AllPaths 2

coldturkey

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Join Date: Nov 2008

Posts: 51
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#1

AllPaths 2

11-25-2009, 09:31 AM

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.

regards

Brian
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Himalaya

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Join Date: Jun 2010

Posts: 38
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#2

06-27-2010, 04:08 AM

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.
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