GIREMI troubleshooting

[ghost]

I tried to use GIREMI for RNA-editing detection. Unfortunately, the ifRNAE column is not printed to the output file. The reason is probably that the main executable can't locate and open the giremi.r script as indicated in the output.Rout file:

Fatal error: cannot open file 'giremi.r': No such file or directory

The R script is found, of course, within the same directory as the giremi executable.
I'll appreciate your help in understanding what can cause this sort of problem and how to fix it.

Additionally, while running a massage reads "error: repeat snv" is printed numerous times to the screen. What is the cause to this error?

Best,
Adar

[zhqingit]

Hi Adar,

For the "error: repeat snv", I think your SNV list file includes the repeat
SNV, which some times cause the results wired. So please remove them. For
the issue "can't open giremi.r", I wonder if you can re-download the
giremi.r and re-run it.

Best,
Qing

2016-05-31 22:21 GMT-07:00 adarmaxomov notifications@github.com:

I tried to use GIREMI for RNA-editing detection. Unfortunately, the ifRNAE
column is not printed to the output file. The reason is probably that the
main executable can't locate and open the giremi.r script as indicated in
the output.Rout file:

Fatal error: cannot open file 'giremi.r': No such file or directory

The R script is found, of course, within the same directory as the giremi
executable.
I'll appreciate your help in understanding what can cause this sort of
problem and how to fix it.

Additionally, while running a massage reads "error: repeat snv" is printed
numerous times to the screen. What is the cause to this error?

Best,
Adar

—
You are receiving this because you are subscribed to this thread.
Reply to this email directly, view it on GitHub
#18, or mute the thread
https://github.com/notifications/unsubscribe/ALL2zV5ZJnA_k7R2yj2IhTUtLYAC_Z4Eks5qHRbMgaJpZM4IrMe8
.

[mt831]

Hi,
I also get the output Rout file:
Fatal error: cannot open file 'giremi.r': No such file or directory

And I try to re-download the giremi.r and re-run it. But it doesn't help. Are there any other solutions?

Thanks,
Ting