add source="/" target="//"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	331 <add source=" " target=""/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	332 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	333 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	334 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	335 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	336 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	337 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	338 <param name="urlsuffix" type="text" size="75" label="URL suffix" help="this will be placed before value in column to form the weblink. e.g. For genecards, there is no suffix">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	339 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	340 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	341 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	342 <remove value="&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	343 <remove value="/"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	344 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	345 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	346 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	347 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	348 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	349 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	350 <add source="&" target="&&"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	351 <add source="/" target="//"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	352 <add source=" " target=""/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	353 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	354 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	355 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	356 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	357 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	358 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	359 <param name="urlitems" type="data" label="(Not yet implemented) Archive with files to link to" optional="true" help="Optional. Only if you want to link column entries to local files instead of websites" format="data,tar.gz,zip,gz,bz2,tar"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	360 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	361 </conditional>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	362 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	363 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	364
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	365 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	366 # PDF File #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	367 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	368 <when value="pdf">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	369 <param name="item" type="data" label="PDF File" format="pdf"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	370 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	371 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	372
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	373 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	374 # Links #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	375 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	376 <when value="link">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	377 <param name="item" type="data" label="File to link to" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	378 <param name="item2" type="text" size="100" label="link text" help="text to display as a link"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	379 <param name="ireport" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="is the link another iReport?"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	380 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	381 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	382
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	383 <when value="links">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	384 <param name="item" type="data" label="Archive with files to link to" help="links will be created to each file in the archive. Supported formats: zip, gz, tar, bz2"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	385 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	386 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	387
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	388 <when value="weblink">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	389 <param name="item" type="text" size="100" label="web location to link to " help="url to link to">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	390 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	391 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	392 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	393 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	394 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	395 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	396 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	397 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	398 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	399 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	400 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	401 <add source=" " target=""/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	402 <add source="<" target="&#60;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	403 <add source=">" target="&#62;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	404 <add source=" " target="&#32;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	405 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	406 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	407 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	408 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	409 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	410 <param name="item2" type="text" size="100" label="link text" help="text to display as a link. If left empty, url itself will be the link text">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	411 <sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	412 <valid initial="default">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	413 <add preset="string.printable"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	414 <remove value="<"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	415 <remove value=">"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	416 <remove value="~"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	417 <remove value=" "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	418 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	419 <remove value=")"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	420 </valid>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	421 <mapping initial="none">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	422 <add source="<" target="&#60;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	423 <add source=">" target="&#62;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	424 <add source="~" target="&#126;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	425 <add source=" " target="&#32;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	426 <add source=")" target="&#41;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	427 <add source="(" target="&#40;"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	428 </mapping>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	429 </sanitizer>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	430 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	431 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	432 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	433
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	434 <!--###########################
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	435 # Genome Browser #
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	436 ########################### -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	437 <when value="genomebrowser">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	438 <!-- TODO: hardcoded server location needed for dalliance to function correctly! Change as needed! -->
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	439
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	440 <param name="genomebuild" type="select" label="Select Genome build to be used for Genome Browser" help="A Bio-Dalliance genome browser will be embedded into your iReport ">
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	441 <option value="hg18" > hg18 </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	442 <option value="hg19" > hg19 </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	443 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	444 <param name="initialview" type="text" size="100" value="1:0-100000" label="Chromosomal location to view when Dalliance starts" help="format: chromosome:start-end, no chr-prefix "/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	445 <repeat name="gbtracks" title="Track" default="1" >
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	446 <param name="item" type="data" label="file to display" help="Supported formats: bam, vcf, bed"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	447 <param name="gbfiletype" type="select" label="Select type of file" >
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	448 <option value="vcfmemstore" > vcf </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	449 <option value="vcftabix" > vcf (large files) </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	450 <option value="bigbed" > bigBed </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	451 <option value="bedmemstore" > bed </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	452 <option value="bedtabix" > bed (large files)</option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	453 <option value="bam" > bam (very large files not recommended) </option>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	454 </param>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	455 <param name="tracklabel" type="text" size="100" value="mytrack" label="track label" help="give your track a name">
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	456 <sanitizer>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	457 <valid initial="default">
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	458 <add preset="string.printable"/>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	459 <remove value=" "/>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	460 <remove value="("/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	461 <remove value=")"/>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	462 </valid>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	463 <mapping initial="none">
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	464 <add source=" " target="==space=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	465 <add source=")" target="==bclose=="/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	466 <add source="(" target="==bopen=="/>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	467 </mapping>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	468 </sanitizer>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	469 </param>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	470 </repeat>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	471 <param name="break" type="boolean" checked="False" truevalue="Y" falsevalue="N" label="Insert break after item?" help="Insert a line break to force next item to appear below this one. If unchecked, the browser will decide layout" />
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	472 </when>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	473
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	474 </conditional>
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	475 </repeat>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	476 </repeat>
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	477
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	478
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	479
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	480 </inputs>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	481
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	482 <outputs>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	483 <data format="html" name="report" label="iReport: ${label}"/>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	484 </outputs>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	485
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	486 <help>
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	487 ============
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	488 iReport
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	489 ============
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	490
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	491 iReport is a tool for the easy creation of HTML reports from Galaxy datasets. Ideal to use as final step in a pipeline to display all results in a single, interactive report.
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	492
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	493
6 42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	494 What's new
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	495
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	496 - MarkDown support
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	497 - HTML content item type
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	498 - Link to download entire iReport on cover page
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	499
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	500
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	501
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	502 How to use
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	503
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	504 - Specify report title and cover image (url)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	505 - Add any number of named tabs
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	506 - Add content items to each tab
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	507
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	508 1. Text Field
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	509 2. Text File
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	510 3. PDF File
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	511 4. HTML File
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	512 5. Table
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	513 6. Image File
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	514 7. Links (URL/dataset)
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	515 8. Links to all files in an archive dataset
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	516
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	517 Example History
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	518
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	519 http://galaxy-demo.trait-ctmm.cloudlet.sara.nl/u/saskia-hiltemann/h/gcc2014-ireport-about-ireport
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	520
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	521
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	522
42076db43d42 Fixed auto resizing plus various other minor bugs saskia-hiltemann parents: 5 diff changeset	523
0 ac5f9272033b first upload saskia-hiltemann parents: diff changeset	524 </help>
ac5f9272033b first upload saskia-hiltemann parents: diff changeset	525 </tool>

Mercurial > repos > saskia-hiltemann > ireport

annotate iReport.xml @ 6:42076db43d42 draft