Off by 1 in twobittofa

[GoogleCodeExporter]

1) What operating system are you using?
Debian

2) What error message was displayed?
Wrong fasta file generated from twobittofa
The first nt is missing.

3) What was the exact command you used that resulted in the error?

twobittofa(chrm='all',start=NULL,end=NULL,'/scratch/dryrun/cre5.2bit',gcSeq=NULL
, outdir='/scratch/dryrun/')

4) Please copy and paste any additional screen output that resulted from
running the command

Line 16 of twobittofa should have the 2nd parameter as
"as.integer(0)" rather than "as.integer(1)"

Line16:
.C("twoBitToFa",as.character(info[i,1]),as.integer(0),as.integer(info[i,2]),as.c
haracter(twoBitFile),as.character(paste(outdir, info[i,1], ".fa", 
sep="")),PACKAGE="zinba")

Original issue reported on code.google.com by CHW...@lbl.gov on 9 May 2012 at 1:00

[GoogleCodeExporter]

Thank you for bringing this to our attention.  I have contacted the other 
developer to verify this issue and to potentially issue a fix. 

Original comment by homer...@gmail.com on 28 May 2012 at 6:43

[GoogleCodeExporter]

Original comment by homer...@gmail.com on 30 May 2012 at 4:34

• Changed state: Accepted

[GoogleCodeExporter]

we are currently incorporating these issues into a new zinba version, check 
back soon for a comprehensive update

Original comment by homer...@gmail.com on 20 Nov 2012 at 8:54

• Changed state: Verified