Hi.. I managed to figure it out.. had to shut down jalview and restart the computer and then the colour worked again..
Now I am waiting on the sequences to align.. has said "queuing" for the last hour or so on 3 separate sets of sequences.. I had this same problem last week and it turned out there was a problem with the server or something? they did eventually finish (5 hours later).. hoping it doesnt take that long today... ________________________________ From: Jim Procter [[email protected]] on behalf of Jim Procter [[email protected]] Sent: February 7, 2012 9:21 AM To: Jessie Richer Cc: [email protected] Subject: Re: [Jalview-discuss] help Hello Jessie On 07/02/2012 13:11, Jessie Richer wrote: I need help fixing and/or diagnosing this problem: My colour for percentage identity isnt working! I aligned the sequences using CLustal with defaults.. then clicked on colour and percentage identity but no colour shows up and there should be considering this set of sequences have 3 T in a row across all 7 sequences. The little circle is beside percentage identity but no colour appears.. I need help as soon as possible please! Could you please send me a copy of your alignment and let me know which version of Jalview you are using ? (you can see it in the dialog that pops up when you select Help->About). Jim. ps. if you are using a web site to align your sequences, and your sequences are all in lower case (ie 't' not 'T'), then try selecting all the seqeunces, right clicking and following the 'Edit' submenu to select the 'To Upper case' option. This might be the cause...
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