[maker-devel] MAKER run error -with blast

[Carson Holt]

Make sure you are not setting TMP= in the maker_opts.ctl file to an NFS
mounted location.  Also check your /tmp directory to see if it is full or
nearly full (it will be mounted on a different drive than your working
directory). Also if it is being caused by slow NFS response you can set
clean_try=1 and it will do complete retry on the contig rather than trying
to recover partial files.

--Carson


From:  Sivaranjani Namasivayam <ranjani at uga.edu>
Date:  Tuesday, August 26, 2014 at 8:53 AM
To:  "maker-devel at yandell-lab.org" <maker-devel at yandell-lab.org>
Subject:  [maker-devel] MAKER run error -with blast

Hi,



I have been using MAKER for a while and its been running fine. Recently I am
encountering an error (attaching the error from the error log file -
error1.txt).



As input I am providing the fasta file of a scaffold, a transcriptome
dataset(in gff) and a protein dataset (as fasta). These kind of input files
have run successfully in the past.

The file that is reported as 'No such file or directory at' in the error
ouptut changes in different runs.



To make sure I wasn't doing something wrong, I reran a dataset that had run
successfully before, but I get an error with that too. (error log attached
as error2.txt).

The only difference in this run, previously I ran it for the entire genome,
and now I am testing it on just one scaffold.



Would you have any idea of why this might be happening?



Thanks,

Ranjani




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