[mira_talk] Reassembly contigs in MIRA
- From: suganthi appalasamy <sueasmy1986@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Fri, 4 Jul 2014 11:57:28 +0800
Hi,
*I have assembled my transcriptome **r**eads with Velvet (Oases). i have
few libraries of assembled contigs which i wish to reassemble all of them
using MIRA. Can this be done? *
*i tried and i found this error message in my log. *
Looking for files named in data ...Data
'/media/data2/dell2/home/su/bin/Project__C1B1/Sample_lane3/C1B1_VELVET/_77/transcript_77.fa'
was not found (neithe$
Data
'/media/data2/dell2/home/su/bin/Project_C1B1/Sample_lane3/C1B1_VELVET/_79/trancript_79.fa'
was not found (neither as file nor as directory) or led to a read error
Fatal error (may be due to problems of the input data or parameters):
********************************************************************************
* Some 'data' entries named in the manifest file could not be verified, see
*
* the log above.
*
* Maybe some files are missing, not readable or there is a typo in the
*
* manifest file?
*
********************************************************************************
->Thrown: void Manifest::loadManifestFile(string & mfilename)
*My manifest.conf looks like this*
projectname = C1B1
job = genome,denovo,accurate
parameters = -GE:not=4 \ COMMON_SETTINGS -NW:cmrnl=no \ -OUT:ora=on
-OUT:rtd=no -OUT:rrot=no \ SOLEXA_SETTINGS -CL:pec=on
readgroup = unpaireddata
data =
/media/data2/dell2/home/su/bin/Project_C1B1/Sample_lane3/C1B1_VELVET/_77/transcript_77.fa
/media/data2/dell2/home/su/bin/Project_C1B1/Sample_lane3/C1B1_VELVET/_79/transcript_79.fa
technology = solexa
template_size = 100 100000 autorefine
*Thank you!!*
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