Session files - Revision history

Thomas Admin: /* Body */

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Example session file

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Example session file

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Example session file

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Example session file

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Hiding the session URL

@@ Line 37: / Line 37: @@
 |Key=value definition of a single configuration option. This is suited to override a few config options as needed.
 |-
-|ALIAS	[primary name]=[display name].
+|ALIAS	[identifier]=[display name].
-|Add an additional synonym for an Entry (chromosome). This can be useful if your data has different identifiers for the same sequence in different files. The primary name will be used to connect the data types. Multiple primary names can point to the display name, in that case you can use the aliases to connect multiple different IDs.
+|Add an additional synonym for an Entry (chromosome). This can be useful if your data has different identifiers for the same sequence in different files. Multiple identifiers names can point to the same display name, in that case the data from all those identifiers will be projected onto a single entry.
 |-
 |LOCATION

@@ Line 56: / Line 56: @@
   DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/annotation.gff
   DATA:http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/operon.gff
 ===Example session file===
@@ Line 76: / Line 72: @@
 == Starting a session with a launch URL ==
 The basic set-up to start GenomeView with a [[session file]] is
   <nowiki>http://genomeview.org/start/launch.jnlp?--session <URL to the session file></nowiki>

@@ Line 32: / Line 32: @@
 |-
 |PREFIX
-|URL or local file path prefix. The value of this instructions will be prepended to any DATA or CONFIG pairs that follow this instruction. A PREFIX values is only valid for subsequent DATA and CONFIG pairs. This can to simplify loading many files from multiple locations. To reset the PREFIX, you can use an empty value.
+|URL or local file path prefix. The value of this instructions will be prepended to any DATA, PLUGIN or CONFIG pairs that follow this instruction. A PREFIX values is only valid for subsequent DATA, PLUGIN and CONFIG pairs. This can to simplify loading many files from multiple locations. To reset the PREFIX, you can use an empty value. You can use multiple PREFIX instructions through-out the session, they will each be valid for the following DATA, PLUGIN and CONFIG instructions, until reset with an alternative value.
 |-
 |OPTION

@@ Line 67: / Line 67: @@
   ALIAS MT_H37RV_V2=MyTBGenome
   DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/MT_H37RV_V2.fasta
-  DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/annotation.gff
+  PREFIX http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/
-  DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/operon.gff
+ DATA annotation.gff
-  DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/sRNA.gff
+  DATA operon.gff
-  DATA http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/rRNA.gff
+  DATA sRNA.gff
   PLUGIN http://www.broadinstitute.org/software/genomeview/resources/save2pdf-1.1.zip

@@ Line 37: / Line 37: @@
 |Key=value definition of a single configuration option. This is suited to override a few config options as needed.
 |-
-|ALIAS	[primary name]=[alternative name].
+|ALIAS	[primary name]=[display name].
-|Add an additional synonym for an Entry (chromosome). This can be useful if your data has different identifiers for the same sequence in different files. The primary name will be used to connect the data types.
+|Add an additional synonym for an Entry (chromosome). This can be useful if your data has different identifiers for the same sequence in different files. The primary name will be used to connect the data types. Multiple primary names can point to the display name, in that case you can use the aliases to connect multiple different IDs.
 |-
 |LOCATION

@@ Line 84: / Line 84: @@
 Typically you don't even have to expose this URL and you can use a simple PHP script index.php that redirects to that location.
 For example:
-<pre>
+ <nowiki>header("Location: http://genomeview.org/start/launch.jnlp?--session http://www.broadinstitute.org/software/genomeview/genomes/mtb_h37rv_v2/session.php");</nowiki>