[mira_talk] Re: Assembly
- From: Sharmista Saha <sharmistasaha@xxxxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 23 Sep 2009 09:50:46 +0530
Respected Sir,
I cited the manual, because, that is what I followed. I also wanted to bring
your attention to the concern, that instead of running everything in one
line (the command) still, I am unable to get any result to explicitly say,
that I ran everything in the manner as guided, and the log file creating is
writing me with this error, I tried couple of times, so was pretty purplexed
to screen out where my fault remains.
if you can guide me from this error, where should I go and look in details
and modify, I will be grateful to you. As I am still held in the same
position yet now. Looking forward to hear from you soon with patience .
Thanks a lot,
for your time and response,
Sharmistha
On Wed, Sep 23, 2009 at 2:51 AM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> > Von: Sharmista Saha
> > [...]
> > The following is an example of what I use when mapping onto
> > a reference sequence in GenBank format:
> > arcadia:/path/to/myProject> mira
> > --project=bchocse --job=mapping,genome,accurate,solexa
> > -AS:nop=1
> > -SB:lsd=yes:bsn=bchoc_wt:bft=gbf:bbq=30
> > >&log_assembly.txt }
> >
> > Logfile what i got is as follows:
> > bash: --project=bchocse: command not found
>
> As a side note: this is not the log file, that's the error you get on the
> command line. The log file would be the file called "log_assembly.txt"
>
> > Soplease now can you guide me where exactly I am wrong?
> > I am quitecurious to know, as I am excited to use your tool to assemble
> my seqs.
>
> You cited almost the complete section of the manual, but stopped one line
> short of the response to your question. The very next line in the manual
> says:
>
> "Note 1: the above command has been splitted in multiple lines for better
> overview but should be entered in one line."
>
> Does this help you? :-)
>
> Regards,
> Bastien
>
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