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Old 11-25-2009, 09:31 AM   #1
Location: Brisbane

Join Date: Nov 2008
Posts: 51
Default AllPaths 2

hello all,

i'm looking for a good denovo assembler for solexa data. Currently I am attempting to get AllPaths2 running. I have compiled it and set up my data according to the manual. However when i run allpaths i get tje following error

Fatal error (pid=7368) at Wed Nov 25 17:18:44 2009:
I was hoping that /GFM4_data/ploidy was a regular file, but apparently it isn't. Perhaps it doesn't exist at all.

the ploidy file does infact exist and contains 1 number.
So Before I totally give up on AllPaths has anybody encountered this problem and if so have they resolved it.


coldturkey is offline   Reply With Quote
Old 06-27-2010, 05:08 AM   #2
Location: uk

Join Date: Jun 2010
Posts: 38
Default Allpaths2

Hi coldturkey
I am also trying to run allpaths and got the same problem that says ploidy file was a regular file and but apparently it isn't. Perhaps it doesn't exist at all.

Hope you have solved this problem. Please tell me how to solve this. Currently i am running different assembler and i find this allpaths is most difficult.
Himalaya is offline   Reply With Quote

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