--name option ignored when using -nolambda option (running macs14 on Ubuntu12.10) about macs HOT 3 CLOSED

Hi Sebastien,

You have to use '--nolambda' instead. Two dashes. It is the same for all other linux command using standard option parser. Here is a little background: It's the same to say '-a0.5' and '-a 0.5' since 0.5 will be assigned to -a option. So when you write '-nolambda', 'olambda' will be assigned to '-n' option.

Hope it helps,
Tao Liu

Assistant Professor
Department of Biochemistry
University at Buffalo
NY State Center of Excellence in Bioinformatics & Life Sciences

B2-163 COEBLS
(O) 716-829-2749
[email protected]

Mailing address:
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On Mar 15, 2013, at 11:37 AM, svigneau [email protected] wrote:

Hi,

If I run "macs14 -t treatment_file_name.bed -c control_file_name.bed -f BED -n result_name_prefix -g mm -s 50 -m 10,30 --bw 180 -p 1e-4", the results files have, as expected, "result_name_prefix" as their prefix.

However, if I run the same command with the -nolambda option, the -n option is ignored and "olambda" is used instead.

This behavior is particularly annoying when running scripts with multiple combinations of input files, since each output will erase the previous one. Is there any way around in MACS (i.e. without rewriting the script launching MACS)?

Best,

Sébastien

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from macs.

Thank you very much for your quick answer and yes, this was a pretty stupid mistake on my side.

Best,

Sébastien

from macs.

By the way, there is no stupid question. You are welcome!

from macs.