I have generated cdt file via Broad Institute's GenePattern, and I was able to open it via their Java Treeview module. However, when I try to open the file via the standalone Java Treeview version 1.1.6r2, I was faced with error message (see below). So thinking it might be potentially problems with files generated by GenePattern, I downloaded sample file from the JVT website, and I was still not able to open the dendrograms. See error message below.
Please advise! I am running it on a Mac OS X 10.6 with the latest java installed.
oading /Users/neuy924/Documents/Dataset/spellman.cdt.cdt …
Finding Cdt Dimensions
loading Array Annotations
loading Gene Annotations
Parsing strings into doubles…
error parsing ATR: LoadException 1: Url /Users/neuy924/Documents/Dataset/spellman.cdt.atr could not be opened: no protocol: /Users/neuy924/Documents/Dataset/spellman.cdt.atr
ignoring array tree.
error parsing GTR: LoadException 1: Url /Users/neuy924/Documents/Dataset/spellman.cdt.gtr could not be opened: no protocol: /Users/neuy924/Documents/Dataset/spellman.cdt.gtr
ignoring gene tree.
parsing jtv config file
Hi have you tried with the new 1.1.6r4 ver? I managed to open all the example files on the website with 1.1.6r4.