Thanks Judith.<br><br>there was a space in the first line instead of a space <embarrassed smile>. Fixed that and it works!<br><br>-james<br><br><br><div class="gmail_quote">On Fri, Apr 25, 2008 at 3:32 PM, Judith Cohn <<a href="mailto:jcohn@lanl.gov">jcohn@lanl.gov</a>> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"><div style="">
Hi, <div><br></div><div>I am using Jalview 2.3 (though the about option says 6.1). I do the same thing. I load a .aln file (from clustalw) then from the alignment window in Jalview I choose Load Features/Annotations and it works. An example of the beginning of a features file (which I create automatically in a Java program):</div>
<div><br></div><div><font face="'Courier New'">dpa1</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">111111</font><br><font face="'Courier New'">d1gv1a1_O</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">d1gv1a1</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">-1</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">6</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">6</font><span style="white-space: pre;"><font face="'Courier New'"> </font></span><font face="'Courier New'">dpa1</font><br>
<br>The main difference I see in my file versus yours (at least as included in the email) is that I used tabs and your snippet appears to have spaces between columns.<br>Note: I use the numeric designation of a color so that I can get gradations of the same color.<br>
<br>Judith</div><div><br></div><div><br><div><div><div></div><div class="Wj3C7c">On Apr 25, 2008, at 12:09 PM, James Wasmuth wrote:<br></div></div><blockquote type="cite"><div><div></div><div class="Wj3C7c">Hi All,<br><br>
I wish to use an annotation file to decorate my alignment. I created a dummy file (below) and used File->Load Features/Annotations. The file is called features.txt.<br><br>I am greated with an error box saying that jalview,<br>
"Couldn't load file /tmp/features.txt<br>Formats currently supported are <br>Fasta, MSF, Clustal, BLC, PIR, MSP and Pfam"<br><br>Can someone enlighten me as to how I can load in my file? The alignment is displayed when I try this.<br>
<br>many thanks<br>-james<br><br>>less features.txt<br>tash red<br><br>tash_domain Tp_2992.1 -1 263 281 tash<br><br></div></div><div>_______________________________________________</div><div>Jalview-discuss mailing list</div>
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--------------------</div><div><br></div><div>Judith Cohn, Ph.D.</div><div>Information Science (CCS-3)</div><div>Mail Stop B256</div><div>Los Alamos National Lab</div><div>Los Alamos, NM 87545</div><div>phone: 505-665-0999</div>
<div>email: <a href="mailto:jcohn@lanl.gov" target="_blank">jcohn@lanl.gov</a></div><div><br></div><div><br></div><br></span></span></span></span> </div><br></div></blockquote></div><br>