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[ Ticket #1163 ] bioLegato - Long filenames in file chooser
Date:
11/29/11 12:17
Submitted by:
B_Fristensky 		Assigned to:
Alvare
Category:
bioLegato 		Priority:
4
Ticket group:
Bug 		Resolution:
Not Resolved
Summary:
bioLegato - Long filenames in file chooser
Original submission:
When reading in a User-defined tree with DNAML,
files with long names apparently give a File not found error
in the terminal window, and blank output windows pop up.
This seems to be caused by an error in creating the tmp
file name. If the file name is something like LONGFILENAME,
then the tmp file will be something like

bio4857347LONGFILENAME88774.tmp

(The above is from memory - I have to check exactly
what it looks like.)

For now the workaround is to use shorter names for your treefiles.

This needs a bit more experimentation to find out what
will break the file chooser, and what
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Followups
Comment Date By
Graham discovered that because of the way bioLegato0.7.7a parses file names, any filename containing the string 'in1' would have a random number added to the name, resulting in the file not found error.

This problem only affects bioLegato 0.7.7a, and not later versions, which use the PCD parsing scheme.

A fix would be a lot of work right now, and since the PCD version will be used in the next release, we will mark this as a "documented bug". It will not be fixed. 		03/31/12 09:45 B_Fristensky
Sample files illustrating the problem can be found in
/home/psgendb/BIRCHDEV/temp/as3-biolegato-error.

Test: bldna
File --> Open gamglobin1-350.fsa
Phylogeny --> DNAML
Evaluate User-defined Tree: gamglobin1_350_dnapars_boot.treefile
Output windows are empty

Rerun using
Evaluate User-defined Tree: pars.treefile

This is the same file with a different name.
Now, dnaml runns correctly.


Probably best to worry about this after we have made the transition to PCD. 		12/28/11 16:00 B_Fristensky
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Ticket change history
Field Old value Date By
status_id Open 03/31/12 09:45 B_Fristensky
assigned_to unset 03/31/12 09:45 B_Fristensky
close_date 12/31/69 19:00 03/31/12 09:45 B_Fristensky
status_id Pending 11/29/11 12:17 B_Fristensky
priority 5 11/29/11 12:17 B_Fristensky
resolution_id Unset 11/29/11 12:17 B_Fristensky

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